UNITED STATES
                       SECURITIES AND EXCHANGE COMMISSION
                              Washington, DC  20549


                                    FORM 10-Q


                                   (MARK ONE)

           [X] QUARTERLY REPORT PURSUANT TO SECTION 13 OR 15(D) OF THE

                         SECURITIES EXCHANGE ACT OF 1934


               For the quarterly period ended: SEPTEMBER 30, 2002

                                       OR


          [ ] TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(D) OF THE

                         SECURITIES EXCHANGE ACT OF 1934


               For the transition period from _______ to ________

                        Commission File Number:  0-30235


                                 EXELIXIS, INC.
             (Exact name of registrant as specified in its charter)

                   http://www.exelixis.com/discovery/investors
                   -------------------------------------------

                 Delaware                           04-3257395
     (State or other jurisdiction of            (I.R.S.  Employer
     incorporation  or  organization)        Identification  Number)

                                 170 Harbor Way
                                  P.O. Box 511
                          South San Francisco, CA 94083
          (Address of principal executive offices, including zip code)
                                  (650) 837-7000
              (Registrant's telephone number, including area code)

Indicate by check mark whether the registrant (1) has filed all reports required
to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during
the  preceding  12  months  (or  for such shorter period that the registrant was
required  to  file  such  reports),  and  (2)  has  been  subject to such filing
requirements  for  the  past  90  days:

               Yes  [X]                       No  [  ]

As  of October 31, 2002, there were 57,439,755 shares of the registrant's common
stock  outstanding.


                                 EXELIXIS, INC.

                                    FORM 10-Q

                                      INDEX

                         PART I.   FINANCIAL INFORMATION

                                                                       Page No.
Item  1.  Financial  Statements

          Consolidated  Condensed  Balance  Sheets
          September  30,  2002  and  December  31,  2001                      3

          Consolidated  Condensed  Statements  of  Operations
          Three  and  Nine  Months  Ended  September  30,  2002  and  2001    4

          Consolidated  Condensed  Statements  of  Cash  Flows
          Nine  Months  Ended  September  30,  2002  and  2001                5

          Notes  to  Consolidated  Condensed  Financial  Statements           6

Item  2.  Management's  Discussion  and  Analysis  of
          Financial  Condition  and  Results  of  Operations                 13

Item  3.  Quantitative  and  Qualitative  Disclosures  About
          Market  Risk                                                       23

Item  4.  Controls  and  Procedures                                          24


                           PART II. OTHER INFORMATION

Item  2.  Changes  in  Securities  and  Use  of  Proceeds                    24

Item  5.  Other  Information                                                 24

Item  6.  Exhibits  and  Reports  on  Form  8-K                              36


                                    SIGNATURE


                                 CERTIFICATIONS


                         PART I.  FINANCIAL INFORMATION

ITEM  1.  FINANCIAL  STATEMENTS




                                             EXELIXIS, INC.
                                  CONSOLIDATED CONDENSED BALANCE SHEETS
                                             (in thousands)


                                                                          September 30,    December 31,
                                                                              2002           2001 (1)
                                                                         ---------------  --------------
                                                                                    
ASSETS                                                                     (unaudited)
Current assets:
  Cash and cash equivalents                                              $       29,336   $      35,584
  Short-term investments                                                        124,891         192,116
  Other receivables                                                               3,618           4,026
  Other current assets                                                            4,295           2,873
                                                                         ---------------  --------------
    Total current assets                                                        162,140         234,599

Restricted cash                                                                   4,907               -
Property and equipment, net                                                      34,279          36,500
Related party receivables                                                           969             937
Goodwill                                                                         67,364          62,357
Other intangibles, net                                                            4,968           7,126
Other assets                                                                      4,678           5,095
                                                                         ---------------  --------------
    Total assets                                                         $      279,305   $     346,614
                                                                         ===============  ==============

LIABILITIES AND STOCKHOLDERS' EQUITY
Current liabilities:
  Accounts payable and accrued expenses                                  $        8,390   $      10,837
  Accrued benefits                                                                4,708           5,000
  Obligation assumed to exit certain activities of Genomica Corporation             907           2,919
  Accrued merger and acquisition costs                                               60           2,217
  Current portion of capital lease obligations                                    6,756           5,947
  Current portion of notes payable and bank obligations                           1,722           1,200
  Deferred revenue                                                                9,923          12,237
                                                                         ---------------  --------------
    Total current liabilities                                                    32,466          40,357

Capital lease obligations                                                         8,020          11,144
Notes payable and bank obligations                                                3,346             652
Convertible promissory note                                                      30,000          30,000
Acquisition liability                                                                 -           6,871
Other long-term liabilities                                                          36               -
Deferred revenue                                                                 17,285          20,370
                                                                         ---------------  --------------
    Total liabilities                                                            91,153         109,394
                                                                         ---------------  --------------

Commitments

Stockholders' equity:
  Preferred stock                                                                     -               -
  Common stock                                                                       58              56
  Additional paid-in-capital                                                    456,444         444,229
  Notes receivable from stockholders                                             (1,364)         (2,205)
  Deferred stock compensation, net                                               (1,592)         (4,137)
  Accumulated other comprehensive income                                          1,097             501
  Accumulated deficit                                                          (266,491)       (201,224)
                                                                         ---------------  --------------
    Total stockholders' equity                                                  188,152         237,220
                                                                         ---------------  --------------

    Total liabilities and stockholders' equity                           $      279,305   $     346,614
                                                                         ===============  ==============

<FN>

(1)  The  consolidated  condensed  balance  sheet  at  December  31,  2001  has  been  derived  from the
audited  financial  statement  at  that  date  but does not include all of the information and footnotes
required  by  generally  accepted  accounting  principles  for  complete  financial  statements.

The  accompanying  notes  are  an  integral  part  of these consolidated condensed financial statements.







                                                       EXELIXIS, INC.
                                      CONSOLIDATED CONDENSED STATEMENTS OF OPERATIONS
                                           (in thousands, except per share data)

                                                   Three Months Ended September 30,       Nine Months Ended September 30,
                                                 ------------------------------------  ------------------------------------
                                                        2002              2001                2002              2001
                                                -----------------  -----------------  -----------------  -----------------
                                                             (unaudited)                           (unaudited)
                                                                                              
Revenues:
  Contract and government grants                 $          8,449   $          9,212   $         25,268   $         23,649
  License                                                   1,981              2,716              6,601              4,564
                                                 -----------------  -----------------  -----------------  -----------------
    Total revenues                                         10,430             11,928             31,869             28,213
                                                 -----------------  -----------------  -----------------  -----------------

Operating expenses:
  Research and development (1)                             28,845             22,466             84,290             59,836
  Selling, general and administrative (2)                   4,395              5,361             13,962             14,597
  Acquired in-process research and development                  -                  -                  -              6,673
  Amortization of goodwill and intangibles                    166              1,397                499              3,673
                                                 -----------------  -----------------  -----------------  -----------------
    Total operating expenses                               33,406             29,224             98,751             84,779
                                                 -----------------  -----------------  -----------------  -----------------

Loss from operations                                      (22,976)           (17,296)           (66,882)           (56,566)

Other income (expense):
  Interest income and other, net                              757              1,617              4,956              5,109
  Interest expense                                           (724)              (811)            (2,090)            (1,460)
                                                 -----------------  -----------------  -----------------  -----------------
    Total other income (expense)                               33                806              2,866              3,649
                                                 -----------------  -----------------  -----------------  -----------------

Loss from continuing operations                           (22,943)           (16,490)           (64,016)           (52,917)

Loss from operations of discontinued segment-
  Genomica Corporation (including loss on
  sale of $795)                                                 -                  -             (1,251)                 -
                                                 -----------------  -----------------  -----------------  -----------------

Net loss                                         $        (22,943)  $        (16,490)  $        (65,267)  $        (52,917)
                                                 =================  =================  =================  =================

Loss per share from continuing operations        $          (0.41)  $          (0.35)  $          (1.14)  $          (1.15)

Loss per share from discontinued operations                     -                  -              (0.02)                 -
                                                 -----------------  -----------------  -----------------  -----------------

Net loss per share, basic and diluted            $          (0.41)  $          (0.35)  $          (1.16)  $          (1.15)
                                                 =================  =================  =================  =================

Shares used in computing basic and
  diluted loss per share amounts                           56,483             47,750             56,096             45,848
                                                 =================  =================  =================  =================
<FN>

(1) Includes stock compensation expense of $364 and $1,136 in the quarters ended September 30, 2002 and 2001, respectively,
and includes  stock compensation expense of $1,349 and $3,936 in the nine-month periods ended September 30, 2002 and 2001,
respectively.

(2)  Includes  stock compensation expense of $305 and $551 in the quarters ended September 30, 2002 and 2001, respectively,
and includes  stock  compensation  expense of $957 and $1,921 in the nine-month periods ended September 30, 2002 and 2001,
respectively.

The  accompanying  notes  are  an  integral  part  of  these  consolidated  condensed  financial  statements.





                                               EXELIXIS, INC.
                              CONSOLIDATED CONDENSED STATEMENTS OF CASH FLOWS
                                               (in thousands)

                                                                             Nine Months Ended September 30,
                                                                             -------------------------------
                                                                                 2002              2001
                                                                             --------------  ---------------
                                                                                       
Cash flows from operating activities:
  Net loss                                                                   $     (65,267)  $     (52,917)
  Adjustments to reconcile net loss to net cash
    used in operating activities:
      Loss from discontinued operations                                                795               -
      Depreciation and amortization                                                 10,176           7,135
      Stock compensation expense                                                     2,306           5,857
      Amortization of goodwill and other intangibles                                   499           3,673
      Acquired in-process research and development                                       -           6,673
    Changes in assets and liabilities:
      Other receivables                                                                302            (234)
      Other current assets                                                          (1,240)           (717)
      Related party receivables                                                        (32)           (474)
      Other assets                                                                    (278)         (2,731)
      Accounts payable and accrued expenses                                         (3,030)          4,038
      Obligation assumed to exit certain activities of Genomica Corporation         (2,069)              -
      Accrued merger and acquisition costs                                          (1,810)         (4,056)
      Deferred revenue                                                              (5,399)         20,441
                                                                             --------------  --------------

      Net cash used in operating activities                                        (65,047)        (13,312)
                                                                             --------------  --------------

Cash flows provided from investing activities:
  Purchases of property and equipment                                               (4,560)         (8,326)
  Change in restricted cash                                                         (4,907)              -
  Cash acquired in acquisition                                                           -           3,463
  Proceeds from maturities of short-term investments                               137,171         115,779
  Purchases of short-term investments                                              (69,843)       (111,562)
                                                                             --------------  --------------

      Net cash provided by (used in) investing activities                           57,861            (646)
                                                                             --------------  --------------

Cash flows from financing activities:
  Proceeds from exercise of stock options
   and warrants, net of repurchases                                                     68             384
  Proceeds from issuance of common stock                                                 -          10,000
  Proceeds from convertible note                                                         -          30,000
  Proceeds from employee stock purchase plan                                         1,423           1,198
  Repayment of notes from stockholders                                                 840             181
  Principal payments on capital lease obligations                                   (4,773)         (3,162)
  Proceeds from bank obligations                                                     4,441               -
  Principal payments on notes payable                                               (1,259)         (1,429)
                                                                             --------------  --------------

      Net cash provided by financing activities                                        740          37,172
                                                                             --------------  --------------

Effect of foreign exchange rates on cash and cash equivalents                          198              47
                                                                             --------------  --------------

Net increase (decrease) in cash and cash equivalents                                (6,248)         23,261
Cash and cash equivalents, at beginning of period                                   35,584          19,552
                                                                             --------------  --------------

Cash and cash equivalents, at end of period                                  $      29,336   $      42,813
                                                                             ==============  ==============
<FN>

The  accompanying  notes  are  an  integral  part  of  these  consolidated  condensed financial statements.


                                 EXELIXIS, INC.
              NOTES TO CONSOLIDATED CONDENSED FINANCIAL STATEMENTS
                               SEPTEMBER 30, 2002
                                   (UNAUDITED)

NOTE  1.   ORGANIZATION  AND  SUMMARY  OF  SIGNIFICANT  ACCOUNTING  POLICIES

Organization
- ------------

Exelixis,  Inc.  ("Exelixis"  or the "Company") is a biotechnology company whose
primary  mission  is to develop proprietary human therapeutics by leveraging its
integrated  discovery  platform to increase the speed, efficiency and quality of
pharmaceutical  product discovery and development.  The Company uses comparative
genomics  and  model  system  genetics  to  find  new drug targets that Exelixis
believes  would  be  difficult or impossible to uncover using other experimental
approaches.  The  Company's  research  is  designed  to identify novel genes and
proteins  expressed  by  those  genes  that,  when  changed,  either decrease or
increase  the  activity  in  a  specific  disease  pathway  in a therapeutically
relevant  manner.  These  genes  and proteins represent either potential product
targets  or  drugs  that  may  treat  disease  or  prevent disease initiation or
progression.  The  Company's  most  advanced  proprietary pharmaceutical program
focuses  on  drug discovery and development of small molecules in cancer.  While
the  Company's  proprietary  programs  focus  on drug discovery and development,
Exelixis  believes  that  its  proprietary  technologies  are  valuable to other
industries  whose  products  can  be  enhanced  by  an  understanding  of DNA or
proteins,  including  the  agrochemical, agricultural and diagnostic industries.

Basis  of  Presentation
- -----------------------

The accompanying unaudited consolidated condensed financial statements have been
prepared  by  the  Company  in  accordance  with accounting principles generally
accepted  in the United States for interim financial information and pursuant to
the instructions to Form 10-Q and Article 10 of Regulation S-X of the Securities
and  Exchange  Commission  ("SEC").  Accordingly, they do not include all of the
information  and  footnotes required by generally accepted accounting principles
for  complete  financial statements. In the opinion of the Company's management,
all  adjustments  (consisting  of  normal  recurring  adjustments)  considered
necessary  for a fair presentation have been included. Operating results for the
three-  and  nine-month  periods  ended  September  30, 2002 are not necessarily
indicative  of the results that may be expected for the year ending December 31,
2002,  or  for any future period. These financial statements and notes should be
read in conjunction with the consolidated financial statements and notes thereto
for  the year ended December 31, 2001 included in the Company's Annual Report on
Form  10-K.

