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: JUNE 30, 2001

                                       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)

                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  July  31,  2001, there were 49,161,649 shares of the registrant's common
stock  outstanding.




                                 EXELIXIS, INC.

                                    FORM 10-Q

                                      INDEX

                         PART I.   FINANCIAL INFORMATION

                                                                        Page No.

Item 1.    Consolidated  Financial  Statements

           Consolidated Condensed Balance Sheets
           June 30, 2001 and December 31, 2000                              3

           Consolidated Condensed Statements of Operations
           Three and Six Months ended June 30, 2001 and 2000                4

           Consolidated Condensed Statements of Cash Flows
           Six Months ended June 30, 2001 and 2000                          5

           Notes to Consolidated Condensed Financial Statements             6

Item 2.    Management's Discussion and Analysis of
           Financial Condition and Results of Operations                   11

Item 3.    Quantitative and Qualitative Disclosures About
           Market  Risk                                                    16

                           PART II. OTHER INFORMATION

Item 2.    Changes in Securities and Use of Proceeds                       17

Item 4.    Submission of Matters to a Vote of Security Holders             18

Item 5.    Other Information - Risk Factors                                19

Item 6.    Exhibits and Reports on Form 8-K                                30

                                    SIGNATURE




                         PART I.  FINANCIAL INFORMATION

Item  1.  Consolidated  Financial  Statements




                                 EXELIXIS, INC.
                      CONSOLIDATED CONDENSED BALANCE SHEETS
                                 (IN THOUSANDS)


                                                  JUNE 30,    DECEMBER 31,
                                                    2001        2000 (1)
                                               ----------  --------------
                                                (unaudited)
                                                       
ASSETS
Current assets:
  Cash and cash equivalents                      $  46,063   $      19,552
  Short-term investments                            76,990          93,000
  Other receivables                                  2,689           1,493
  Inventories                                            -           3,612
  Other current assets                               2,791           1,987
                                                 ----------  --------------
    Total current assets                           128,533         119,644

Property and equipment, net                         35,639          23,480
Related party receivables                              993             494
Goodwill and other intangibles, net                 68,851          58,674
Other assets                                         4,503           2,622
                                                 ----------  --------------
    Total assets                                 $ 238,519   $     204,914
                                                 ==========  ==============

LIABILITIES AND STOCKHOLDERS' EQUITY
Current liabilities:
  Accounts payable and accrued expenses          $  11,304   $      10,050
  Line of credit                                         -           1,484
  Current portion of capital lease obligations       5,750           3,826
  Current portion of notes payable                   3,539           1,664
  Advances from minority shareholders                    -             868
  Deferred revenue                                   6,463           6,233
                                                 ----------  --------------
    Total current liabilities                       27,056          24,125

Capital lease obligations                            8,778           6,341
Notes payable                                        1,128           1,635
Convertible promissory note                         30,000               -
Minority interest in consolidated subsidiary             -           1,044
Other long-term liabilities                            200               -
Deferred revenue                                    17,831           9,036
                                                 ----------  --------------
    Total liabilities                               84,993          42,180
                                                 ----------  --------------

Stockholders' equity:
  Common stock                                          50              47
  Additional paid-in-capital                       328,008         304,339
  Notes receivable from stockholders                (1,701)         (1,805)
  Deferred stock compensation, net                  (6,800)        (10,174)
  Accumulated other comprehensive income               434             365
  Accumulated deficit                             (166,465)       (130,038)
                                                 ----------  --------------
    Total stockholders' equity                     153,526         162,734
                                                 ----------  --------------

    Total liabilities and stockholders' equity   $ 238,519   $     204,914
                                                 ==========  ==============
<FN>

(1)  The  consolidated  condensed  balance  sheet  at December 31, 2000 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 AMOUNTS)
                                                (unaudited)

                                               THREE MONTHS ENDED JUNE 30,   SIX MONTHS ENDED JUNE 30,
                                               ---------------------------   -------------------------

                                                    2001       2000               2001       2000
                                                  ---------  ---------         ---------  ---------
                                                                              
Revenues:
License                                           $    924   $    932          $  1,848   $  1,864
Contract and government grants                       7,627      4,684            14,437      9,703
                                                  ---------  ---------          ---------  ---------
Total revenues                                       8,551      5,616            16,285     11,567
                                                  ---------  ---------          ---------  ---------

Operating expenses:
Research and development (1)                        20,555     13,365            37,370     22,299
General and administrative (2)                       4,976      4,921             9,236      9,216
Amortization of goodwill and intangibles             1,226          -             2,276          -
Acquired in-process research and development         6,673          -             6,673          -
                                                  ---------  ---------          ---------  ---------
Total operating expenses                            33,430     18,286            55,555     31,515
                                                  ---------  ---------          ---------  ---------

Loss from operations                               (24,879)   (12,670)          (39,270)   (19,948)

Other income (expense):
   Interest and other income                         1,597      1,866             3,492      2,014
   Interest expense                                   (426)      (168)             (649)      (326)
                                                  ---------  ---------          ---------  ---------
Total other income                                   1,171      1,698             2,843      1,688

Net loss                                          $(23,708)  $(10,972)         $(36,427)  $(18,260)
                                                  =========  =========         =========  =========

Net loss per share, basic and diluted             $  (0.52)  $  (0.32)         $  (0.81)  $  (0.90)
                                                  =========  =========         =========  =========

Shares used in computing net loss per share,
   basic and diluted                                45,724     34,622            45,048     20,263
                                                  =========  =========         =========  =========

<FN>

(1)  Includes  stock  compensation  expense of $1,633 and $3,998 in the quarters
ended  June  30,  2001  and  2000, respectively, and includes stock compensation
expense  of  $2,800  and $6,002 in the six month periods ended June 30, 2001 and
2000,  respectively.
(2) Includes stock compensation expense of $661 and $1,297 in the quarters ended
June 30, 2001 and 2000, respectively, and includes stock compensation expense of
$1,370  and  $2,556  in  the  six  month  periods  ended June 30, 2001 and 2000,
respectively.