Net  Loss  per  Share
- ---------------------

Basic  and  diluted net loss per share are computed by dividing the net loss for
the  period by the weighted average number of shares of common stock outstanding
during  the  period,  adjusted  for  shares  that are subject to repurchase. The
calculation  of  diluted  net  loss  per  share  excludes potential common stock
because  their effect is antidilutive. Potential common stock consists of shares
of  common  stock subject to repurchase, incremental common shares issuable upon
the  exercise  of  stock  options  and  warrants and common shares issuable upon
conversion  of  the  convertible  promissory  note.

Recent  Accounting  Pronouncements
- ----------------------------------

On  January  1,  2002,  the  Company  adopted  Statement of Financial Accounting
Standards ("SFAS") No. 142, "Goodwill and Other Intangible Assets" ("SFAS 142"),
which  addresses  the  financial accounting and reporting standards for goodwill
and  other  intangible  assets  subsequent to their acquisition. This accounting
standard  requires  that goodwill no longer be amortized, and instead, be tested
for  impairment  on  a  periodic  basis.

In  accordance  with  SFAS  142,  the  Company  discontinued the amortization of
goodwill  effective  January  1, 2002. In addition, the Company re-characterized
acquired  assembled  workforce as goodwill because it is no longer defined as an
acquired  intangible  asset  under  SFAS  No.  141,  "Business  Combinations".
Accordingly,  no  goodwill  or  acquired  workforce  amortization was recognized
during  the  nine-month  period ended September 30, 2002. The provisions of SFAS
142  also  require  the completion of a transitional impairment test within nine
months of adoption, with any impairment treated as a cumulative effect of change
in accounting principle. During the first quarter of 2002, the Company completed
the transitional impairment test, which did not result in impairment of recorded
goodwill.  The  Company  will continue to monitor the carrying value of goodwill
through  annual  impairment tests. For further discussion, see Note 5, "Goodwill
and  Other  Acquired  Intangibles".

A  reconciliation  of previously reported net loss and net loss per share to the
amounts  adjusted  for  the  exclusion  of  goodwill  and  assembled  workforce
amortization  follows  (in  thousands,  except  per  share  amounts):



                                                  Three Months Ended September 30,
                                                -----------------------------------
                                                       2002              2001
                                                ----------------  -----------------
                                                            
Reported net loss                               $       (22,943)  $        (16,490)
Add: Goodwill amortization                                    -              1,075
Assembled workforce amortization                              -                189
                                                ----------------  -----------------
Adjusted net loss                               $       (22,943)  $        (15,226)
                                                ================  =================

Net loss per share, basic and diluted           $         (0.41)  $          (0.35)
Add: Goodwill amortization                                    -               0.03
Assembled workforce amortization                              -                  -
                                                ----------------  -----------------
Adjusted net loss per share, basic and diluted  $         (0.41)  $          (0.32)
                                                ================  =================

                                                   Nine Months Ended September 30,
                                                -----------------------------------
                                                       2002              2001
                                                ----------------  -----------------
Reported net loss                               $       (65,267)  $        (52,917)
Add: Goodwill amortization                                    -              2,955
Assembled workforce amortization                              -                403
                                                ----------------  -----------------
Adjusted net loss                               $       (65,267)  $        (49,559)
                                                ================  =================

Net loss per share, basic and diluted           $         (1.16)  $          (1.15)
Add: Goodwill amortization                                    -               0.06
Assembled workforce amortization                              -               0.01
                                                ----------------  -----------------
Adjusted net loss per share, basic and diluted  $         (1.16)  $          (1.08)
                                                ================  =================


On  January  1,  2002,  the  Company  adopted  SFAS No. 144, "Accounting for the
Impairment  or Disposal of Long-Lived Assets" ("SFAS 144").  SFAS 144 supersedes
SFAS 121, "Accounting for the Impairment of Long-Lived Assets and for Long-Lived
Assets to Be Disposed Of" ("SFAS 121").  The primary objectives of SFAS 144 were
to  develop  one accounting model based on the framework established in SFAS 121
for  long-lived  assets  to  be  disposed of by sale, and to address significant
implementation  issues.  The adoption of SFAS 144 did not have a material impact
on  the  Company's  financial  position  or  results  of  operations.

In  June  2002,  the  Financial  Accounting  Standards  Board  issued  SFAS 146,
"Accounting for Costs Associated with Exit or Disposal Activities" ("SFAS 146"),
which  addresses  accounting  for  restructuring, discontinued operations, plant
closing,  or  other  exit  or disposal activity.  SFAS 146 requires companies to
recognize  costs  associated  with  exit  or  disposal  activities when they are
incurred  rather  than  at the date of a commitment to an exit or disposal plan.
SFAS 146 is to be applied prospectively to exit or disposal activities initiated
after  December  31,  2002, although earlier adoption is permitted.  The Company
expects  to  adopt  SFAS 146 in the fourth quarter of 2002.  The adoption is not
expected  to  have  a significant impact on the financial position or results of
operations  of  the  Company.

NOTE  2.  COMPREHENSIVE  INCOME  (LOSS)

Comprehensive  income  (loss)  is  comprised  of  net  income  (loss)  and other
comprehensive  income  (loss).  Other  comprehensive  income  (loss)  includes
unrealized  gains  and losses on available-for-sale securities, unrealized gains
and  losses  on  cash  flow  hedges  and  cumulative  translation  adjustments.
Comprehensive  income  (loss)  for  the  three-  and  nine-month  periods  ended
September  30,  2002  and  2001,  are  as  follows  (in  thousands):





                                                            Three Months Ended September 30,
                                                           -----------------------------------
                                                                  2002              2001
                                                           ----------------  -----------------
                                                                       
Net loss                                                   $       (22,943)  $        (16,490)
  Increase (decrease) in unrealized gains on
    available-for-sale securities                                    1,288                430
  Increase (decrease) in unrealized gains on
    cash flow hedges                                                  (125)                 -
 Increase (decrease) in cumulative translation adjustment              (80)               105
                                                           ----------------  -----------------
Comprehensive loss                                         $       (21,860)  $        (15,955)
                                                           ================  =================

                                                             Nine  Months Ended September 30,
                                                           -----------------------------------
                                                                  2002              2001
                                                           ----------------  -----------------
Net loss                                                   $       (65,267)  $        (52,917)
  Increase (decrease) in unrealized gains on
    available-for-sale securities                                      102                685
  Increase (decrease) in unrealized gains on
    cash flow hedges                                                   109                  -
 Increase (decrease) in cumulative translation adjustment              385                (81)
                                                           ----------------  -----------------
Comprehensive loss                                         $       (64,671)  $        (52,313)
                                                           ================  =================


The  components  of accumulated other comprehensive income (loss) are as follows
(in  thousands):




                                                   September 30,    December 31,
                                                        2002            2001
                                                   --------------  --------------
                                                             
Unrealized gains on available-for-sale securities  $          703  $         601
Unrealized gains on cash flow hedges                          109              -
Cumulative translation adjustment                             285           (100)
                                                   --------------  --------------
Accumulated other comprehensive income             $        1,097  $         501
                                                   ==============  ==============


NOTE  3.  GENOMICA  CORPORATION

In  December  2001,  in  connection with the acquisition of Genomica Corporation
("Genomica"), Exelixis adopted an exit plan for Genomica.  Under this exit plan,
the  Company  terminated  Genomica's  entire  workforce and abandoned its leased
facilities in Boulder, Colorado and Sacramento, California.  The estimated costs
of  the  exit  plan  amounted  to  $2.9 million and were included as part of the
liabilities  assumed  in  the  acquisition.

As  of September 30, 2002, the remaining actions to be taken under the exit plan
consisted primarily of residual payments related to the lease obligation for the
facility  in  Boulder,  Colorado,  which  are  expected  to  continue  until the
termination  of  the  lease  in  2005, unless the facility is subleased earlier.

The  activity  impacting  the  exit  plan  accrual  during the nine months ended
September  30,  2002, including changes in estimates made by management based on
available  information,  is  summarized  in  the  table  below  (in  thousands):



                         Balance at                      Change in        Assumed        Balance at
                        December 31,        Cash          Reserve            by        September 30,
                            2001          Payments        Estimate       Visualize          2002
                        -------------  --------------  --------------  --------------  --------------
                                                                        
Severance and benefits  $       1,216  $      (1,493)  $         277   $           -   $            -
Lease abandonment               1,703           (576)            (44)           (176)             907
                        -------------  --------------  --------------  --------------  --------------
   Total exit costs     $       2,919  $      (2,069)  $         233   $        (176)  $          907
                        =============  ==============  ==============  ==============  ==============


In April 2002, Exelixis transferred the Genomica software business to Visualize,
Inc.  ("Visualize")  for  future  consideration of up to $2.4 million in license
fees  and royalty payments.  Pursuant to the terms of the transaction, Visualize
obtained  a  license  with all rights and obligations to third parties currently
licensing the Genomica software, including the sole right to further develop and
license  the software to other third parties.  Royalties that Exelixis receives,
if  any,  will  be  recorded  in  the  period  they  are  earned  as a gain from
discontinued  operations.  In  addition,  Visualize assumed the lease obligation
for  the  Company's  abandoned  facility  in  Sacramento,  California.  Exelixis
retains  an  internal  use  license  for  the  software.  As  a  result  of this
transaction,  the  Company  reported  the  operating results of Genomica and the
estimated  loss  on  the  sale  of Genomica as discontinued operations.  For the
period  beginning  January  1,  2002  to  its disposal in April 2002, Genomica's
operating  results  consisted  of  revenues  of  approximately  $58,000  and  an
operating  loss  of  approximately  $456,000.  The  loss on the sale of Genomica
includes  the  write-off of goodwill of approximately $971,000, partially offset
by  the  reversal  of  Genomica's  lease  obligation for the Sacramento facility
assumed  by  Visualize  of  approximately  $176,000.


NOTE  4.  DERIVATIVE  FINANCIAL  INSTRUMENTS

The  Company manages exposures to the changes in foreign currency exchange rates
for its foreign operations through a program of risk management adopted in 2002,
that includes the use of derivative financial instruments.  The Company utilizes
derivative  financial  instruments  solely  to hedge identified exposures and by
policy  prohibits  the  use of derivative instruments for speculative or trading
purposes.  The  Company's  derivative financial instruments are recorded at fair
value  and  are  included  in  other  current  assets  or  accrued  expenses.

The  Company  enters into foreign currency exchange combination option contracts
denominated  in  European  Union Euro ("Euro") to minimize the effect of foreign
exchange  rate  movements on the cash flows related to the Company's payments to
one  of  its  German  subsidiaries  for services provided by the subsidiary. The
Company  has  designated these derivatives as foreign currency cash flow hedges.
The  effective  portion  of  the  gain  or  loss on the derivative instrument is
reported  as a separate component of other comprehensive income and reclassified
into  earnings  in  the  same period during which the hedged transaction impacts
earnings.  The  remaining gain or loss on the derivative instrument in excess of
the  cumulative  change  in  the  present  value of the future cash flows of the
hedged  item,  if  any,  is  recognized  in  other  income or expense in current
earnings  in  each  reporting  period.

During  the  three- and nine-month periods ended September 30, 2002, the Company
did  not  recognize  any  gain or loss related to the ineffective portion of the
hedging instruments and reclassified a gain of $112,000 from other comprehensive
income  into earnings under the caption, "Research and development expense."  As
of  September  30, 2002, the Company expects to reclassify $109,000 of net gains
on  derivative  instruments  from  accumulated  other  comprehensive  income  to
earnings  over the next 12 months as a result of the payment of foreign currency
to  its  German  subsidiaries.

NOTE  5.  GOODWILL  AND  OTHER  ACQUIRED  INTANGIBLES

Changes  in  the carrying amount of goodwill for the nine months ended September
30,  2002  are  as  follows  (in  thousands):

Balance as of December 31, 2001                              $62,357
Reclassification of intangible asset - assembled workforce     1,658
Exercise of Artemis call option                                4,042
Write-off of goodwill (Note 3)                                  (971)
Other                                                            278
                                                             --------
Balance as of September 30, 2002                             $67,364
                                                             ========

In connection with the Company's May 2001 acquisition of Artemis Pharmaceuticals
GmbH  ("Artemis"), Exelixis received a call option from, and issued a put option
to,  certain  stockholders  of Artemis for the issuance of approximately 460,000
shares  of  Exelixis  common  stock  in  exchange  for  the remaining 22% of the
outstanding  capital  stock  of Artemis held by the option holders.  In December
2001, Exelixis exercised its call option for the purchase of 131,674 shares.  In
January  2002,  Exelixis  exercised  its  call  option  for  the purchase of the
remaining  329,591  shares.  The  additional  purchase price for the exercise in
2002  was  recorded  as  an  increase to goodwill of approximately $4.0 million.

The  Company  performed an impairment test of goodwill as of January 1, 2002 and
concluded  no  impairment  charge  was  required.

The  Company  has  adopted  an  annual  goodwill  impairment test date as of the
beginning  of  the  fourth  quarter.  Following  this approach, the Company will
monitor  asset-carrying  values  as  of September 30, 2002, assess if there is a
potential  impairment  and  complete the measurement of impairment, if required.
Subsequent  to  September  30,  2002, the Company's common stock has traded at a
price  that represents a market capitalization that is less than its book value.
Should this condition persist for a significant portion of the fourth quarter of
2002,  or should the extent of the reduction in the market capitalization become
significant,  this condition may signify a potential impairment of the Company's
goodwill.  The  Company will perform the impairment measurement procedures under
SFAS  No.  142  if it determines that a potential impairment of goodwill exists,
which  may result in a fourth quarter charge for the impairment of goodwill.  As
of  September  30,  2002,  the  carrying  value  of  the  Company's goodwill was
approximately  $67.4  million.