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





                                                  EXELIXIS, INC.
                                 CONSOLIDATED CONDENSED STATEMENTS OF CASH FLOWS
                                                  (IN THOUSANDS)
                                                   (unaudited)

                                                                                          SIX MONTHS ENDED JUNE 30,
                                                                                         --------------------------

                                                                                               2001       2000
                                                                                             ---------  ---------
                                                                                                  
Cash flows from operating activities:
  Net loss                                                                                   $(36,427)  $(18,260)
  Adjustments to reconcile net loss to net cash provided by (used in) operating activities:
    Depreciation and amortization                                                               4,401      1,749
    Amortization of deferred stock compensation                                                 4,170      8,558
    Amortization of goodwill and other intangibles                                              2,276          -
    Acquired in-process research and development                                                6,673          -
  Changes in assets and liabilities:
    Other receivables                                                                            (587)      (751)
    Other current assets                                                                         (962)      (973)
    Related party receivables                                                                    (399)       160
    Other assets                                                                               (2,203)       (20)
    Accounts payable and accrued expenses                                                      (2,070)     2,800
    Deferred revenue                                                                            9,747     10,163
                                                                                             ---------  ---------
      Net cash provided by (used in) operating activities                                     (15,381)     3,426
                                                                                             ---------  ---------

Cash flows from investing activities:
  Purchases of property and equipment                                                         (10,403)    (8,498)
  Proceeds from sale-leaseback of equipment                                                     4,008          -
  Cash acquired in acquisition                                                                  3,463          -
  Proceeds from maturity of short-term investments                                             90,469          -
  Purchases of short-term investments                                                         (74,203)   (73,045)
                                                                                             ---------  ---------
      Net cash provided by (used in) investing activities                                      13,334    (81,543)
                                                                                             ---------  ---------

Cash flows from financing activities:
  Proceeds from initial public offering, net                                                        -    124,709
  Proceeds from convertible note                                                               30,000          -
  Proceeds from exercise of stock options and warrants                                            309        545
  Proceeds from employee stock purchase plan                                                    1,198          -
  Repayments of notes from stockholders                                                           105          -
  Principal payments on capital lease obligations                                              (1,922)      (386)
  Principal payments on notes payable                                                          (1,025)      (733)
                                                                                             ---------  ---------
      Net cash provided by financing activities                                                28,665    124,135
                                                                                             ---------  ---------

Effect of foreign exchange rate changes on cash                                                  (107)         -

Net increase in cash and cash equivalents                                                      26,511     46,018
Cash and cash equivalents, at beginning of period                                              19,552      5,400
                                                                                             ---------  ---------
Cash and cash equivalents, at end of period                                                  $ 46,063   $ 51,418
                                                                                             =========  =========

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


                                 EXELIXIS, INC.
              NOTES TO CONSOLIDATED CONDENSED FINANCIAL STATEMENTS
                                  JUNE 30, 2001
                                   (UNAUDITED)

NOTE  1.   ORGANIZATION  AND  SUMMARY  OF  SIGNIFICANT  ACCOUNTING  POLICIES

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

Exelixis,  Inc.  ("Exelixis" or the "Company") is a genomics-based biotechnology
company  focused  on  product  development  through its expertise in comparative
genomics  and  model system genetics.  An outstanding team of Company scientists
has  developed  multiple  fungal, nematode, insect, plant and vertebrate genetic
systems.  Exelixis'  proprietary  model  systems  and  comparative  genomics
technologies  address  gene  function  by using biologically relevant functional
genomics  information  very  early on in the process to rapidly, efficiently and
cost-effectively  translate  sequence  data  to  knowledge about the function of
genes  and  the  proteins  that they encode.  The Company also has a significant
internal  cancer discovery and drug development program.  Exelixis believes that
its  technology  is  broadly applicable to all life science industries including
pharmaceutical,  diagnostic,  agricultural  biotechnology and animal health. The
Company  has  active  partnerships  with  Aventis,  Bayer, Bristol-Myers Squibb,
Pharmacia,  Protein  Design  Labs  and  Dow  AgroSciences.

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

The accompanying unaudited condensed consolidated financial statements have been
prepared  by  the  Company  in  accordance  with accounting principles generally
accepted  in  the United States of America 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  six  month  periods  ended  June 30, 2001 are not
necessarily  indicative  of the results that may be expected for the year ending
December  31,  2001,  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, 2000 included in the Company's
Annual  Report  on  Form  10-K.

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

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


Comprehensive  Income
- ---------------------

There  are  two  components  of  other comprehensive income: unrealized gains on
available-for-sale securities and foreign currency translation adjustments.  For
the  three  and  six month periods ended June 30, 2001, total comprehensive loss
amounted  to  approximately $23.7 and $36.5 million, respectively. For the three
and  six month periods ended June 30, 2000, total comprehensive loss amounted to
$10.9  million  and  $18.2  million,  respectively.

Foreign  Currency  Translation
- ------------------------------

The  Company's German subsidiary, Artemis Pharmaceuticals GmbH ("Artemis"), uses
its  local  currency  as  its  functional  currency.  Assets and liabilities are
translated  at exchange rates in effect at the balance sheet date and income and
expense  amounts  at  the  average  exchange rates during the period.  Resulting
translation  adjustments  are  recorded  directly  to  a  separate  component of
stockholders'  equity.

Reclassification
- ----------------

Certain  prior  period  amounts have been reclassified to conform to the current
period  presentation.

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

In  July 2001, the Financial Accounting Standards Board ("FASB") issued SFAS No.
141  "Business  Combinations"  ("SFAS  No.  141"),  which  establishes financial
accounting  and  reporting  for business combinations and supersedes APB Opinion
No.  16,  Business  Combinations,  and  FASB  Statement  No.  38, Accounting for
Preacquisition  Contingencies  of  Purchased  Enterprises. SFAS No. 141 requires
that  all  business combinations be accounted for using one method, the purchase
method.  The  provisions  of  SFAS  No.  141  apply to all business combinations
initiated  after June 30, 2001. The adoption of SFAS No. 141 is expected to have
no  material  impact  on  financial  reporting  and  related  disclosures of the
Company.

In  July  2001,  the  FASB  issued  SFAS  No. 142 "Goodwill and Other Intangible
Assets"  ("SFAS  No. 142"), which establishes financial accounting and reporting
for acquired goodwill and other intangible assets and supersedes APB Opinion No.
17,  Intangible  Assets.  SFAS  No. 142 addresses how intangible assets that are
acquired individually or with a group of other assets (but not those acquired in
a  business  combination)  should  be accounted for in financial statements upon
their  acquisition,  and  after  they  have  been  initially  recognized  in the
financial  statements.  The  provisions of SFAS No. 142 are effective for fiscal
years  beginning  after  December 15, 2001.  The Company will adopt SFAS No. 142
during the first quarter of fiscal 2002, and is in the process of evaluating the
impact  of  implementation  on  the  financial  position  of  the  Company.

NOTE  2.  SALE  OF  VINIFERA  OWNERSHIP  INTEREST

On  March 31, 2001, the Company reduced its ownership interest in Vinifera, Inc.
("Vinifera")  to 19% by selling 3.0 million shares of Vinifera common stock back
to  Vinifera  in  consideration  for $2.1 million in interest bearing promissory
notes.  The  promissory  notes  bear  interest  rates  of  prime plus 1% and are
payable  in  two  installments of $400,000, due no later than September 30, 2001
and February 28, 2002, respectively, and one installment of $1.3 million, due on
February  28,  2006.  Due to risks associated with Vinifera's operating results,
the  Company  has  reserved  for  $1.7  million  of  these  promissory  notes.

As  a  result of this transaction, the Company recorded the following amounts as
an  adjustment  to  goodwill  recorded  in  connection  with  the acquisition of
Agritope,  Inc.  (parent company of Vinifera), based on the operating results of
Vinifera through March 31, 2001: a write down of the value of acquired developed
technology  attributable to Vinifera, a gain on sale of Vinifera shares, and the
promissory  note reserve.  The net adjustment was an increase to goodwill in the
amount  of  $675,000.  Beginning  April  1,  2001,  the Company accounts for its
remaining  investment  in  Vinifera  using  the  cost  method.

NOTE  3.   ACQUISITION  OF  ARTEMIS

In  May  2001,  Exelixis acquired a majority of the outstanding capital stock of
Artemis,  a  privately  held  genetics and functional genomics company organized
under  the  laws of Germany.  The transaction, which was accounted for under the
purchase  method  of  accounting, was effected through the exchange of shares of
Exelixis  common  stock  for DEM 1.00 of nominal value of Artemis capital stock,
using  an  exchange  ratio  of 4.064 to one. Approximately 1.6 million shares of
Exelixis common stock were issued in exchange for 78% of the outstanding capital
stock  of  Artemis  held  by  the  Artemis  stockholders.  In addition, Exelixis
received  a  call  option (the "Call Option") from, and issued a put option (the
"Put Option") to, certain stockholders of Artemis (the "Option Holders") for the
issuance  of  approximately  480,000 shares of Exelixis common stock in exchange
for  the  remaining  22% of the outstanding capital stock of Artemis held by the
Artemis  stockholders.  Exelixis  may  exercise the Call Option at any time from
May 14, 2001 through January 31, 2002, and the Option Holders may exercise their
rights under the Put Option at any time from April 1, 2002 through May 15, 2002.
The  value  of  any  shares issued pursuant to exercising the Call Option or Put
Option  will  be added to goodwill. In connection with the acquisition, Exelixis
also  issued  fully  vested  options  representing  the  right  to  purchase
approximately  187,000  additional  shares  of  Exelixis common stock to Artemis
employees  in  exchange for such employees' vested options formerly representing
the  right  to  purchase shares of Artemis capital stock pursuant to an Employee
Phantom  Stock  Option  Program.

The  total  consideration  for  the acquisition was approximately $22.3 million,
which consisted of Exelixis common stock and options valued at $21.4 million and
estimated  Exelixis  transaction  costs of $900,000. Exelixis' transaction costs
include  financial  advisory,  legal,  accounting  and  other  fees.

Based  upon  an  independent  valuation  of  the  tangible and intangible assets
acquired,  Exelixis  management  has  completed  a preliminary allocation of the
total  cost of the acquisition to the assets acquired and liabilities assumed as
follows  (in  thousands):

Tangible  assets  acquired                   $6,848
In-process  research  and  development        6,673
Developed  technology                         1,240
Assembled  workforce                          1,332
Goodwill                                      9,655
Patents/core  technology                        571
Liabilities  assumed                         (4,016)
                                            -------
                                            $22,303
                                            =======
The  Company  will  amortize  the acquired intangible assets using the following
estimated  useful  lives:

Developed  technology          5  years
Patents/core  technology      15  years
Assembled  workforce           3  years
Goodwill                      15  years

The  valuation  of  the  purchased  in-process  research and development of $6.7
million  was based upon the results of an independent valuation using the income
approach  for  each of the three significant in-process projects. The in-process
projects relate primarily to the development of technologies that use vertebrate
genetic  model  organisms,  zebrafish  and  mice,  to  identify and functionally
validate  novel  genes  in  vivo.  These  genes  can  be used as novel screening
targets  or  as  the  basis for secreted proteins in clinically and commercially
relevant  diseases.  The  in-process  projects are expected to be completed over
the  next  18  months.  The income approach estimates the value of each acquired
project  in-process  based  on  its  expected  future  cash flows. The valuation
analysis  considered  the  contribution  of  the  core technology as well as the
percent  complete  of  each  in-process  research  and  development project. The
expected present value of the cash flows associated with the in-process research
and  development  projects  was computed using a risk adjusted rate of return of
30%, which is considered commensurate with the overall risk and percent complete
of  the  in-process  projects. The purchased in-process research and development
was  not  considered  to  have  reached technological feasibility, and it has no
alternative  future  use,  accordingly,  it  has been recorded as a component of
operating  expense.