The  components of the Company's other acquisition-related intangible assets are
as  follows  (in  thousands):



                                           At September 30, 2002
                         ---------------------------------------------------------
                             Gross Carrying        Accumulated
                                 Amount            Amortization          Net
                         ----------------------  ----------------  ---------------
                                                          
Developed technology     $                1,640  $          (442)  $         1,198
Patents/core technology                   4,269             (499)            3,770
                         ----------------------  ----------------  ---------------
   Total                 $                5,909  $          (941)  $         4,968
                         ======================  ================  ===============


                                           At December 31, 2002
                         ---------------------------------------------------------
                             Gross Carrying        Accumulated
                                 Amount            Amortization          Net
                         ----------------------  ----------------  ---------------
Developed technology     $                1,640  $          (156)  $         1,484
Patents/core technology                   4,269             (285)            3,984
Assembled workforce                       2,270             (612)            1,658
                         ----------------------  ----------------  ---------------
   Total                 $                8,179  $        (1,053)  $         7,126
                         ======================  ================  ===============


Amortization  expense related to the other acquisition-related intangible assets
for  the three- and nine-month periods ended September 30, 2002 was $166,000 and
$499,000,  respectively,  compared  to  $133,000 and $315,000 for the three- and
nine-month  periods  ended September 30, 2001, respectively. The expected future
annual  amortization  expense of the other acquisition-related intangible assets
is  as  follows  (in  thousands):



                                                        Amortization
Year Ending December 31,                                   Expense
- ------------------------------------------------------  -------------
                                                     
2002 ($166 remaining subsequent to September 30, 2002)  $         665
2003                                                              666
2004                                                              633
2005                                                              533
2006                                                              315
Thereafter                                                      2,655
                                                        -------------
  Total expected future amortization                    $       5,467
                                                        =============


NOTE  6.  COMMITMENTS

In  May 2002, the Company entered into a loan and security agreement with a bank
for an equipment line of credit of up to $16.0 million with a drawdown period of
one  year.  Each  draw on the line of credit has a payment term of 48 months and
bears interest at the bank's published prime rate (4.75% at September 30, 2002).
At September 30, 2002, approximately $4.2 million was outstanding under the line
of  credit and $11.8 million remained available on the line of credit.  Pursuant
to  the terms of the line of credit, the Company is required to maintain a first
priority security interest in the form of a deposit or securities account at the
bank equal to 110% of the outstanding obligation under the line of credit.  This
collateral account is managed in accordance with the Company's investment policy
and  is  restricted  as to withdrawal.  As of September 30, 2002, the collateral
account  had  a  cash  balance  of  approximately  $4.9  million and the Company
recorded  this  amount  in  the  balance  sheet  as  restricted  cash.

NOTE  7.  SUBSEQUENT  EVENTS

Collaboration  Agreement
- ------------------------

In October 2002, Exelixis and SmithKline Beecham Corporation ("GSK") established
an  alliance to discover and develop novel therapeutics in the areas of vascular
biology,  inflammatory  disease  and  oncology.  The  alliance  involved  three
agreements:  (a)  a  Product  Development and Commercialization Agreement; (b) a
Stock  Purchase  and  Stock  Issuance  Agreement;  and  (c)  a Loan and Security
Agreement.  Under  the  terms of the alliance, GSK has agreed to pay the Company
an  upfront  payment  of  $30.0  million  and  a  minimum  of  $90.0  million in
development funding over the initial six years of the alliance.  Exelixis issued
two  million  shares  of  its common stock to GSK for cash proceeds of $7.00 per
share,  which  represented a premium of approximately 100% to the stock price on
the  effective  date of the agreements.  The upfront fee and the premium portion
of  the  equity purchase will be deferred and recognized as revenue at a rate of
approximately  $4.7  million  per  year.  Exelixis  has  the option to issue GSK
additional  shares in the future.  Exelixis is also expected to receive clinical
and  developmental payments based on the number and timing of compounds reaching
specified  milestones.  Based  on  the continued successful development of these
compounds, these payments could range from $220 million to $350 million, through
the  compounds'  commercialization.  In addition, GSK will make available a loan
facility to Exelixis of up to $85 million.  Exelixis is expected to also receive
sales-based  milestone  payments  and  royalties  on  product  sales,  if  any.

Two  years  from the start of the alliance, GSK and Exelixis may elect to expand
the  collaboration,  and  under  this option, Exelixis' milestone payments could
double,  and  the  development  funding  and  the  loan  facility  would also be
significantly  expanded.

Restructuring  Plan
- -------------------

In  November  2002,  the  Company  implemented  a  restructuring  plan.  This
restructuring  plan  is  designed  to  facilitate the Company's evolution into a
fully  integrated  drug  discovery  company  by reallocating resources to permit
greater  focus  on  building  the  Company's  expanding portfolio of development
programs.  The  restructuring  will  also  enable the Company to add, as needed,
appropriate  resources  to  support its new, as well as existing, pharmaceutical
and  agricultural  corporate  collaborations.

The  restructuring  plan  resulted  in  an  immediate  reduction  in  force  of
approximately  8%  of  the Company's North American operations. Accordingly, the
Company  anticipates  recording a restructuring charge during the fourth quarter
of  2002,  which  is currently estimated to be less than $1.0 million, comprised
primarily  of  involuntary  termination  benefits.

ITEM 2.  MANAGEMENT'S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION AND RESULTS
         OF  OPERATIONS

This  discussion  and  analysis should be read in conjunction with our financial
statements  and  accompanying notes included in this report and the 2001 audited
financial  statements  and  notes  thereto included in our Annual Report on Form
10-K for the year ended December 31, 2001. Operating results are not necessarily
indicative  of  results  that  may  occur  in  future  periods.

The  following  discussion  and  analysis  contains  forward-looking statements.
These  statements  are based on our current expectations, assumptions, estimates
and  projections  about  our  business  and  our industry, and involve known and
unknown  risks,  uncertainties  and  other  factors  that  may  cause our or our
industry's  results,  levels  of  activity,  performance  or  achievement  to be
materially different from any future results, levels of activity, performance or
achievements  expressed  or  implied  in  or contemplated by the forward-looking
statements.  Words  such as "believe," "anticipate," "expect," "intend," "plan,"
"will,"  "may,"  "should," "estimate," "predict," "potential," "continue" or the
negative  of  such  terms or other similar expressions, identify forward-looking
statements.  Our  actual  results  and  the  timing  of  events  may  differ
significantly from those discussed in the forward-looking statements as a result
of  various  factors,  including  but  not limited to, those discussed under the
caption  "Item 5 Other Information - Risk Factors" and those discussed elsewhere
in  this report, in our other SEC filings and in our Annual Report on Form 10-K.
Exelixis  undertakes  no  obligation  to update any forward-looking statement to
reflect  events  after  the  date  of  this  report.

OVERVIEW

We  believe that we are a leader in the discovery and validation of high-quality
novel targets for several major human diseases, and a leader in the discovery of
potential  new  drug  therapies, specifically for cancer and other proliferative
diseases.  Our  primary  mission is to develop proprietary human therapeutics by
leveraging  our  integrated discovery platform to increase the speed, efficiency
and  quality  of  pharmaceutical  product  discovery  and  development.

Through  our expertise in comparative genomics and model system genetics, we are
able  to  find new drug targets that we believe would be difficult or impossible
to  uncover  using  other  experimental approaches.  Our research is designed to
identify  novel  genes and proteins expressed by those genes that, when changed,
either  decrease  or  increase  the  activity in a specific disease pathway in a
therapeutically  relevant  manner.  These  genes  and  proteins represent either
potential  product  targets  or  drugs that may treat disease or prevent disease
initiation  or  progression.

Our  most  advanced proprietary pharmaceutical program focuses on drug discovery
and  development  of  small  molecules  in  cancer. Specifically, the remarkable
evolutionary  conservation of the biochemical pathways strongly supports the use
of  simple  model  systems,  such  as fruit flies, nematode worms, zebrafish and
mice,  to  identify  key components of critical cancer pathways that can then be
targeted  for  drug  discovery.  We  expect  to  develop  new  cancer  drugs  by
exploiting  the  underlying  "genetic  liabilities"  of  tumor  cells to provide
specificity in targeting these cells for destruction, while leaving normal cells
unharmed.  We  have  discovered  and  are  further  developing a number of small
molecule  drug  targets  in  addition  to  monoclonal  antibody  drug  targets.
Molecules directed against these targets may selectively kill cancer cells while
leaving  normal  cells  unharmed, and may provide alternatives or supplements to
current  cancer  therapies.

We  believe  that  our  proprietary  technologies  are  also  valuable  to other
industries  whose  products  can  be  enhanced  by  an  understanding  of DNA or
proteins,  including  the  agrochemical, agricultural and diagnostic industries.
Many  of these industries have shorter product development cycles and lower risk
than  the pharmaceutical industry, while at the same time generating significant
sales  with attractive profit margins.  By partnering with companies in multiple
industries, we believe that we are able to diversify our business risk, while at
the  same  time  maximizing  our  future  revenue  stream  opportunities.

Our  strategy  is  to  establish  collaborations  with  major  pharmaceutical,
biotechnology  and  agrochemical  companies  based  on  the  strength  of  our
technologies  and  biological  expertise  as  well  as  to  support  additional
development  of  our  proprietary  products.  Through  these  collaborations, we
obtain  license  fees  and  research  funding,  together with the opportunity to
receive  milestone  payments  and royalties from research results and subsequent
product  development.  In  addition,  many  of  our  collaborations  have  been
structured  strategically  to  provide  us  access  to technology to advance our
internal  programs, saving both time and money, while at the same time retaining
rights  to use the same information in different industries.  Our collaborations
with  leading  companies  in the agrochemical industries allow us to continue to
expand  our  internal development capabilities while providing our partners with
novel  targets  and  assays.  Since  we  believe that agrochemical products have
reduced  development  time  and lower risk, we expect to be able to maximize our
potential  future  revenue  stream through partnering in multiple industries. We
have  active  commercial  collaborations  with  several  leading pharmaceutical,
biotechnology  and  agrochemical  companies:  Aventis CropScience LLC (now Bayer
CropScience  LLC),  Bayer  Corporation,  Bristol-Myers  Squibb  Company  (two
collaborations), Cytokinetics, Inc., Dow AgroSciences LLC, Elan Pharmaceuticals,
Inc.,  SmithKline  Beecham  Corporation, Merck & Co., Inc. (two collaborations),
Protein  Design  Labs,  Inc., Scios Inc. and Schering-Plough Research Institute,
Inc.

In  addition  to our commercial collaborations, we have relationships with other
biotechnology  companies, academic institutions and universities that provide us
access  to  specific  technology or intellectual property for the enhancement of
our  business.  These  include collaborations with leading biotechnology product
developers  and  solutions  providers, among them Affymetrix Inc., Genemachines,
AVI BioPharma, Inc., Silicon Genetics, Galapagos NV, Genomics Collaborative Inc.
and  Accelrys,  Inc.

We  have  a  history  of  operating  losses  resulting  principally  from  costs
associated  with  research  and  development  activities,  investment  in  core
technologies  and  general  and administrative functions. As a result of planned
expenditures  for  future  research  and  development  activities,  including
manufacturing  and  development  expenses  for  compounds  in  pre-clinical  and
clinical  studies,  we  expect  to  incur  additional  operating  losses for the
foreseeable  future.

RECENT  DEVELOPMENTS

     COLLABORATION  AGREEMENT

In  October  2002, we established an alliance with SmithKline Beecham ("GSK") to
discover  and  develop  novel  therapeutics  in  the  areas of vascular biology,
inflammatory  disease and oncology.  The alliance involved three agreements: (a)
a  Product Development and Commercialization Agreement; (b) a Stock Purchase and
Stock  Issuance  Agreement;  and  (c)  a Loan and Security Agreement.  Under the
terms  of  the  alliance,  GSK  has agreed to pay us an upfront payment of $30.0
million  and  a minimum of $90.0 million in development funding over the initial
six  years of the alliance.  We issued two million shares of our common stock to
GSK  for  cash  proceeds  of  $7.00  per  share,  which represented a premium of
approximately  100%  to our stock price on the effective date of the agreements.
The  upfront fee and the premium portion of the equity purchase will be deferred
and  recognized as revenue at a rate of approximately $4.7 million per year.  We
have the option to issue GSK additional shares in the future.  We also expect to
receive  clinical  and  developmental payments based on the number and timing of
compounds  reaching  specified  milestones.  Based  on  the continued successful
development  of these compounds, these payments could range from $220 million to
$350  million,  through the compounds' commercialization.  In addition, GSK will
make  available  a  loan facility to us of up to $85 million.  We also expect to
receive  sales-based  milestone payments and royalties on product sales, if any.

Two  years  from the start of the alliance, GSK and Exelixis may elect to expand
the  collaboration,  and under this option, our milestone payments could double,
and  the  development  funding and the loan facility would also be significantly
expanded.

     RESTRUCTURING  PLAN

In  November  2002, we implemented a restructuring plan. This restructuring plan
is  designed  to facilitate our evolution into a fully-integrated drug discovery
company  by  reallocating  resources  to  permit  greater  focus on building our
expanding  portfolio of development programs. The restructuring will also enable
us  to  add,  as  needed,  appropriate  resources to support our new, as well as
existing,  pharmaceutical  and  agricultural  corporate  collaborations.

The  restructuring  plan  resulted  in  an  immediate  reduction  in  force  of
approximately  8%  of  our North American operations. Accordingly, we anticipate
recording  a  restructuring  charge  during the fourth quarter of 2002, which is
currently  estimated  to  be  less  than  $1.0  million, consisting primarily of
involuntary  termination  benefits.

     ARTEMIS

We  have  undertaken  a  strategic  initiative  with  respect  to  our  Artemis
Pharmaceuticals GmbH subsidiary in Cologne, Germany.  We intend to split off the
entity,  including  all  personnel,  and  create a separate independent company.
This  activity  is  expected  to  occur  in  early  2003.

RESULTS  OF  OPERATIONS

     REVENUES

Total revenues were approximately $10.4 million and $31.9 million for the three-
and nine-month periods ended September 30, 2002, respectively, compared to $11.9
million  and  $28.2  million,  respectively, for the comparable periods in 2001.
The  decrease  in  revenues  for  the  quarter  from  the 2001 levels was driven
primarily  by  the  reduction of revenue from Pharmacia due to the February 2002
conclusion  of  our  collaboration,  partially  offset  by revenue from compound
deliveries  under  three  of  our chemistry collaborations established with Elan
Pharmaceuticals,  Scios  and  Schering-Plough  Research  Corporation  to jointly
design  custom  high-throughput  screening  compound libraries.  The increase in
revenues  over  the 2001 levels for the nine months ended September 30, 2002 was
driven  primarily  by  new  corporate  collaborations  established  in 2001 with
Protein Design Labs and Bristol-Myers Squibb and compound deliveries under these
chemistry  collaborations,  partially  offset  by  the reduction of revenue from
Pharmacia  due  to  the  February  2002  conclusion  of  our  collaboration.