The  revenues,  expenses,  cash  flows  and  other  assumptions  underlying  the
estimated fair value of the acquired in-process research and development involve
significant risks and uncertainties. The risks and uncertainties associated with
completing  the acquired in-process projects include the ability to reach future
research  milestones  since  the  technologies being developed are unproven, the
ability  to  retain  key  personal,  the  ability  to  obtain  licenses  to  key
technology,  and the ability to avoid infringing on patents and propriety rights
of  third  parties.

PRO  FORMA  RESULTS

The Company's historical statements of operations include the results of Artemis
and  Agritope,  Inc.  (now  Exelixis  Plant  Sciences,  Inc.)  subsequent to the
acquisition  dates  of  May  14,  2001  and December 8, 2000, respectively.  The
following  unaudited  pro  forma financial information presents the consolidated
results  of  the  Company  as  if  the  acquisitions of Artemis and Agritope had
occurred  at the beginning of each period presented.  Nonrecurring charges, such
as  acquired  in-process  research  and  development,  are  not reflected in the
following pro forma financial information.  This unaudited pro forma information
is  not  intended  to  be  indicative of future operating results (in thousands,
except  per  share  data).



                                     SIX MONTHS ENDED JUNE 30,
                                     -------------------------
                                         2001       2000
                                       ---------  ---------
                                            
Total revenues                         $ 16,359   $ 16,541
Net loss                               $(25,754)  $(33,357)
Net loss per share, basic and diluted  $  (1.09)  $  (0.72)



NOTE  4.   SUPPLEMENTAL  STOCK  OPTION  PLAN

During  April 2001, the Company granted approximately 545,000 supplemental stock
options  ("Supplemental  Options")  under  the  2000  Equity  Incentive  Plan to
employees (excluding officers and directors) who had stock options with exercise
prices  greater  than $16.00 per share under the 2000 Equity Incentive Plan. The
number  of  Supplemental  Options granted were equal to 50% of the corresponding
original  grant  held  by  each employee, 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 grants was halted 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 FASB
Interpretation  Number  44  "Accounting for Certain Transactions Involving Stock
Compensation"  and  will  result  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  quarter  ended  June 30, 2001, the
compensation  expense  recorded  for these supplemental options is approximately
$0.3  million.

NOTE  5.   COMMITMENTS

During  April  2001,  the  Company  entered into a master lease agreement with a
third party lessor for an equipment lease line of credit of up to $12.0 million,
which  expires  on  December 31, 2001. The master lease agreement provides for a
periodic delivery structure. Each delivery has a payment term of 36 or 48 months
depending  on  the  type of the equipment purchased under the lease. At June 30,
2001,  $7.9  million  was  outstanding under the equipment lease line of credit.
Under  the  master  lease agreement, the Company is subject to certain financial
covenants.  As  of  June  30,  2001, the Company was in compliance with all such
covenants.

NOTE  6.   COLLABORATION  AGREEMENTS

On  May 22, 2001, the Company and Protein Design Labs, Inc. ("PDL") entered into
a  collaboration to discover and develop humanized antibodies for the diagnosis,
prevention  and  treatment  of  cancer. The collaboration will utilize Exelixis'
model  organism  genetics  technology  for the identification of new cancer drug
targets,  and  PDL's  antibody  and clinical development expertise to create and
develop  new  antibody  drug  candidates.  PDL  will  provide Exelixis with $4.0
million  in  annual  research  funding for two or more years and has purchased a
$30.0  million  convertible  note.  The  note  bears  interest  at 5.75% and the
interest  thereon  is  payable  annually.  The note is convertible into Exelixis
common  stock  at a conversion price per share equal to the lower of (i) $28.175
and  (ii)  110%  of the Fair Market Value (as defined in the note) of a share of
Exelixis  common  stock  at  the  time  of  conversion.

On  July  17, 2001, the Company and Bristol-Myers Squibb Company ("BMS") entered
into  a  collaboration. The collaboration involved three agreements: (a) a Stock
Purchase  Agreement;  (b)  a  Cancer  Collaboration Agreement; and (c) a License
Agreement.  Under  the  terms  of  the  collaboration, BMS (i) purchased 600,600
shares  of  Exelixis  Common Stock in a private placement at a purchase price of
$33.30  per share, for proceeds to Exelixis of approximately $20.0 million; (ii)
agreed  to  pay Exelixis a $5.0 million upfront license fee and provide Exelixis
with $3.0 million per year in research funding for a minimum of three years; and
(iii)  granted  to  Exelixis  a  worldwide,  fully-paid, exclusive license to an
analogue  to  Rebeccamycin  developed  by BMS, which is currently in Phase I and
Phase  II  clinical  studies  for  cancer.  Due  to  risk and uncertainties with
Rebeccamycin, this was given no value in the collaboration agreement.   Exelixis
has  agreed  to  provide  BMS  with  exclusive rights to certain potential small
molecule  compound  drug  targets  in  cancer  identified during the term of the
research  collaboration.  The  premium of $10.0 million on the stock purchase by
BMS  is  being  accounted  for  similar  to  an upfront license fee.  Therefore,
revenue  is  being  recognized  ratably  over  the  life  of  the  contract.