     RESEARCH  AND  DEVELOPMENT  EXPENSES

Research  and  development  expenses  consist  primarily  of  salaries and other
personnel-related  expenses,  facilities  costs,  supplies,  licenses  and
depreciation  of  facilities and laboratory equipment.  Research and development
expenses  were  approximately $28.8 million and $84.3 million for the three- and
nine-month  periods  ended  September  30, 2002, respectively, compared to $22.5
million  and  $59.8  million,  respectively, for the comparable periods in 2001.
The  increase  in  2002  over  2001 resulted primarily from the following costs:

- -    Increased Personnel - Staffing costs increased 18% to $10.2 million and 38%
     to  $32.1 million for the three- and nine-month periods ended September 30,
     2002,  respectively.  The  increase  was  to  support  new  collaborative
     arrangements  and  Exelixis' internal proprietary research efforts. Salary,
     bonuses,  related  fringe  benefits,  recruiting  and  relocation costs are
     included  in  personnel  costs. We expect these personnel costs to increase
     further  as  we  continue  to  build  our  organization.

- -    Increased  Lab  Supplies  -  As  a result of the increase in personnel, our
     compound  collaborations  and  the  significant expansion of drug discovery
     operations,  lab  supplies expense increased 21% to $5.4 million and 55% to
     $16.9  million  for  the  three- and nine-month periods ended September 30,
     2002,  respectively.

- -    Increased  Licenses  and Consulting - In order to support new collaborative
     arrangements,  conduct  pre-clinical  and  clinical  development, engage in
     contract  manufacturing  and  enable  further  development  of  proprietary
     programs,  license  and  consulting expenses increased 233% to $4.4 million
     and  151%  to  $9.1  million  for  the  three- and nine-month periods ended
     September  30,  2002,  respectively.

As part of our collaboration with Bristol-Myers Squibb in July 2001, we received
an  exclusive  worldwide  license  to  develop and commercialize a Bristol-Myers
Squibb anticancer compound, a novel analogue of rebeccamycin.  Phase I trials of
the  rebeccamycin  analogue  have  been completed and demonstrated an acceptable
safety  profile.  The  Phase II trials of our rebeccamycin analogue sponsored by
the  National Cancer Institute ("NCI") are proceeding.  Exelixis is working with
the  NCI and investigators to collect and audit the results of the ongoing Phase
II  program  with the goal of initiating the next phase of development under our
control.  Manufacturing  of  additional  clinical supplies of the compound is in
progress.  We  also  continued  to  make  progress  toward  filing  our  first
proprietary  compound  investigational  new drug ("IND") application for XL 784,
anticipated  for  early  2003.  We  currently  do  not  have  the  manufacturing
capabilities  or  experience necessary to produce materials for clinical trials.
With  respect to the rebeccamycin analogue and our own proprietary compounds, we
are  currently  relying  on collaborators and third-party contractors to produce
materials  for  clinical  trials.  We expect clinical costs will increase in the
future  as  we  enter  clinical  trials  for  proprietary product candidates and
additional  trials  for  our  rebeccamycin  analogue.  We  currently do not have
estimates  of  total costs to reach the market by a particular drug candidate or
in  total.  Our  potential  therapeutic  products  are  subject to a lengthy and
uncertain  regulatory  process  that  may not result in the necessary regulatory
approvals,  which  could adversely affect our ability to commercialize products.
In  addition,  clinical trials of our potential products may fail to demonstrate
safety  and  efficacy,  which  could  prevent  or significantly delay regulatory
approval.

We  expect  to  continue  to  devote  substantial  resources  to  research  and
development,  and we expect that research and development expenses will continue
to  increase  in absolute dollar amounts in the future as we continue to advance
drug  discovery  and  development programs, including manufacturing and clinical
development  efforts  on  our  maturing  pipeline  of  products.

     GENERAL  AND  ADMINISTRATIVE  EXPENSES

General  and  administrative  expenses  consist  primarily of personnel costs to
support  our  research  and  development  activities,  facilities  costs  and
professional  expenses,  such as legal fees. General and administrative expenses
were  approximately $4.4 million and $14.0 million for the three- and nine-month
periods  ended  September  30,  2002, respectively, compared to $5.4 million and
$14.6  million,  respectively,  for  the  comparable  periods  in  2001.  The
year-over-year decrease in expense for the three months ended September 30, 2002
primarily  resulted  from  decreased  stock  compensation  expense,  legal  and
accounting  expenses,  recruiting  charges and other corporate services expense.
The  year-over-year  decrease in expense for the nine-months ended September 30,
2002  resulted from decreased stock compensation expense, partially offset by an
increase  in costs associated with personnel and facilities to support expansion
in  our  research  and  development  operations.

     STOCK  COMPENSATION  EXPENSE

Deferred  stock  compensation  for  options  granted  to  our  employees  is the
difference between the fair value for financial reporting purposes of our common
stock  on  the date such options were granted and their exercise price. Deferred
stock  compensation for options granted to consultants has been determined based
upon  estimated  fair value, using the Black-Scholes option valuation model.  As
of  September  30, 2002, we had approximately $1.6 million of remaining deferred
stock  compensation  related  to  stock  options  granted  to  consultants  and
employees.  Deferred  stock  compensation  is  recorded  as  a  component  of
stockholders'  equity  and is being amortized as stock compensation expense over
the vesting periods of the options, which is generally four years. We recognized
stock  compensation  expense of $0.7 million and $2.3 million for the three- and
nine-month  periods  ended  September  30,  2002, respectively, compared to $1.7
million and $5.9 million, respectively, for the comparable periods in 2001.  The
decrease  in  stock  compensation  expense  in  2002  compared to 2001 primarily
resulted  from the accelerated amortization method used for accounting purposes.

During  April  2001, we granted approximately 545,000 supplemental stock options
under  our  2000  Equity Incentive Plan to certain employees (excluding officers
and  directors)  who had stock options under the 2000 Equity Incentive Plan with
exercise  prices  greater  than  $16.00  per  share.  The number of supplemental
options  granted  was  equal  to 50% of the corresponding original grant held by
each  employee.  The supplemental options have an exercise price of $16.00, vest
monthly over a two-year period beginning April 1, 2001 and have a 27-month term.
The  vesting  on the corresponding original stock options was suspended and will
resume  in  April  2003  following the completion of vesting of the supplemental
options.  This  new  grant  constitutes  a synthetic repricing as defined in the
Financial  Accounting  Standards  Board  ("FASB")  Interpretation  Number  44,
"Accounting for Certain Transactions Involving Stock Compensation," and resulted
in  certain  options being reported using the variable plan method of accounting
for  stock  compensation  expense until they are exercised, forfeited or expire.
For  the  three-  and nine-month periods ended September 30, 2002, we recorded a
reversal  of  previously  recorded  compensation  expense  relating  to  the
supplemental  options  of  zero  and  $242,000,  respectively,  resulting from a
decrease  in  the  market  value  of  our  common  stock.

     AMORTIZATION  OF  GOODWILL  AND  INTANGIBLES

We  implemented  Statement  of  Financial Accounting Standards ("SFAS") No. 142,
"Goodwill  and  Other  Intangible  Assets"  ("SFAS  142"),  on  January 1, 2002.
Accordingly,  goodwill  and  other  intangible  assets deemed to have indefinite
lives  are  no  longer  being amortized but will be subject to annual impairment
tests  in  accordance  with  SFAS  142.

Goodwill  and  intangibles result from our acquisitions of Genomica, Artemis and
Agritope (now renamed Exelixis Plant Sciences).  Amortization of intangibles was
$166,000  and $499,000 for the three- and nine-month periods ended September 30,
2002, respectively, compared to amortization of goodwill and intangibles of $1.4
million and $3.7 million, respectively, for the comparable periods in 2001.  The
decrease  from  2001  was  primarily  related  to  our  adoption  of  SFAS  142.

Under  our accounting policy, we have adopted an annual goodwill impairment test
date  as  of  the  beginning of our fourth quarter.  Following this approach, we
will  use our asset-carrying values as of September 30, 2002, assess if there is
a  potential impairment and complete the measurement of impairment, if required.
Subsequent  to  September  30, 2002, our common stock has traded at a price that
represents  a  market  capitalization  that is less than our book value.  Should
this  condition persist for a significant portion of the fourth quarter of 2002,
or  should  the  extent  of  the  reduction  in the market capitalization become
significant,  this condition may signify a potential impairment of our goodwill.
If  we  determine  that  a  potential impairment of our goodwill exists, we will
perform  the  impairment  measurement  procedures  under SFAS No. 142, which may
result  in  a  fourth  quarter  charge  for  the  impairment of goodwill.  As of
September  30,  2002, the carrying value of our goodwill was approximately $67.4
million.

     OTHER  INCOME  (EXPENSE)

Other  income  (expense)  primarily  consists of interest income earned on cash,
cash equivalents and short-term investments, offset by interest expense incurred
on  notes  payable,  bank obligations and capital lease obligations. Total other
income  (expense)  was  income  of  $33,000  and $2.9 million for the three- and
nine-month periods ended September 30, 2002, respectively, compared to income of
$806,000  and  $3.6  million,  respectively, for the comparable periods in 2001.

     DISCONTINUED  OPERATIONS

In April 2002, Exelixis transferred the Genomica software business to Visualize,
Inc.  ("Visualize")  for  future  consideration of up to $2.4 million in license
fees  and royalty payments.  Pursuant to the terms of the transaction, Visualize
obtained  a  license  with all rights and obligations to third parties currently
licensing the Genomica software, including the sole right to further develop and
license  the software to other third parties.  Royalties that Exelixis receives,
if any, will be recorded in the period they are earned as a gain in discontinued
operations.  In  addition, Visualize assumed the lease obligation for Genomica's
abandoned facility in Sacramento, California.  Exelixis retained an internal use
license  for  the  software.  As  a  result of this transaction, we reported the
operating  results of Genomica and the estimated loss on the sale of Genomica as
discontinued  operations.  For  the  period beginning January 1, 2002 and ending
with  the  discontinuation  of  operations  in  April 2002, Genomica's operating
results  consisted of revenues of approximately $58,000 and an operating loss of
approximately $456,000.  The loss on the sale of Genomica includes the write-off
of  goodwill  of  approximately  $971,000,  partially  offset by the reversal of
Genomica's  lease obligation for the Sacramento facility assumed by Visualize of
approximately  $176,000.

     LIQUIDITY  AND  CAPITAL  RESOURCES

Since  inception, we have financed our operations primarily through issuances of
capital  stock,  loans, equipment lease financings and other loan facilities and
payments  from  collaborators.  In  addition,  during December 2001, we acquired
Genomica, including $109.6 million in cash and investments.  As of September 30,
2002,  we  had  approximately  $159.1  million  in  cash,  restricted cash, cash
equivalents  and  short-term  investments.

Our  operating  activities  used  cash  of approximately $65.0 million and $13.3
million  for  the  nine-month  periods  ended  September  30,  2002  and  2001,
respectively.  For  the nine-month period ended September 30, 2002, cash used in
operating  activities  related  primarily  to funding net operating losses, cash
payments  related  to  our  December 2001 acquisition of Genomica, a decrease in
accounts  payable  and  accrued expenses and a decrease in deferred revenue from
collaborators,  partially offset by non-cash charges related to depreciation and
amortization  of  deferred  stock compensation and other intangible assets.  For
the  comparable  period  in  2001,  cash  used  in  operating activities related
primarily  to  funding  net  operating  losses  and cash payments related to our
December  2000  acquisition  of  Agritope,  partially  offset  by an increase in
deferred  revenues  from  collaborators  and  non-cash  charges  related  to
depreciation,  acquired  in-process research and development and amortization of
deferred  stock  compensation,  goodwill  and  other  intangible  assets.

Our  investing  activities  provided cash of approximately $57.9 million for the
nine-month period ended September 30, 2002 and used cash of $0.6 million for the
nine-month  period ended September 30, 2001.  The cash provided in 2002 resulted
from  proceeds from maturities of short-term investments, partially offset by an
increase in restricted cash and purchases of short-term investments and property
and  equipment.  For  the comparable period in 2001, cash used resulted from the
purchases  of  short-term  investments  and  property  and  equipment,  almost
completely  offset by the proceeds from maturities of short-term investments and
cash  acquired  in  acquisitions.

Our  financing  activities provided cash of approximately $0.7 million and $37.2
million  for  the  nine-month  periods  ended  September  30,  2002  and  2001,
respectively.  For the nine-month period ended September 30, 2002, cash provided
from  financing activities related primarily to proceeds from our employee stock
purchase  plan,  repayment  of  notes  from  stockholders and proceeds from bank
obligations, almost completely offset by principal payments on notes payable and
capital  lease  obligations.  For  the  comparable period in 2001, cash provided
from financing activities related primarily to proceeds from a convertible note,
proceeds  from  the  issuance of stock to Bristol-Myers Squibb and proceeds from
our  employee  stock  purchase  plan,  partially offset by principal payments on
notes  payable  and  capital  lease  obligations.

We  believe  that  our current cash and cash equivalents, short-term investments
and  funding to be received from collaborators, including funding to be received
from  our collaboration with GSK that was entered into during the fourth quarter
of  2002,  will be sufficient to satisfy our anticipated cash needs for at least
the  next two years. Changes in our operating plan, as well as factors described
in  our  "Risk Factors" elsewhere in this Form 10-Q, could require us to consume
available  resources  much  sooner  than we expect.  It is possible that we will
seek additional financings within this timeframe.  We may raise additional funds
through  public  or  private  financing,  collaborative  relationships  or other
arrangements.  In  July  2001,  we filed a registration statement on Form S-3 to
offer  and  sell  up  to  $150.0  million  of  common stock.  We have no current
commitments  to  offer  or  sell  securities  with respect to shares that may be
offered  or  sold pursuant to that filing.  We cannot assure you that additional
funding,  if  sought, will be available or, even if available, will be available
on  terms  favorable  to  us.  Further,  any  additional equity financing may be
dilutive  to  stockholders,  and  debt  financing,  if  available,  may  involve
restrictive  covenants.  Our  failure  to raise capital when needed may harm our
business  and  operating  results.

RECENT  ACCOUNTING  PRONOUNCEMENTS

We  adopted  SFAS  No.  144,  "Accounting  for  the  Impairment  or  Disposal of
Long-Lived Assets" on January 1, 2002 (SFAS 144).  SFAS 144 supersedes SFAS 121,
"Accounting for the Impairment of Long-Lived Assets and for Long-Lived Assets to
Be  Disposed Of" (SFAS 121).  The primary objectives of SFAS 144 were to develop
one  accounting  model  based  on  the  framework  established  in  SFAS 121 for
long-lived  assets  to  be  disposed  of  by  sale  and  to  address significant
implementation  issues.  The adoption of SFAS 144 did not have a material impact
on  our  financial  position  or  results  of  operations.