On  July  26,  2001, the Company announced the reacquisition, effective February
2002,  of  future  rights  to  research  programs  in metabolism and alzheimer's
disease  previously licensed exclusively to Pharmacia Corporation ("Pharmacia").
Pharmacia  will  retain  rights to targets under the existing agreement selected
prior  to  the  reacquisition  date,  subject  to  the payment of milestones for
certain  of  those  targets  selected  and  royalties  for future development of
products  against  or  using those targets but will have no other obligations to
make  payments  to  the  Company, including approximately $9.0 million in annual
funding  that  would  otherwise  be  payable  for an additional two years if the
Company  had  not  elected  to  reacquire  rights  to the research at this time.

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 2000 audited
consolidated  financial  statements  and  notes  thereto  included in our Annual
Report  on Form 10-K for the year ended December 31, 2000. Operating results are
not  necessarily  indicative  of  results  that  may  occur  in  future periods.

The  following  discussion and analysis contains forward-looking statements that
are  based  upon current expectations.  Forward-looking statements involve risks
and  uncertainties.  Our  actual  results  and  the  timing of events may differ
significantly  from  the  results  discussed  in the forward-looking statements.
Factors  that  might  cause  such  a difference include, but are not limited to,
those  discussed  in "Risk Factors" as well as those discussed elsewhere in this
document  and  those  discussed  in  our  Annual  Report  on  Form  10-K.

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  mission  is to develop proprietary cancer products by leveraging
our  integrated discovery platform to increase the speed, efficiency and quality
of  pharmaceutical  and  agricultural  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 pharmaceutical research
identifies 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 then represent either
potential  product  targets  or drugs that may treat disease, or prevent disease
initiation  or  progression.

We  have  established commercial collaborations with Aventis CropScience, Bayer,
Bristol-Myers Squibb, Dow AgroSciences, Pharmacia and Protein Design Labs, which
provide us with substantial funding, including licensing fees, research funding,
milestone  payments  when  specific  objectives  are  met  and royalties, if our
partners  successfully develop and commercialize products.  In addition, many of
these  collaborations  provide  us  with  access  to  strategic technologies and
product development opportunities. Revenues from these collaborations were $16.3
million  for  the  six  months ended June 30, 2001, $24.8 million in 2000, $10.5
million  for  the  same  period  in 1999 and $2.3 million for the same period in
1998.  Our sources of potential revenue for the next several years are likely to
include  upfront license and other fees, funded research payments under existing
and  possible  future  collaborative  arrangements  and  milestone  payments and
royalties  from  our  collaborators based on revenues received from any products
commercialized  under  those  agreements.

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  clinical  development  expenses  for  a compound in Phase II
clinical  studies, Exelixis expects to incur additional operating losses for the
foreseeable  future.

License,  research  commitment  and  other  non-refundable  payments received in
connection with research collaboration agreements are deferred and recognized on
a  straight-line  basis  over  the relevant periods specified in the agreements,
generally  the  research term. Exelixis recognizes contract research revenues as
services  are  performed  in  accordance  with  the terms of the agreements. Any
amounts  received  in  advance  of performance are recorded as deferred revenue.

ACQUISITION  OF  ARTEMIS  PHARMACEUTICALS

In  May 2001, we acquired a majority of the outstanding capital stock of Artemis
Pharmaceuticals  GmbH, a privately held genetics and functional genomics company
organized  under  the  laws  of Germany ("Artemis").  The transaction, which was
accounted  for under the purchase method of accounting, was effected through the
exchange  of shares of our common stock for DEM 1.00 of nominal value of Artemis
capital  stock,  using  an  exchange  ratio  of  4.064 to one. Approximately 1.6
million  shares  of  our  common  stock  was  issued  in exchange for 78% of the
outstanding  capital  stock  of  Artemis  held  by  the Artemis stockholders. In
addition,  we  received a call option (the "Call Option") from, and issued a put
option  (the  "Put  Option")  to,  certain  stockholders of Artemis (the "Option
Holders")  for  the issuance of approximately 480,000 shares of our common stock
in  exchange  for  the remaining 22% of the outstanding capital stock of Artemis
held  by  the  Option Holders.  We may exercise the Call Option at any time from
May 14, 2001 through January 31, 2002, and the Option Holders may exercise their
rights under the Put Option at any time from April 1, 2002 through May 15, 2002.
The  value  of  any  shares issued pursuant to exercising the Call Option or Put
Option  will  be  added to goodwill. In connection with the acquisition, we also
issued  fully  vested  options  representing the right to purchase approximately
187,000  additional  shares of our common stock to Artemis employees in exchange
for  such  employees' vested options formerly representing the right to purchase
shares  of  Artemis  capital  stock pursuant to an Employee Phantom Stock Option
Program.

The  purchase price, which for financial accounting purposes was valued at $22.3
million,  was allocated to the assets acquired and the liabilities assumed based
on  their  estimated  fair  values  at the date of acquisition, as determined by
management  based  upon  an  independent  valuation.  As  a  result  of  this
transaction,  we  recorded  expense  associated  with the purchase of in-process
research  and  development of $6.7 million, net tangible assets of $2.8 million,
and  intangible  assets  (including  goodwill) of $12.8 million, the majority of
which  will  be  amortized  over  15  years.

RESULTS  OF  OPERATIONS

     REVENUES

Total  revenues were $8.6 million and $16.3 million for the three- and six-month
periods  ended  June  30, 2001, respectively, compared to $5.6 million and $11.6
million,  respectively,  for  the  comparable  periods  in 2000. The increase in
revenues  over  the  2000  levels  was  primarily  due to additional license and
contract  revenues earned from existing collaborations with Bayer, Bristol-Myers
Squibb, Pharmacia, and Dow AgroSciences, revenues earned under the collaboration
with Aventis Crop Sciences resulting from our acquisition of Agritope, Inc., now
renamed  Exelixis  Plant  Sciences,  Inc.,  and  revenues  earned  under our new
collaboration  with  PDL entered into in May 2001. Our acquisition of Artemis in
May  2001  also resulted in approximately $0.3 million in additional revenue. We
expect  revenues  to  continue to increase during the remainder of 2001 with the
signing  of  our  new  collaboration agreement with Bristol-Myers Squibb in July
2001.