In  June  2002,  the FASB issued SFAS 146, "Accounting for Costs Associated with
Exit  or  Disposal  Activities"  (SFAS  146),  which  addresses  accounting  for
restructuring,  discontinued operations, plant closing or other exit or disposal
activity.  SFAS  146  requires companies to recognize costs associated with exit
or  disposal  activities  when  they  are  incurred rather than at the date of a
commitment to an exit or disposal plan.  SFAS 146 is to be applied prospectively
to  exit or disposal activities initiated after December 31, 2002.  We expect to
adopt  SFAS  146 in the fourth quarter of 2002.  The adoption is not expected to
have  a  significant  impact on our financial position or results of operations.

DISCLOSURES  ON  STOCK  OPTION  PLANS

     OPTION  PROGRAM  DESCRIPTION

Our  stock  option program is a broad-based, long-term retention program that is
intended  to  attract  and  retain  talented employees and align stockholder and
employee  interests.  We  consider  our option program critical to our operation
and  productivity; essentially all of our employees participate.  Of the options
we  granted  in  2001,  75%  went  to  employees other than the five most highly
compensated  executive  officers.  Options are currently granted under two stock
option  plans:  one  under  which  options  to  purchase shares of our stock are
granted to non-employee directors and one under which options to purchase shares
of  our  stock  may  be  granted  to  all employees.  Option vesting periods are
generally  four  years.

The  Exelixis  board  of  directors  or  a  designated committee of the board of
directors  is  responsible  for  the administration of our employee stock option
plans  and determines the term, exercise price and vesting terms of each option.
Incentive  stock  options may be granted at an exercise price per share at least
equal  to  the  estimated  fair value per underlying common share on the date of
grant  (not less than 110% of the estimated fair value in the case of holders of
more  than  10%  of Exelixis' voting stock). Options granted under the plans are
exercisable  when  granted and generally expire ten years from the date of grant
(five  years  for incentive stock options granted to holders of more than 10% of
Exelixis'  voting  stock).

DISTRIBUTION  AND  DILUTIVE  EFFECT  OF  OPTIONS



                                             Employee and Executive Option Grants
                                                   As of September 30, 2002
- ------------------------------------------------------------------------------------------------------------------------------
                                                                              Nine months ended            Year ended
                                                                                September 30,             December 31,
                                                                                     2002             2001           2000
                                                                              ------------------  -------------  -------------
                                                                                                        
Net grants during the period as a % of outstanding shares                            4.0%             5.1 %          10.1%
Grants to listed officers* during the period as % of total options granted           -  %             25.2%          13.8%
Grants to listed officers* during the period as % of outstanding shares              -  %              1.4%           1.5%
Cumulative options held by listed officers as % of total options outstanding       17. 2%             22.5%          17.2%
<FN>

*  Exelixis'  chief  executive  officer  and  the  four other most highly compensated executive officers for the most recently
   completed  fiscal  year  are  referred  to  as  the  "listed  officers."



During  the  nine  months  ended  September  30,  2002, we granted our employees
options  to purchase approximately 2.3 million shares of our common stock, which
was net of 432,507 shares related to forfeited options.  The net options granted
after  forfeitures  represented  4.0%  of our total outstanding shares of common
stock,  which  was  approximately  56.2  million  as  of  the beginning of 2002.

During  the nine months ended September 30, 2002, no options were granted to the
five  most  highly  compensated executive officers.  Options granted to the five
most  highly  compensated  executive  officers  as a percentage of total options
granted  to  all  employees  varies  from  year  to  year.  The  increase in the
percentage of grants to listed officers as a percentage of total options granted
increased  in  2001  as  compared  to 2000.  The increase primarily related to a
larger  number of grants to other employees in 2000.  We typically grant options
to all newly hired employees, and in 2000, there was significant hiring activity
associated  with the build-out of our research infrastructure and drug discovery
operations.

GENERAL  OPTION  INFORMATION






                       Summary of Option Activity
                        As of September 30, 2002
- ------------------------------------------------------------------------

                                                        Weighted Average
                                           Shares        Exercise Price
                                           ----------  ------------------
                                                 
Options outstanding at December 31, 2000   4,492,835             $ 17.70
  Granted                                  3,160,628               14.47
  Exercised                                 (204,125)               2.75
  Cancelled                                 (270,902)              19.92
                                           ----------

Options outstanding at December 31, 2001   7,178,436               16.63
  Granted                                  2,723,113               12.87
  Exercised                                 (110,164)               0.85
  Cancelled                                 (432,507)              18.77
                                           ----------

Options outstanding at September 30, 2002  9,358,878               15.63
                                           ==========




           In-the-Money and Out-of-the Money Option Information
                          As of September 30, 2002

- ----------------------------------------------------------------------------------

                                                       Outstanding and Exercisable
                                                       ---------------------------
                                                                       Wtd. Avg
                                                                       Exercise
At September 30, 2002                                     Shares         Price
- -----------------------------------------------------  -----------    ------------
                                                              
In-the-Money                                               565,677         $  1.25
Out-of-the-Money (1)                                     8,793,201         $ 16.56
                                                       -----------
Total Options Outstanding                                9,358,878         $ 15.63
                                                       ===========
<FN>

(1)  Out-of-the-money  options  are  those  options  with  an  exercise  price
      above  the  closing  price  of  $4.95  at  September  30,  2002


EXECUTIVE  OPTIONS

During the nine months ended September 30, 2002, no options have been granted to
the  executive  officers  listed  below.  The  following  table shows the option
exercises  and  remaining  option  holdings  of  the  listed executive officers.
Amounts  shown  under  the column, "Value of Unexercised In-the-Money Options at
September  30,  2002" are based on the September 30, 2002 closing price of $4.95
per  share,  without  taking  into  account  any  taxes  that  may be payable in
connection  with  the transaction, multiplied by the number of shares underlying
the  option,  less  the  exercise  price  payable  for  these  shares.



                         Option Exercises and Remaining Holdings of Listed Executive Officers
                                        Year-to-Date September 30, 2002
- --------------------------------------------------------------------------------------------------------------
                                                              Number of Securities
                                    Shares                   Underlying Unexercised   Values of Unexercised In-
                                 Acquired on      Value            Options at            the-Money Options at
Name                               Exercise   Realized (1)   September 30, 2002 (2)     September 30, 2002 (2)
- -------------------------------  -----------  -------------  ----------------------  --------------------------
                                                                         
George A. Scangos, Ph.D.           862,500      $ 679,999            600,000                  $       -
Geoffrey Duyk, M.D., Ph.D.         375,000        240,000            618,750                    790,312
Lloyd M. Kunimoto                  262,500        240,000            150,000                          -
Michael M. Morrissey, Ph.D.         82,500              -             70,000                          -
Gregory D. Plowman, M.D., Ph.D.          -              -            175,000                          -

<FN>
- -------------------------------
(1)  Based  on  the  fair  market  value  of  the  common  stock  on  the  date  of  exercise.
(2)  All  options  are  exercisable  upon  grant, but underlying shares are subject to a right of repurchase by
Exelixis  until  vested.


EQUITY  COMPENSATION  PLAN  INFORMATION



                                          (1)                     (2)                        (3)
                                  Number of securities       Weighted-Avg      Number of securities remaining
                                   to be issued upon        exercise price      available for future issuance
                                exercise of outstanding     of outstanding        under equity compensation
                                   options, warrants       options, warrants     plans (excluding securities
                                       and rights             and rights          reflected in column (1))
                                ------------------------  -------------------  -------------------------------
                                                                      
Plan Category

Equity compensation plans
  approved by shareholders             9,358,878                 $ 15.63                  2,995,177
Equity compensation plans
  not approved by shareholders                 -                       -                          -
                                ------------------------  -------------------  -------------------------------
Total                                  9,358,878                 $ 15.63                  2,995,177


ITEM  3.  QUANTITATIVE  AND  QUALITATIVE  DISCLOSURES  ABOUT  MARKET  RISK

Our  investments  are subject to interest rate risk, and our interest income may
fluctuate  due  to  changes  in  U.S.  interest  rates.  By policy, we limit our
investments  to  money  market  instruments,  debt securities of U.S. government
agencies and debt obligations of U.S. corporations. We manage market risk by our
diversification  requirements,  which limit the amount of our portfolio that can
be  invested in a single issuer. We manage credit risk by limiting our purchases
to high quality issuers. Through our money managers, we maintain risk management
control  systems  to  monitor  interest  rate  risk. The risk management control
systems  use  analytical  techniques,  including  sensitivity  analysis.  As  of
September  30,  2002, a hypothetical 1% adverse move in interest rates along the
entire  interest  rate  yield  curve  would  cause an approximately $1.0 million
decline  in  the  fair  value  of  our  financial  instruments.

All  highly liquid investments with an original maturity of three months or less
from  the  date of purchase are considered cash equivalents.  Exelixis views its
available-for-sale  portfolio  as  available  for  use  in  current  operations.
Accordingly,  we  have classified all investments with an original maturity date
greater  than  three  months as short-term, even though the stated maturity date
may  be  one  year  or  more  beyond  the  current  balance  sheet  date.

We  are  exposed  to  foreign currency exchange rate fluctuations related to the
operations  of  our German subsidiaries. The revenues and expenses of our German
subsidiaries  are denominated in Euro.  At the end of each reporting period, the
revenues  and  expenses  of  these subsidiaries are translated into U.S. dollars
using  the  average  currency  rate  in  effect  for  the period, and assets and
liabilities  are  translated into U.S. dollars using the exchange rate in effect
at the end of the period.  Fluctuations in exchange rates, therefore, impact our
financial  condition  and  results  of  operations  as reported in U.S. dollars.

In  February 2002, we commenced using derivative financial instruments to reduce
our  exposure  to  foreign  currency exchange rate movements on our consolidated
operating results.  As of September 30, 2002, we had outstanding an aggregate of
$3.5  million  (notional amount) of short-term foreign currency option contracts
denominated  in  Euro.  The  fair value of these contracts at September 30, 2002
was approximately $109,000, which is reflected on the balance sheet as an asset.
Due  to  the  nature of the option contracts' structure, our exposure to adverse
changes in market rates on these instruments is limited to their carrying value.
We  cannot  give  any assurance that our hedging strategies will be effective or
that  transaction  losses  can  be  minimized  or  forecasted  accurately.

ITEM  4.  CONTROLS  AND  PROCEDURES

Our  chief  executive  officer  and  chief financial officer have concluded that
Exelixis'  disclosure controls and procedures (as defined in Securities Exchange
Act  of  1934,  as  amended  ("Exchange  Act"), Rule 13a-14(c)) are sufficiently
effective to ensure that the information required to be disclosed by the company
in  the  reports  it  files  under  the  Exchange  Act is gathered, analyzed and
disclosed  with  adequate  timeliness,  accuracy  and  completeness, based on an
evaluation of such controls and procedures conducted within 90 days prior to the
date  hereof.

There  have  been  no  significant  changes in our internal controls or in other
factors that could significantly affect these controls subsequent to the date of
the evaluation referred to above, nor were there any significant deficiencies or
material  weaknesses  in Exelixis' internal controls. Accordingly, no corrective
actions  were  required  or  undertaken.


                           PART II. OTHER INFORMATION

ITEM  2.   CHANGES  IN  SECURITIES  AND  USE  OF  PROCEEDS

(d) In May 2000, we completed our initial public offering for aggregate proceeds
of  approximately  $136.0  million.  In  connection with the offering, we paid a
total  of  approximately  $9.5 million in underwriting discounts and commissions
and  $2.0  million  in  other  offering costs and expenses.  After deducting the
underwriting  discounts and commissions and the offering costs and expenses, our
net  proceeds  from  the  offering  were  approximately  $124.5  million.

From  the time of receipt through September 30, 2002, proceeds from the offering
have  been  used  for research and development activities, capital expenditures,
working  capital,  merger  and  acquisition expenses and other general corporate
purposes.  In  the  future,  we  intend  to  use the remaining net proceeds in a
similar  manner.  As  of  September  30, 2002, $900,000 of the proceeds remained
available  and  was  primarily  invested  in  short-term  marketable securities.

 ITEM  5.  OTHER  INFORMATION

APPROVAL  OF  NON-AUDIT  SERVICES

The  following  non-audit  services have been approved by the Audit Committee of
our  Board  of  Directors  to  be  performed  by Ernst & Young LLP, our external
auditor. Non-audit services are defined as services other than those provided in
connection with an audit or a review of the financial statements of the company.
The  Audit Committee has approved engagements of Ernst & Young for the following
non-audit  services:  (1)  tax  consulting  services;  (2) accounting consulting
services  and  (3)  review  of  registration  statements.

RISK  FACTORS

EXELIXIS HAS A HISTORY OF NET LOSSES. WE EXPECT TO CONTINUE TO INCUR NET LOSSES,
AND  WE  MAY  NOT  ACHIEVE  OR  MAINTAIN  PROFITABILITY.

We  have incurred net losses each year since our inception, including a net loss
of approximately $65.3 million for the nine months ended September 30, 2002.  As
of that date, we had an accumulated deficit of approximately $266.5 million.  We
expect  these losses to continue and anticipate negative operating cash flow for
the  foreseeable  future.  The size of these net losses will depend, in part, on
the  rate  of  growth,  if  any, in our license and contract revenues and on the
level of our expenses. Our research and development expenditures and general and
administrative  costs have exceeded our revenues to date, and we expect to spend
significant  additional  amounts  to  fund  research and development in order to
enhance our core technologies and undertake product development. During 2001, we
acquired  a compound in Phase II clinical development, and we are working with a
third-party  vendor to manufacture this compound and preparing for the filing of
an  Investigational  New  Drug  Application,  or  IND.  In addition, we are also
preparing  to  file  our  first IND for a proprietary compound.  As a result, we
expect that our operating expenses will increase significantly in the near term,
and  consequently,  we  will need to generate significant additional revenues to
achieve  profitability.  Even  if  we  do  increase  our  revenues  and  achieve
profitability,  we  may  not  be  able  to  sustain  or  increase profitability.

WE WILL NEED ADDITIONAL CAPITAL IN THE FUTURE, WHICH MAY NOT BE AVAILABLE TO US.

Our  future  capital  requirements  will  be substantial and will depend on many
factors,  including:

     -    payments  received  under  collaborative  agreements;
     -    the  progress  and scope of our collaborative and independent research
          and  development  projects;
     -    our  need to expand our product development efforts as well as develop
          manufacturing  and  marketing  capabilities to commercialize products;
          and
     -    the  filing,  prosecution  and  enforcement  of  patent  claims.

We anticipate that our current cash and cash equivalents, short-term investments
and  funding  to  be  received from collaborators will enable us to maintain our
currently  planned  operations  for at least the next two years.  Changes to our
current  operating  plan  may  require us to consume available capital resources
significantly  sooner  than  we  expect.  We  may  be unable to raise sufficient
additional  capital  when  we  need  it,  on  favorable terms, or at all. If our
capital  resources are insufficient to meet future capital requirements, we will
have  to  raise  additional  funds.  The  sale  of  equity  or  convertible debt
securities in the future may be dilutive to our stockholders, and debt financing
arrangements  may  require  us to pledge certain assets and enter into covenants
that  would restrict our ability to incur further indebtedness. If we are unable
to  obtain  adequate  funds  on  reasonable terms, we may be required to curtail
operations  significantly  or to obtain funds by entering into financing, supply
or  collaboration  agreements  on  unattractive  terms.

DIFFICULTIES WE MAY ENCOUNTER MANAGING OUR GROWTH MAY DIVERT RESOURCES AND LIMIT
OUR  ABILITY  TO  SUCCESSFULLY  EXPAND  OUR  OPERATIONS

We  have  experienced  a period of rapid and substantial growth that has placed,
and our anticipated growth in the future will continue to place, a strain on our
administrative  and  operational  infrastructure.  As  our  operations  expand
domestically and internationally, we expect that we will need to manage multiple
locations  and  additional  relationships  with  various collaborative partners,
suppliers  and  other  third  parties.  Our ability to manage our operations and
growth effectively requires us to continue to improve our operational, financial
and management controls, reporting systems and procedures. We may not be able to
successfully  implement  improvements  to our management information and control
systems  in  an  efficient  or  timely  manner  and may discover deficiencies in
existing  systems  and  controls.  In  addition,  acquisitions  involve  the
integration of different financial and management reporting systems.  We may not
be  able  to  successfully  integrate  the  administrative  and  operational
infrastructure  without  significant  additional improvements and investments in
management  systems  and  procedures.

WE ARE DEPENDENT ON OUR COLLABORATIONS WITH MAJOR COMPANIES. IF WE ARE UNABLE TO
ACHIEVE  MILESTONES, DEVELOP PRODUCTS OR RENEW OR ENTER INTO NEW COLLABORATIONS,
OUR  REVENUES MAY DECREASE AND OUR ACTIVITIES MAY FAIL TO LEAD TO COMMERCIALIZED
PRODUCTS.

Substantially  all  of our revenues to date have been derived from collaborative
research  and  development  agreements.  Revenues  from research and development
collaborations  depend  upon continuation of the collaborations, the achievement
of  milestones  and  royalties  derived  from future products developed from our
research.  If  we  are  unable  to  successfully  achieve  milestones  or  our
collaborators fail to develop successful products, we will not earn the revenues
contemplated  under  such  collaborative  agreements.  In  addition, some of our
collaborations  are  exclusive  and  preclude  us  from entering into additional
collaborative  arrangements  with  other  parties  in  the  area  or  field  of
exclusivity.

We  currently  have  collaborative research agreements with Bayer, Bristol-Myers
Squibb  (two  agreements),  SmithKline  Beecham,  Protein  Design  Labs,  Dow
AgroSciences  and  Bayer  CropSciences  (formerly  Aventis  CropSciences).  Our
current collaborative agreement with Bayer is scheduled to expire in 2008, after
which  it will automatically be extended for one-year terms unless terminated by
either  party  upon  12-month  written  notice.  Our  agreement permits Bayer to
terminate  our  collaborative  activities  prior  to 2008 upon the occurrence of
specified conditions, such as the failure to agree on key strategic issues after
a  period  of  years  or  the acquisition of Exelixis by certain specified third
parties.  Our  agreement with Bayer is subject to termination at an earlier date
if  two  or  more  of  our  Chief  Executive  Officer, Chief Scientific Officer,
Agricultural Biotechnology Program Leader and Chief Informatics Officer cease to
have  a relationship with us within nine months of each other.  Our mechanism of
action  collaborative  agreement  with Bristol-Myers Squibb expires in September
2004.  Our  cancer  collaborative agreement with Bristol-Myers Squibb expires in
July  2004.  Our  collaborative  agreement with Dow AgroSciences is scheduled to
expire  in July 2003, after which Dow AgroSciences has the option to renew on an
annual  basis.  Our collaborative research arrangement with Aventis is scheduled
to  expire  in  September 2004.  The Bayer CropSciences arrangement is conducted
through a limited liability company, Agrinomics, which is owned equally by Bayer
CropSciences  and  Exelixis.  Bayer  CropSciences  may surrender its interest in
Agrinomics  and  terminate  the  related  research  collaboration  prior  to the
scheduled  expiration  upon  the  payment  of  the  subsequent  year's  funding
commitment.  Our  recent alliance with SmithKline Beecham is scheduled to expire
in  October  2008,  but  is  subject to earlier termination at the discretion of
SmithKline  Beecham starting in 2005 if Exelixis fails to meet certain diligence
obligations.

If  these  existing agreements are not renewed or if we are unable to enter into
new  collaborative agreements on commercially acceptable terms, our revenues and
product  development  efforts  may  be  adversely  affected.   For  example, our
agreement  with  Pharmacia  terminated  by  mutual  agreement  in February 2002,
eliminating  the  opportunity  for  us  to  earn  approximately  $9.0 million in
research  revenue  in  each  of the next two years.  Although we expect to enter
into  other  collaborations  that may offset this loss of revenue, we may not be
able  to  enter  into  a  new  collaborative  agreement  on  similar or superior
financial  terms  than  those under the Pharmacia arrangement, and the timing of
new  collaborative  agreements  may  have a significant effect on our ability to
continue  to  successfully  meet  our  corporate  goals  and  milestones.

CONFLICTS  WITH  OUR  COLLABORATORS  COULD  JEOPARDIZE  THE  OUTCOME  OF  OUR
COLLABORATIVE  AGREEMENTS  AND  OUR  ABILITY  TO  COMMERCIALIZE  PRODUCTS.

We  are  conducting  proprietary  research  programs  in  specific  disease  and
agricultural product areas that are not covered by our collaborative agreements.
Our  pursuit  of opportunities in agricultural and pharmaceutical markets could,
however, result in conflicts with our collaborators in the event that any of our
collaborators  take the position that our internal activities overlap with those
areas  that  are  exclusive  to  our  collaborative agreements, and we should be
precluded  from  such  internal  activities.  Moreover,  disagreements  with our
collaborators  could  develop  over  rights  to  our  intellectual  property. In
addition,  our  collaborative  agreements  may have provisions that give rise to
disputes  regarding the rights and obligations of the parties. Any conflict with
our collaborators could lead to the termination of our collaborative agreements,
delay collaborative activities, reduce our ability to renew agreements or obtain
future collaboration agreements or result in litigation or arbitration and would
negatively  impact  our  relationship  with  existing  collaborators.

We  have  limited  or  no  control over the resources that our collaborators may
choose to devote to our joint efforts. Our collaborators may breach or terminate
their  agreements  with  us  or  fail  to  perform their obligations thereunder.
Further,  our collaborators may elect not to develop products arising out of our
collaborative  arrangements  or  may  fail to devote sufficient resources to the
development,  manufacture,  market  or  sale  of  such  products. Certain of our
collaborators  could  also  become  our  competitors  in  the  future.  If  our
collaborators  develop  competing  products,  preclude  us  from  entering  into
collaborations  with  their  competitors,  fail  to  obtain necessary regulatory
approvals,  terminate  their  agreements  with  us prematurely or fail to devote
sufficient  resources  to the development and commercialization of our products,
our  product  development  efforts  could  be  delayed  and  may fail to lead to
commercialized  products.

WE  ARE  DEPLOYING  UNPROVEN  TECHNOLOGIES,  AND  WE  MAY NOT BE ABLE TO DEVELOP
COMMERCIALLY  SUCCESSFUL  PRODUCTS.

Our  research  and  operations  thus far have allowed us to identify a number of
product  targets  for  use  by  our  collaborators  as well as targets and small
molecule  compounds  for  our  own  internal  development  programs.  We are not
certain,  however,  of  the  commercial  value  of  any of our current or future
targets  and  molecules,  and we may not be successful in expanding the scope of
our  research  into  new  fields  of  pharmaceutical  or  agricultural research.
Significant  research and development, financial resources and personnel will be
required  to  capitalize on our technology, develop commercially viable products
and  obtain  regulatory  approval  for  such  products.

WE  HAVE  NO  EXPERIENCE IN DEVELOPING, MANUFACTURING AND MARKETING PRODUCTS AND
MAY  BE  UNABLE  TO  COMMERCIALIZE  PROPRIETARY  PRODUCTS.

Initially,  we relied on our collaborators to develop and commercialize products
based  on our research and development efforts. We have limited or no experience
in  using  the targets that we identify to develop our own proprietary products,
or  developing  small  molecule  compounds  against  those  targets.  Our recent
efforts in applying our drug development capabilities to our proprietary targets
in  cancer  are  subject  to significant risk and uncertainty, particularly with
respect  to  our  ability  to  meet  currently estimated timelines and goals for
completing  preclinical  development  efforts  and filing an Investigational New
Drug  Application  for  compounds  developed.  In  order for us to commercialize
products,  we  would need to significantly enhance our capabilities with respect
to  product  development and establish manufacturing and marketing capabilities,
either  directly or through outsourcing or licensing arrangements. We may not be
able  to  enter  into  such  outsourcing or licensing agreements on commercially
reasonable  terms,  or  at  all.

SINCE  OUR  TECHNOLOGIES  HAVE  MANY  POTENTIAL APPLICATIONS AND WE HAVE LIMITED
RESOURCES,  OUR  FOCUS  ON  A  PARTICULAR  AREA  MAY  RESULT  IN  OUR FAILURE TO
CAPITALIZE  ON  MORE  PROFITABLE  AREAS.

We have limited financial and managerial resources. This requires us to focus on
product  candidates  in specific industries and forego opportunities with regard
to  other  products  and  industries.  For  example, depending on our ability to
allocate  resources,  a  decision  to  concentrate  on a particular agricultural
program  may  mean  that  we will not have resources available to apply the same
technology  to a pharmaceutical project. While our technologies may permit us to
work  in  both  areas,  resource commitments may require trade-offs resulting in
delays in the development of certain programs or research areas, which may place
us  at  a  competitive disadvantage. Our decisions impacting resource allocation
may  not  lead  to  the development of viable commercial products and may divert
resources  from  more  profitable  market  opportunities.

OUR COMPETITORS MAY DEVELOP PRODUCTS AND TECHNOLOGIES THAT MAKE OUR PRODUCTS AND
TECHNOLOGIES  OBSOLETE.

The  biotechnology  industry  is highly fragmented and is characterized by rapid
technological  change.  In  particular,  the  area of gene research is a rapidly
evolving  field.  We  face,  and will continue to face, intense competition from
large  biotechnology  and pharmaceutical companies, as well as academic research
institutions,  clinical  reference laboratories and government agencies that are
pursuing  research  activities  similar  to  ours.  Some of our competitors have
entered  into  collaborations  with leading companies within our target markets,
including  some of our existing collaborators. Our future success will depend on
our  ability  to  maintain  a competitive position with respect to technological
advances.

Any  products that are developed through our technologies will compete in highly
competitive  markets.  Further,  our  competitors may be more effective at using
their  technologies  to  develop  commercial products. Many of the organizations
competing  with  us  have  greater  capital  resources,  larger  research  and
development  staffs  and  facilities,  more  experience  in obtaining regulatory
approvals  and  more extensive product manufacturing and marketing capabilities.
As a result, our competitors may be able to more easily develop technologies and
products  that  would  render  our  technologies  and products, and those of our
collaborators,  obsolete  and  noncompetitive.

IF  WE ARE UNABLE TO ADEQUATELY PROTECT OUR INTELLECTUAL PROPERTY, THIRD PARTIES
MAY  BE  ABLE TO USE OUR TECHNOLOGY, WHICH COULD ADVERSELY AFFECT OUR ABILITY TO
COMPETE  IN  THE  MARKET.

Our  success  will  depend in part on our ability to obtain patents and maintain
adequate protection of the intellectual property related to our technologies and
products.  The patent positions of biotechnology companies, including our patent
position,  are  generally  uncertain  and  involve  complex  legal  and  factual
questions.  We  will  be  able  to protect our intellectual property rights from
unauthorized  use  by third parties only to the extent that our technologies are
covered  by valid and enforceable patents or are effectively maintained as trade
secrets. The laws of some foreign countries do not protect intellectual property
rights  to  the  same  extent  as  the laws of the U.S., and many companies have
encountered  significant  problems  in  protecting  and defending such rights in
foreign  jurisdictions.  We  will  continue  to  apply  for patents covering our
technologies  and  products  as  and  when  we  deem appropriate. However, these
applications  may  be  challenged  or  may fail to result in issued patents. Our
existing  patents and any future patents we obtain may not be sufficiently broad
to  prevent others from practicing our technologies or from developing competing
products.  Furthermore,  others may independently develop similar or alternative
technologies  or  design  around  our  patents.  In addition, our patents may be
challenged,  invalidated  or fail to provide us with any competitive advantages.

We  rely  on  trade  secret  protection  for  our  confidential  and proprietary
information.  We  have  taken  security  measures  to  protect  our  proprietary
information  and  trade  secrets,  but  these  measures may not provide adequate
protection.  While  we  seek  to protect our proprietary information by entering
into  confidentiality  agreements with employees, collaborators and consultants,
we  cannot assure you that our proprietary information will not be disclosed, or
that we can meaningfully protect our trade secrets. In addition, our competitors
may  independently  develop  substantially equivalent proprietary information or
may  otherwise  gain  access  to  our  trade  secrets.

LITIGATION  OR  THIRD-PARTY  CLAIMS  OF INTELLECTUAL PROPERTY INFRINGEMENT COULD
REQUIRE  US TO SPEND SUBSTANTIAL TIME AND MONEY AND ADVERSELY AFFECT OUR ABILITY
TO  DEVELOP  AND  COMMERCIALIZE  PRODUCTS.

Our  commercial  success  depends  in  part  on  our ability to avoid infringing
patents  and  proprietary rights of third parties and not breaching any licenses
that  we  have  entered into with regard to our technologies. Other parties have
filed,  and in the future are likely to file, patent applications covering genes
and  gene  fragments, techniques and methodologies relating to model systems and
products  and  technologies  that  we  have  developed  or intend to develop. If
patents  covering  technologies required by our operations are issued to others,
we  may  have to rely on licenses from third parties, which may not be available
on  commercially  reasonable  terms,  or  at  all.