     RESEARCH  AND  DEVELOPMENT  EXPENSES

Research  and  development  expenses  consist  primarily  of  salaries and other
personnel-related  expenses,  facilities  costs,  supplies  and  depreciation of
facilities  and  laboratory  equipment.  Research  and development expenses were
$20.6  million and $37.4 million for the three- and six-month periods ended June
30,  2001,  respectively,  compared  to  $13.4  million  and  $22.3  million,
respectively,  for  the  comparable  periods  in  2000.  The  increase  was  due
primarily  to  increased  staffing  and  other  personnel-related  costs.  These
expenses  were  incurred to support new collaborative arrangements, our internal
self-funded  research  efforts,  including the significant build-out of our drug
discovery  organization  and  increased expenses related to the ongoing research
and development activities at Agritope and Artemis. This was partially offset by
a  decrease  in  non-cash  stock  compensation  expense (as described below). We
expect  to continue to devote substantial resources to research and development.
In  addition,  we expect that research and development expenses will continue to
increase  in  absolute  dollar  amounts  in  the  future  as  we  assume  the
responsibility for manufacturing and clinical development of a Phase I/II cancer
compound  and as we continue to expand our proprietary drug development efforts.

     GENERAL  AND  ADMINISTRATIVE  EXPENSES

General  and  administrative  expenses  consist  primarily of personnel costs to
support  our  worldwide  activities, facilities costs and professional expenses,
such  as  legal  fees. General and administrative expenses were $5.0 million and
$9.2  million  for  the  three-  and  six-month  periods  ended  June  30, 2001,
respectively,  compared  to $4.9 million and $9.2 million, respectively, for the
comparable  periods  in  2000. General and administrative expenses remained flat
year-over-year  due  primarily  to  a  decrease  in  non-cash stock compensation
expense  (as  described  below)  which  offset  our increased staffing and other
personnel  related  costs  and  rent for facilities and expenses associated with
expanding  our  corporate  headquarters.  We  expect  that  our  general  and
administrative  expenses  will increase in absolute dollar amounts in the future
as  we  support  a  larger,  worldwide  organization  through  expanding  our
administrative  staff  and adding infrastructure to support our growing research
and  development  efforts.

     STOCK  COMPENSATION  EXPENSE

Deferred  stock  compensation  for  options  granted  to  our  employees  is the
difference  between  the  deemed  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  in  accordance  with  SFAS  No.  123,  "Accounting  for  Stock-Based
Compensation"  ("SFAS  123")  and  is  periodically remeasured as the underlying
options  vest  in accordance with Emerging Issues Task Force ("EITF") No. 96-18,
"Accounting  for  Equity Instruments that are Issued to Other Than Employees for
Acquiring,  or  in  Conjunction  with,  Selling  Goods  or  Services."

As  of  June  30,  2001, the Company has recorded $6.8 million of deferred stock
compensation,  net  of  amortization,  related  to  stock  options  granted  to
consultants  and  employees.  Stock  compensation expense is being recognized in
accordance  with  FASB  Interpretation No. 28 "Accounting for Stock Appreciation
Rights  and  Other  Variable  Stock  Option  or Award Plans" ("FIN 28") over the
vesting periods of the related options, generally four years. During April 2001,
the  Company  granted  approximately  545,000  supplemental  stock  options
("Supplemental  Options")  under  the  2000  Equity  Incentive  Plan  to certain
employees (excluding officers and directors) who had stock options with exercise
prices  greater  than $16.00 per share under the 2000 Equity Incentive Plan. 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  halted  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 FASB Interpretation Number 44, "Accounting for Certain
Transactions  Involving  Stock  Compensation" and will result 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
quarter  ended  June  30,  2001,  the  compensation  expense  recorded for these
supplemental  options  was  approximately  $0.3  million. The Company recognized
stock  compensation  expense of $2.3 million and $4.2 million for the three- and
six-month  periods  ended  June 30, 2001, respectively, compared to $5.3 million
and $8.6 million, respectively, for the comparable periods in 2000. The decrease
in  stock  compensation  expense  year-over-year  primarily  results  from  the
accelerated  amortization  method  proscribed  by FIN 28 partially offset by the
expense  resulting  from  the  synthetic  repricing  effect  of the supplemental
options.


     ACQUIRED  IN-PROCESS  RESEARCH  AND  DEVELOPMENT

The  valuation  of  the purchased in-process research and development related to
the  acquisition Artemis of $6.7 million was determined by management based upon
the  results  of  an independent valuation using the income approach for each of
the  three  significant  in-process  projects.  The  in-process  projects relate
primarily  to  the development of technologies that use vertebrate genetic model
organisms, zebrafish and mice, to identify and functionally validate novel genes
in vivo.  These genes can be used as novel screening targets or as the basis for
secreted  proteins  in  clinically  and  commercially  relevant  diseases.  The
in-process  projects  are  expected to be completed over the next 18 months. The
income approach estimates the value of each acquired project in-process based on
its  expected  future  cash  flows.  The  valuation  analysis  considered  the
contribution  of  the  core  technology  as well as the percent complete of each
in-process  research  and development project. The expected present value of the
cash  flows associated with the in-process research and development projects was
computed  using  a  risk  adjusted  rate  of  return of 30%, which is considered
commensurate  with  the  overall  risk  and  percent  complete of the in-process
projects. The purchased in-process technology was not considered to have reached
technological feasibility, and it has no alternative future use, accordingly, it
has  been  recorded  as  a  component  operating  expense.