Third  parties  may  accuse us of employing their proprietary technology without
authorization.  In addition, third parties may obtain patents that relate to our
technologies  and  claim  that use of such technologies infringes these patents.
Regardless  of  their  merit,  such claims could require us to incur substantial
costs,  including  the  diversion  of  management  and  technical  personnel, in
defending  ourselves  against  any  such claims or enforcing our patents. In the
event  that  a successful claim of infringement is brought against us, we may be
required  to  pay damages and obtain one or more licenses from third parties. We
may  not  be  able  to  obtain  these  licenses at a reasonable cost, or at all.
Defense  of  any  lawsuit  or  failure  to  obtain  any  of these licenses could
adversely  affect  our  ability  to  develop  and  commercialize  products.

THE  LOSS  OF  KEY  PERSONNEL  OR THE INABILITY TO ATTRACT AND RETAIN ADDITIONAL
PERSONNEL  COULD  IMPAIR  OUR  ABILITY  TO  EXPAND  OUR  OPERATIONS.

We  are  highly  dependent  on  the  principal  members  of  our  management and
scientific  staff,  the  loss  of  whose  services  might  adversely  impact the
achievement  of  our objectives and the continuation of existing collaborations.
In  addition,  recruiting  and  retaining  qualified  scientific  and  clinical
personnel  to  perform  future research and development work will be critical to
our  success.  We  do  not  currently  have  sufficient executive management and
technical  personnel  to  fully  execute our business plan. There is currently a
shortage  of skilled executives and employees with technical expertise, and this
shortage  is  likely to continue. As a result, competition for skilled personnel
is  intense,  and  turnover  rates  are  high.  Although  we  believe we will be
successful  in  attracting  and  retaining  qualified personnel, competition for
experienced  scientists  from numerous companies and academic and other research
institutions  may  limit  our  ability  to  do  so.

Our business operations will require additional expertise in specific industries
and  areas  applicable  to  products  identified  and  developed  through  our
technologies.  These  activities  will  require  the  addition of new personnel,
including  management  and technical personnel and the development of additional
expertise  by  existing employees. The inability to attract such personnel or to
develop  this  expertise  could  prevent  us  from expanding our operations in a
timely  manner,  or  at  all.

OUR  COLLABORATIONS  WITH  OUTSIDE  SCIENTISTS MAY BE SUBJECT TO RESTRICTION AND
CHANGE.

We  work  with  scientific  advisors  and  collaborators  at  academic and other
institutions  that  assist  us  in  our  research and development efforts. These
scientists are not our employees and may have other commitments that would limit
their  availability  to  us.  Although our scientific advisors and collaborators
generally  agree  not  to  do  competing work, if a conflict of interest between
their  work  for  us and their work for another entity arises, we may lose their
services.  In  addition, although our scientific advisors and collaborators sign
agreements  not  to  disclose  our confidential information, it is possible that
valuable  proprietary  knowledge  may  become  publicly  known  through  them.

OUR  POTENTIAL  THERAPEUTIC  PRODUCTS  ARE  SUBJECT  TO  A LENGTHY AND UNCERTAIN
REGULATORY  PROCESS  THAT  MAY NOT RESULT IN THE NECESSARY REGULATORY APPROVALS,
WHICH  COULD  ADVERSELY  AFFECT  OUR  ABILITY  TO  COMMERCIALIZE  PRODUCTS.

The  Food  and  Drug  Administration,  or FDA, must approve any drug or biologic
product  before  it  can be marketed in the U.S. Any products resulting from our
research  and  development  efforts  must  also  be  approved  by the regulatory
agencies  of foreign governments before the product can be sold outside the U.S.
Before a new drug application or biologics license application can be filed with
the FDA, the product candidate must undergo extensive clinical trials, which can
take many years and may require substantial expenditures. The regulatory process
also  requires  preclinical testing. Data obtained from preclinical and clinical
activities  are susceptible to varying interpretations, which could delay, limit
or  prevent  regulatory  approval.  In  addition,  delays  or  rejections may be
encountered  based upon changes in regulatory policy for product approval during
the  period  of  product  development and regulatory agency review. The clinical
development and regulatory approval process is expensive and time consuming. Any
failure  to  obtain  regulatory  approval  could  delay  or  prevent  us  from
commercializing  products.

Our  efforts  to  date  have  been  primarily limited to identifying targets and
developing  small molecule compounds against those targets. Significant research
and  development  efforts  will be necessary before any of our products directed
such  targets can be commercialized. If regulatory approval is granted to any of
our  products,  this  approval  may  impose  limitations on the uses for which a
product  may  be  marketed.  Further,  once  regulatory  approval is obtained, a
marketed  product  and  its  manufacturer  are  subject to continual review, and
discovery  of  previously  unknown  problems  with a product or manufacturer may
result  in  restrictions and sanctions with respect to the product, manufacturer
and  relevant  manufacturing  facility, including withdrawal of the product from
the  market.

CLINICAL  TRIALS  ON  OUR  POTENTIAL PRODUCTS MAY FAIL TO DEMONSTRATE SAFETY AND
EFFICACY,  WHICH  COULD  PREVENT  OR  SIGNIFICANTLY  DELAY  REGULATORY APPROVAL.

Clinical  trials are inherently risky and may reveal that our potential products
are  ineffective  or  have  unacceptable toxicity or other side effects that may
significantly  limit  the  possibility  of  regulatory approval of the potential
product.  The  regulatory review and approval process is extensive and uncertain
and  typically  takes  many  years  to complete.  The FDA requires submission of
extensive  preclinical,  clinical and manufacturing data for each indication for
which  approval  is  sought  in  order  to assess the safety and efficacy of the
potential  product.   In  addition,  the  results  of preliminary studies do not
necessarily  predict  clinical  or  commercial  success,  and larger later-stage
clinical  trials  may  fail  to  confirm the results observed in the preliminary
studies.  With  respect to our own proprietary compounds in development, we have
established  timelines  for  manufacturing  and  clinical  development  based on
existing  knowledge  of  the  compound  and  industry  metrics.  We have limited
experience in conducting clinical studies and may not be able to assure that any
specified  timelines  with  respect  to the initiation or completion of clinical
studies  may  be  achieved.

In  July 2001, we acquired a cancer compound, a rebeccamycin analogue, currently
in  Phase  II clinical studies.  This compound was manufactured by Bristol-Myers
Squibb,  and clinical studies to date have been conducted by the National Cancer
Institute,  or NCI.  We will have to conduct additional studies in order to meet
FDA  requirements  for  regulatory  approval.  We  have  no  prior experience in
conducting  clinical  studies,  and,  in  conjunction with the NCI, we expect to
undertake  further  clinical  development  of this compound under our own IND in
order  to  obtain  regulatory  approval.  We  may  not  be  able  to  rapidly or
effectively  assume  responsibility  for further development of this compound or
assure that any specified timelines with respect to the initiation or completion
of  clinical  studies  may  be  achieved.

WE  LACK  THE  CAPABILITY  TO MANUFACTURE COMPOUNDS FOR CLINICAL TRIALS AND WILL
RELY  ON  THIRD  PARTIES  TO  MANUFACTURE  OUR POTENTIAL PRODUCTS, AND WE MAY BE
UNABLE  TO  OBTAIN  REQUIRED  MATERIAL  IN A TIMELY MANNER OR AT A QUALITY LEVEL
REQUIRED  TO  RECEIVE  REGULATORY  APPROVAL.

We  currently  do not have manufacturing capabilities or experience necessary to
produce materials for clinical trials, including our Phase II clinical compound,
a  rebeccamycin  analogue.  We  intend  to rely on collaborators and third-party
contractors to produce materials necessary for preclinical and clinical studies.
We  will  rely  on selected manufacturers to deliver materials on a timely basis
and  to  comply  with  applicable  regulatory  requirements, including the FDA's
current  Good  Manufacturing  Practices, or GMP.  These manufacturers may not be
able  to  produce  material  on  a  timely  basis or manufacture material at the
quality  level or in the quantity required to meet our development timelines and
applicable regulatory requirements.  If we are unable to contract for production
of sufficient quantity and quality of materials on acceptable terms, our planned
clinical trials may be delayed.  Delays in preclinical or clinical studies could
delay  the filing of our INDs and the initiation of clinical trials that we have
currently  planned.

SOCIAL  ISSUES  MAY  LIMIT  THE  PUBLIC  ACCEPTANCE  OF  GENETICALLY  ENGINEERED
PRODUCTS,  WHICH  COULD  REDUCE  DEMAND  FOR  OUR  PRODUCTS.

Although  our  technology  is  not  dependent  on  genetic  engineering, genetic
engineering  plays  a prominent role in our approach to product development. For
example,  research efforts focusing on plant traits may involve either selective
breeding  or  modification  of  existing  genes in the plant under study. Public
attitudes  may  be influenced by claims that genetically engineered products are
unsafe  for  consumption  or  pose  a danger to the environment. Such claims may
prevent  our genetically engineered products from gaining public acceptance. The
commercial  success  of  our  future  products  will  depend, in part, on public
acceptance  of  the  use of genetically engineered products, including drugs and
plant  and  animal  products.

The  subject  of genetically modified organisms has received negative publicity,
which  has  aroused  public debate. For example, certain countries in Europe are
considering  regulations  that  may  ban products or require express labeling of
products  that  contain  genetic  modifications  or  are "genetically modified."
Adverse  publicity  has resulted in greater regulation internationally and trade
restrictions  on  imports  of genetically altered products. If similar action is
taken in the U.S., genetic research and genetically engineered products could be
subject  to  greater  domestic  regulation,  including  stricter  labeling
requirements.  To  date, our business has not been hampered by these activities.
However,  such  publicity  in the future may prevent any products resulting from
our  research from gaining market acceptance and reduce demand for our products.

LAWS  AND  REGULATIONS  MAY  REDUCE  OUR  ABILITY TO SELL GENETICALLY ENGINEERED
PRODUCTS  THAT  WE  OR  OUR  COLLABORATORS  DEVELOP  IN  THE  FUTURE.

We  or  our  collaborators  may  develop genetically engineered agricultural and
animal  products.  The  field-testing,  production  and marketing of genetically
engineered  products  are  subject  to  regulation  by federal, state, local and
foreign  governments.  Regulatory  agencies  administering  existing  or  future
regulations  or  legislation  may  prevent  us  from  producing  and  marketing
genetically  engineered  products  in  a  timely  manner or under technically or
commercially  feasible  conditions.  In  addition,  regulatory action or private
litigation  could result in expenses, delays or other impediments to our product
development programs and the commercialization of products. The FDA has released
a  policy  statement stating that it will apply the same regulatory standards to
foods  developed  through  genetic  engineering as it applies to foods developed
through traditional plant breeding. Genetically engineered food products will be
subject  to  premarket review, however, if these products raise safety questions
or  are  deemed to be food additives. Our products may be subject to lengthy FDA
reviews  and  unfavorable  FDA  determinations if they raise questions regarding
safety  or  our  products  are  deemed  to  be  food  additives.

The  FDA  has  also  announced  that  it will not require genetically engineered
agricultural products to be labeled as such, provided that these products are as
safe  and  have the same nutritional characteristics as conventionally developed
products.  The  FDA  may  reconsider  or change its policies, and local or state
authorities  may  enact  labeling  requirements,  either  of  which could have a
material  adverse  effect  on our ability or the ability of our collaborators to
develop  and  market  products  resulting  from  our  efforts.

WE  USE  HAZARDOUS  CHEMICALS  AND  RADIOACTIVE  AND BIOLOGICAL MATERIALS IN OUR
BUSINESS. ANY CLAIMS RELATING TO IMPROPER HANDLING, STORAGE OR DISPOSAL OF THESE
MATERIALS  COULD  BE  TIME  CONSUMING  AND  COSTLY.

Our  research  and development processes involve the controlled use of hazardous
materials,  including  chemicals  and  radioactive and biological materials. Our
operations  produce  hazardous  waste  products. We cannot eliminate the risk of
accidental  contamination  or  discharge  and  any  resultant  injury from these
materials.  Federal,  state  and  local  laws  and  regulations  govern the use,
manufacture,  storage,  handling  and disposal of hazardous materials. We may be
sued  for  any  injury  or contamination that results from our use or the use by
third  parties  of  these  materials, and our liability may exceed our insurance
coverage  and  our  total  assets.  Compliance  with  environmental  laws  and
regulations  may  be  expensive, and current or future environmental regulations
may  impair  our  research,  development  and  production  efforts.

In  addition,  our  collaborators may use hazardous materials in connection with
our  collaborative  efforts.  To  our  knowledge,  their  work  is  performed in
accordance  with  applicable biosafety regulations. In the event of a lawsuit or
investigation,  however,  we  could be held responsible for any injury caused to
persons  or  property  by  exposure to, or release of, these hazardous materials
used  by  these  parties.  Further,  we  may  be  required  to  indemnify  our
collaborators  against  all  damages  and  other  liabilities arising out of our
development  activities  or  products  produced  in  connection  with  these
collaborations.

WE  EXPECT  THAT  OUR  QUARTERLY  RESULTS OF OPERATIONS WILL FLUCTUATE, AND THIS
FLUCTUATION  COULD  CAUSE  OUR  STOCK PRICE TO DECLINE, CAUSING INVESTOR LOSSES.

Our  quarterly  operating  results have fluctuated in the past and are likely to
fluctuate  in  the future. A number of factors, many of which we cannot control,
could  subject  our  operating results and stock price to volatility, including:

     -    recognition  of  upfront  licensing  or  other  fees;
     -    payments of non-refundable upfront or licensing fees to third parties;
     -    acceptance  of  our  technologies  and  platforms;
     -    the  success  rate  of our discovery efforts leading to milestones and
          royalties;
     -    the  introduction  of new technologies or products by our competitors;
     -    the  timing  and  willingness  of  collaborators  to commercialize our
          products;
     -    our  ability  to  enter  into  new  collaborative  relationships;
     -    the  termination  or  non-renewal  of  existing  collaborations;
     -    the  timing  and  amount of expenses incurred for clinical development
          and  manufacturing  of  our  products;
     -    the  impairment  of  acquired  goodwill  and  other  assets;  and
     -    general  and industry-specific economic conditions that may affect our
          collaborators'  research  and  development  expenditures.

A  large  portion  of our expenses, including expenses for facilities, equipment
and  personnel,  are  relatively fixed in the short term. In addition, we expect
operating  expenses to increase significantly during the next year. Accordingly,
if  our  revenues decline or do not grow as anticipated due to the expiration of
existing contracts or our failure to obtain new contracts, our inability to meet
milestones  or  other  factors, we may not be able to correspondingly reduce our
operating  expenses.  Failure  to  achieve  anticipated levels of revenues could
therefore  significantly  harm  our  operating  results  for a particular fiscal
period.

Due  to the possibility of fluctuations in our revenues and expenses, we believe
that  quarter-to-quarter  comparisons  of  our  operating results are not a good
indication  of our future performance. As a result, in some future quarters, our
operating  results  may  not  meet the expectations of stock market analysts and
investors,  which  could  result  in  a  decline  in  the  price  of  our stock.

OUR  STOCK  PRICE  MAY  BE  EXTREMELY  VOLATILE.

We believe the trading price of our common stock will remain highly volatile and
may  fluctuate  substantially  due  to  factors  such  as  the  following:

     -    the announcement of new products or services by us or our competitors;
     -    the  failure  of  new  products  in  clinical  trials  by  us  or  our
          competitors;
     -    quarterly variations in our or our competitors' results of operations;
     -    failure to achieve operating results projected by securities analysts;
     -    changes  in  earnings  estimates  or  recommendations  by  securities
          analysts;
     -    developments  in  the  biotechnology  industry;
     -    acquisitions  of  other  companies  or  technologies;  and
     -    general  market  conditions  and  other  factors,  including  factors
          unrelated to our operating performance or the operating performance of
          our  competitors.

These  factors  and  fluctuations,  as  well  as general economic, political and
market  conditions,  may  materially  adversely  affect  the market price of our
common  stock.

In  the past, following periods of volatility in the market price of a company's
securities,  securities  class  action  litigation  has often been instituted. A
securities  class  action  suit against us could result in substantial costs and
divert  management's  attention  and  resources, which could have a material and
adverse  effect  on  our  business.

WE  ARE  EXPOSED  TO  RISKS  ASSOCIATED  WITH  ACQUISITIONS.

We  have  made,  and  may  in  the  future make, acquisitions of, or significant
investments  in,  businesses  with  complementary  products,  services  and/or
technologies.  Acquisitions  involve  numerous risks, including, but not limited
to:

     -    difficulties and increased costs in connection with integration of the
          personnel,  operations,  technologies  and  products  of  acquired
          companies;
     -    diversion  of  management's  attention from other operational matters;
     -    the  potential  loss  of  key  employees  of  acquired  companies;
     -    the  potential  loss  of  key collaborators of the acquired companies;
     -    lack  of  synergy,  or  the  inability  to realize expected synergies,
          resulting  from  the  acquisition;  and
     -    acquired  intangible  assets  becoming  impaired  as  a  result  of
          technological  advancements  or worse-than-expected performance of the
          acquired  company.

Mergers  and acquisitions are inherently risky, and the inability to effectively
manage these risks could materially and adversely affect our business, financial
condition  and  results  of  operations.

IF PRODUCT LIABILITY LAWSUITS ARE SUCCESSFULLY BROUGHT AGAINST US, WE COULD FACE
SUBSTANTIAL  LIABILITIES  THAT  EXCEED  OUR  RESOURCES.

We  may  be  held  liable  if any product our collaborators or we develop causes
injury  or  is found otherwise unsuitable during product testing, manufacturing,
marketing  or  sale.  Although we intend to obtain general liability and product
liability  insurance,  this insurance may be prohibitively expensive, or may not
fully  cover our potential liabilities. Inability to obtain sufficient insurance
coverage  at  an  acceptable  cost  or  to  otherwise  protect ourselves against
potential  product  liability  claims  could  prevent  or  inhibit  the
commercialization  of  products  developed  by  our  collaborators  or  us.

OUR  HEADQUARTERS  FACILITIES ARE LOCATED NEAR KNOWN EARTHQUAKE FAULT ZONES, AND
THE  OCCURRENCE  OF  AN  EARTHQUAKE  OR  OTHER CATASTROPHIC DISASTER COULD CAUSE
DAMAGE  TO  OUR  FACILITIES  AND  EQUIPMENT,  WHICH COULD REQUIRE US TO CEASE OR
CURTAIL  OPERATIONS.

Given  our  headquarters  location  in  South  San Francisco, our facilities are
vulnerable  to  damage  from  earthquakes.  We  are also vulnerable worldwide to
damage  from  other  types  of  disasters,  including  fire, floods, power loss,
communications  failures  and similar events. If any disaster were to occur, our
ability  to  operate  our  business  at  our  facilities  would be seriously, or
potentially completely, impaired. In addition, the unique nature of our research
activities  could cause significant delays in our programs and make it difficult
for us to recover from a disaster. The insurance we maintain may not be adequate
to  cover  our  losses resulting from disasters or other business interruptions.
Accordingly, an earthquake or other disaster could materially and adversely harm
our  ability  to  conduct  business.

FUTURE  SALES  OF  OUR  COMMON  STOCK  MAY  DEPRESS  OUR  STOCK  PRICE.

If  our  stockholders  sell  substantial  amounts of our common stock (including
shares  issued  upon  the  exercise  of outstanding options and warrants) in the
public  market,  the  market  price of our common stock could fall.  These sales
also  might  make  it  more  difficult  for  us to sell equity or equity-related
securities  in  the  future at a time and price that we deemed appropriate.  For
example,  following an acquisition, a significant number of shares of our common
stock  held  by  new  stockholders became freely tradable.  Similarly, shares of
common  stock held by existing stockholders prior to our initial public offering
became  freely  tradable  in  2000,  subject in some instances to the volume and
other limitations of Rule 144.  Sales of these shares and other shares of common
stock  held  by existing stockholders could cause the market price of our common
stock  to  decline.

SOME OF OUR EXISTING STOCKHOLDERS CAN EXERT CONTROL OVER US, AND THEIR INTERESTS
COULD  CONFLICT  WITH  THE  BEST  INTERESTS  OF  OUR  OTHER  STOCKHOLDERS.

Due  to  their  combined  stock  holdings, our officers, directors and principal
stockholders  (stockholders  holding  more  than  5% of our common stock) acting
together,  may be able to exert significant influence over all matters requiring
stockholder  approval,  including  the  election  of  directors  and approval of
significant corporate transactions. In addition, this concentration of ownership
may  delay or prevent a change in control of our company, even when a change may
be  in  the  best  interests  of our stockholders. In addition, the interests of
these  stockholders  may  not always coincide with our interests as a company or
the interests of other stockholders. Accordingly, these stockholders could cause
us  to  enter  into  transactions  or  agreements  that  you  would not approve.

ITEM  6.  EXHIBITS  AND  REPORTS  ON  FORM  8-K

     (a)  Exhibits

          The exhibits listed on the accompanying index to exhibits are filed or
          incorporated  by  reference  (as  stated  therein)  as  part  of  this
          Quarterly  Report  on  Form  10-Q.

     (b)  Reports  on  Form  8-K

          On  October  28,  2002,  the Company filed an Item 5 Current Report on
          Form  8-K  announcing  the  signing  of  an  alliance  agreement  with
          SmithKline  Beecham  Corporation.






                                    SIGNATURE



Pursuant  to  the  requirements  of  the  Securities  Exchange  Act of 1934, the
registrant  has  duly  caused  this  report  to  be  signed on its behalf by the
undersigned  thereunto  duly  authorized.


Date:  November  7,  2002





                              EXELIXIS,  INC.



                              /s/  Glen  Y.  Sato
                              -------------------
                              Glen  Y.  Sato
                              Chief  Financial  Officer, Vice President of Legal
                                Affairs  and  Secretary
                              (Principal  Financial  and  Accounting  Officer)



                                  CERTIFICATION

I,  George A. Scangos, Ph.D., Chief Executive Officer of Exelixis, Inc., certify
that:

1.  I  have  reviewed  this  quarterly  report  on  Form 10-Q of Exelixis, Inc.;

2.  Based  on  my  knowledge,  this quarterly report does not contain any untrue
statement  of a material fact or omit to state a material fact necessary to make
the  statements  made, in light of the circumstances under which such statements
were  made,  not misleading with respect to the period covered by this quarterly
report;

3.  Based  on  my  knowledge,  the  financial  statements,  and  other financial
information  included  in  this quarterly report, fairly present in all material
respects  the  financial  condition, results of operations and cash flows of the
registrant  as  of,  and  for,  the  periods presented in this quarterly report;

4.  The  registrant's  other  certifying  officers  and  I  are  responsible for
establishing  and  maintaining disclosure controls and procedures (as defined in
Exchange  Act  Rules  13a-14  and  15d-14)  for  the  registrant  and  we  have:

     a) designed such disclosure controls and procedures to ensure that material
     information  relating  to  the  registrant,  including  its  consolidated
     subsidiaries,  is  made  known  to  us  by  others  within  those entities,
     particularly  during  the  period  in  which this quarterly report is being
     prepared;

     b)  evaluated the effectiveness of the registrant's disclosure controls and
     procedures  as  of  a  date within 90 days prior to the filing date of this
     quarterly  report  (the  "Evaluation  Date");  and

     c)  presented  in  this  quarterly  report  our  conclusions  about  the
     effectiveness  of  the  disclosure  controls  and  procedures  based on our
     evaluation  as  of  the  Evaluation  Date;

5. The registrant's other certifying officers and I have disclosed, based on our
most  recent evaluation, to the registrant's auditors and the audit committee of
registrant's board of directors (or persons performing the equivalent function):

     a)  all  significant  deficiencies  in  the design or operation of internal
     controls  which  could adversely affect the registrant's ability to record,
     process,  summarize  and  report financial data and have identified for the
     registrant's  auditors  any  material  weaknesses in internal controls; and

     b)  any  fraud,  whether or not material, that involves management or other
     employees  who  have  a  significant  role  in  the  registrant's  internal
     controls;  and

6.  The  registrant's  other  certifying  officers  and I have indicated in this
quarterly  report  whether  or  not  there  were significant changes in internal
controls  or  in other factors that could significantly affect internal controls
subsequent  to  the date of our most recent evaluation, including any corrective
actions  with  regard  to  significant  deficiencies  and  material  weaknesses.

Date:  November  7,  2002
       ----------------------------------

/s/  George  A.  Scangos
- -----------------------------------------
George  A.  Scangos
President  and  Chief  Executive  Officer

                                  CERTIFICATION

I,  Glen  Y.  Sato,  Chief  Financial  Officer  of Exelixis, Inc., certify that:

1.  I  have  reviewed  this  quarterly  report  on  Form 10-Q of Exelixis, Inc.;

2.  Based  on  my  knowledge,  this quarterly report does not contain any untrue
statement  of a material fact or omit to state a material fact necessary to make
the  statements  made, in light of the circumstances under which such statements
were  made,  not misleading with respect to the period covered by this quarterly
report;

3.  Based  on  my  knowledge,  the  financial  statements,  and  other financial
information  included  in  this quarterly report, fairly present in all material
respects  the  financial  condition, results of operations and cash flows of the
registrant  as  of,  and  for,  the  periods presented in this quarterly report;

4.  The  registrant's  other  certifying  officers  and  I  are  responsible for
establishing  and  maintaining disclosure controls and procedures (as defined in
Exchange  Act  Rules  13a-14  and  15d-14)  for  the  registrant  and  we  have:

     a) designed such disclosure controls and procedures to ensure that material
     information  relating  to  the  registrant,  including  its  consolidated
     subsidiaries,  is  made  known  to  us  by  others  within  those entities,
     particularly  during  the  period  in  which this quarterly report is being
     prepared;

     b)  evaluated the effectiveness of the registrant's disclosure controls and
     procedures  as  of  a  date within 90 days prior to the filing date of this
     quarterly  report  (the  "Evaluation  Date");  and

     c)  presented  in  this  quarterly  report  our  conclusions  about  the
     effectiveness  of  the  disclosure  controls  and  procedures  based on our
     evaluation  as  of  the  Evaluation  Date;

5. The registrant's other certifying officers and I have disclosed, based on our
most  recent evaluation, to the registrant's auditors and the audit committee of
registrant's board of directors (or persons performing the equivalent function):

     a)  all  significant  deficiencies  in  the design or operation of internal
     controls  which  could adversely affect the registrant's ability to record,
     process,  summarize  and  report financial data and have identified for the
     registrant's  auditors  any  material  weaknesses in internal controls; and

     b)  any  fraud,  whether or not material, that involves management or other
     employees  who  have  a  significant  role  in  the  registrant's  internal
     controls;  and

6.  The  registrant's  other  certifying  officers  and I have indicated in this
quarterly  report  whether  or  not  there  were significant changes in internal
controls  or  in other factors that could significantly affect internal controls
subsequent  to  the date of our most recent evaluation, including any corrective
actions  with  regard  to  significant  deficiencies  and  material  weaknesses.

Date:  November  7,  2002
       ------------------------------------

/s/  Glen  Y.  Sato
- -------------------------------------------
Glen  Y.  Sato
Chief  Financial  Officer,  Vice  President
    of  Legal  Affairs  and  Secretary




                                INDEX TO EXHIBITS

Exhibit
Number    Description  of  Document
- ------    -------------------------

3.1       Amended  and  Restated  Certificate  of  Incorporation  (1)

3.2       Amended  and  Restated  Bylaws  (1)

4.1       Specimen  Common  Stock  Certificate  (1)

10.36*    Product  Development  and  Commercialization  Agreement,  dated as of
          October  28,  2002,  by and between SmithKline Beecham Corporation and
          Exelixis,  Inc.

10.37*    Stock  Purchase  and Stock Issuance Agreement, dated as of October 28,
          2002, by and between SmithKline Beecham Corporation and Exelixis, Inc.

10.38*    Loan  and  Security  Agreement, dated as of October 28, 2002, by and
          between SmithKline  Beecham  Corporation  and  Exelixis,  Inc.

99.1      Certification pursuant  to  Section  906  of the Sarbanes-Oxley Act of
          2002.  (2)

- ----------------

(1)  Filed  with  Exelixis,  Inc. Registration Statement on Form S-1, as amended
     (No.  333-96335),  declared  effective  by  the  Securities  and  Exchange
     Commission  on  April  10,  2000,  and  incorporated  herein  by reference.

(2)  This certification accompanies this Quarterly Report on Form 10-Q and shall
     not  be  deemed "filed" by Exelixis, Inc. for purposes of Section 18 of the
     Securities  Exchange  Act  of  1934,  as  amended.

*    Confidential  treatment  requested  for  certain  portions of this exhibit.