     AMORTIZATION  OF  GOODWILL  AND  INTANGIBLES

Amortization  of  goodwill  and  intangibles  results  from  our acquisitions of
Artemis and Agritope, now renamed Exelixis Plant Sciences, Inc.  Amortization of
goodwill and intangibles was $1.2 million and $2.3 million for the three and six
month  periods  ended  June  30,  2001,  respectively,  compared to none for the
comparable  periods  in  2000.

     OTHER  INCOME  (EXPENSE),  NET

Other  income  (expense),  net  primarily  consists of interest income earned on
cash,  cash equivalents and short-term investments, partially offset by interest
expense  incurred  on  notes payable and capital lease obligations. Net interest
income  was  $1.2  million and $2.8 million for the three- and six-month periods
ended  June  30, 2001, respectively, compared to $1.7 million for the comparable
periods  in 2000. The increase year-over-year primarily relates to having earned
interest  on  higher levels of cash, cash equivalents and short-term investments
for  a  full  six  months  during  2001,  as compared to 2000 when we closed our
initial public offering in April.  The decrease for the current quarter compared
to  last  year  primarily relates to lower interest income due to declining cash
balances  and  an  increase  in  interest expense for additional capital leases.

LIQUIDITY  AND  CAPITAL  RESOURCES

Since  inception,  we  have  financed  our  operations primarily through private
placements  of  preferred  stock,  loans,  convertible  debt,  equipment  lease
financing  and  other  loan  facilities  and  payments  from  collaborators.  In
addition,  during  the  second  quarter of 2000, we completed our initial public
offering  raising $124.5 million in net cash proceeds.  We intend to continue to
use  the proceeds for research and development activities, capital expenditures,
working  capital  and  other general corporate purposes. As of June 30, 2001, we
had  approximately  $123.1  million  in  cash,  cash  equivalents and short-term
investments.

Our  operating  activities  used  cash of $15.4 million for the six months ended
June  30,  2001,  compared  to cash provided of  $3.4 million for the six months
ended  June  30,  2000.  Cash  used in operating activities related primarily to
funding  net  operating  losses,  partially  offset  by  an increase in non-cash
charges related to depreciation and amortization of deferred stock compensation,
goodwill  and  other  intangible  assets.

Our investing activities provided cash of $13.3 million for the six months ended
June  30,  2001,  compared  to  cash used of $81.5 million for the corresponding
period  in  2000.  Investing  activities  consist  primarily  of  maturities  of
short-term  investments, partially offset by purchases of short-term investments
and  property and equipment for the six months ended June 30, 2001. We expect to
continue  to  make  significant  investments in research and development and our
administrative  infrastructure, including the purchase of property and equipment
to  support  our  expanding  operations.

Our  financing  activities provided cash of $28.7 million and $124.1 million for
the  six  months  ended  June  30,  2001,  and 2000, respectively. These amounts
consisted  primarily  of  proceeds from a $30.0 million convertible note entered
into as part of our collaboration agreement with Protein Design Labs in May 2001
and  proceeds  from  our  initial  public  offering  in  April  2000.

We  believe  that  our current cash and cash equivalents, short-term investments
and  committed  funding to be received from collaborators, will be sufficient to
satisfy  our anticipated cash needs for at least the next two years. However, it
is possible that we will seek additional financing within this timeframe. We may
raise  additional  funds  through  public  or  private financings, 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 this 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

In  July 2001, the Financial Accounting Standards Board ("FASB") issued SFAS No.
141  "Business  Combinations"  ("SFAS  No.  141"),  which  establishes financial
accounting  and  reporting  for business combinations and supersedes APB Opinion
No.  16,  Business  Combinations,  and  FASB  Statement  No.  38, Accounting for
Preacquisition  Contingencies  of  Purchased  Enterprises. SFAS No. 141 requires
that  all  business combinations be accounted for using one method, the purchase
method.  The  provisions  of  SFAS  No.  141  apply to all business combinations
initiated  after June 30, 2001. The adoption of SFAS No. 141 is expected to have
no  material  impact  on  financial  reporting  and  related  disclosures of the
Company.

In  July  2001,  the  FASB  issued  SFAS  No. 142 "Goodwill and Other Intangible
Assets"  ("SFAS  No. 142"), which establishes financial accounting and reporting
for acquired goodwill and other intangible assets and supersedes APB Opinion No.
17,  Intangible  Assets.  SFAS  No. 142 addresses how intangible assets that are
acquired individually or with a group of other assets (but not those acquired in
a  business  combination)  should  be accounted for in financial statements upon
their  acquisition,  and  after  they  have  been  initially  recognized  in the
financial  statements.  The  provisions of SFAS No. 142 are effective for fiscal
years  beginning  after  December 15, 2001.  The Company will adopt SFAS No. 142
during the first quarter of fiscal 2002, and is in the process of evaluating the
impact  of  implementation  on  the  financial  position  of  the  Company.

ITEM  3.  QUANTITATIVE  AND  QUALITATIVE  DISCLOSURES  ABOUT  MARKET  RISK

Our  investments  are only 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 manager, we maintain risk management
control  systems  to  monitor  interest  rate  risk. The risk management control
systems  use  analytical  techniques,  including  sensitivity  analysis.  A
hypothetical  1%  adverse  move in interest rates along the entire interest rate
yield  curve  would  cause an approximately $0.5 million decline in the value of
our  financial  instruments  at  June  30,  2001.

All  highly liquid investments with an original maturity of three months or less
from the date of purchase are considered cash equivalents. The Company 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.

Due to our German operations, we have market risk exposure to adverse changes in
foreign  currency  exchange  rates.  The revenues and expenses of our subsidiary
Artemis  Pharmaceuticals,  GmbH  are denominated in Deutche Marks. At the end of
each  quarter,  the revenues and expenses of this subsidiary are translated into
U.S.  dollars  using  the  average  currency  rate in effect for the quarter and
assets  and liabilities are translated into U.S. dollars using the exchange rate
in  effect  at the end of the quarter.  Fluctuations in exchange rates therefore
impact  our  financial  condition and results of operations, as reported in U.S.
dollars.  To  date  we have not experienced any significant negative impact as a
result  of  fluctuations  in  foreign  currency markets.  As a policy, we do not
engage  in  speculative  or  leveraged  transactions,  nor  do we hold financial
instruments  for  trading purposes. We will periodically analyze our exposure to
foreign currency fluctuations and may adjust our policies to allow for financial
hedging  techniques  to  minimize  exchange  rate  risk.

                           PART II. OTHER INFORMATION

ITEM  2.   CHANGES  IN  SECURITIES  AND  USE  OF  PROCEEDS

(c)  On  May 22, 2001, we issued a convertible promissory note for the aggregate
principal  amount  of  $30.0  million  (the "Note") to Protein Design Labs, Inc.
("PDL")  in  connection  with  the  execution of a collaboration agreement.  The
Note,  which  bears  interest  at  a rate of 5.75% annually, is convertible into
shares  of  Exelixis  common  stock,  par  value $0.001 per share (the "Exelixis
Common Stock"), after the first anniversary of the Note's date of issuance.  The
Note  is  convertible into Exelixis Common Stock at a conversion price per share
equal  to  the  lower  of (i) $28.175 and (ii) 110% of the Fair Market Value (as
defined  in  the  Note)  of  a  share  of  Exelixis  Common Stock at the time of
conversion.  We  issued  the  Note  in  reliance  upon  an  exemption  from  the
registration  requirements  of  the  Securities  Act  by  virtue of Section 4(2)
thereof  and  Regulation  D  promulgated  thereunder.

On  May  14, 2001, we acquired all, or rights to acquire all, of the outstanding
capital  stock  of  Artemis  Pharmaceuticals GmbH, a privately held genetics and
functional genomics company organized under the laws of Germany ("Artemis"). The
acquisition  of  Artemis  (the  "Acquisition")  was effected pursuant to a Share
Exchange and Assignment Agreement among Exelixis and the stockholders of Artemis
(not including Exelixis, the "Artemis Stockholders"), dated as of April 23, 2001
(the  "Exchange  Agreement"),  providing  for  the  exchange  of 4.064 shares of
Exelixis  Common  Stock  for  each  DEM 1.00 of nominal value of Artemis capital
stock.  Pursuant  to  the  Exchange Agreement, Exelixis issued approximately 1.6
million  shares  of  its  common  stock,  in exchange for 78% of the outstanding
capital  stock  of  Artemis  held  by  the Artemis Stockholders. In addition, we
received  a  call  option (the "Call Option") from, and issued a put option (the
"Put Option") to, certain stockholders of Artemis (the "Option Holders") for the
issuance  of  approximately  480,000 shares of Exelixis Common Stock in exchange
for  the  remaining  22% of the outstanding capital stock of Artemis held by the
Artemis  Stockholders.  We may exercise the Call Option at any time from May 14,
2001  through January 31, 2002, and the Option Holders may exercise their rights
under  the  Put  Option  at  any  time  from April 1, 2002 through May 15, 2002.
Further,  in  connection  with  the  Acquisition, we issued fully vested options
representing  the  right  to purchase approximately 187,000 additional shares of
Exelixis  Common  Stock  to  Artemis  employees  in exchange for such employees'
vested  options  formerly  representing  the right to purchase shares of Artemis
capital  stock  pursuant to an Employee Phantom Stock Option Plan. We issued the
restricted  shares  of  Exelixis Common Stock in reliance upon an exemption from
the  registration  requirements  of the Securities Act by virtue of Section 4(2)
thereof  and  Regulation  D  promulgated  thereunder.

(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, the
net  proceeds  from  the  offering  were  approximately  $124.5  million.

From  the  time of receipt through June 30, 2001, the proceeds from the offering
were used for research and development activities, capital expenditures, working
capital  and  other general corporate purposes.  In the future, Exelixis intends
to use the net proceeds in a similar manner.  As of June 30, 2001, approximately
$93.1  million of the proceeds remained available and were primarily invested in
short-term  marketable  securities.

ITEM  4.   SUBMISSION  OF  MATTERS  TO  A  VOTE  OF  SECURITY  HOLDERS

At  the  2001  Annual  Meeting  of  Stockholders  held  on  May  22,  2001,  the
stockholders  were  asked  to  vote  on  two  items  as  follows:

     1.   To  elect  two  Class  II  directors,  Jason  Fisherman,  M.D.  and
          Jean-Francois  Formela,  M.D.,  to  hold  office until the 2004 Annual
          Meeting  of  Stockholders;  and

     2.   To  ratify  the selection of PricewaterhouseCoopers LLP as independent
          accountants  of  the  Company  for  its fiscal year ended December 31,
          2001.

The  results of the matters presented at the annual meeting, based on 46,797,585
shares  of  record  entitled  to  vote,  were  as  follows:

     1.   Drs.  Fisherman  and Formela were approved as directors of the Company
          until  the  2004  Annual  Meeting  of  Stockholders  as  follows:

                                   For      Withheld
                                ----------  --------

         Jason Fisherman        33,564,553   276,908
         Jean-Francois Formela  33,563,612   277,849

     2.   The  ratification  of  PricewaterhouseCoopers  LLP  as  independent
          accountants of the Company for its fiscal year ended December 31, 2001
          was  approved  as  follows:

             For       Against  Abstain  Broker Non-Vote
           ----------  -------  -------  ---------------
           33,715,423  120,139    5,899                0


ITEM  5.   OTHER  INFORMATION  -  RISK  FACTORS

WE  HAVE 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  $36.4  million  for the six months ended June 30, 2001. As of
that  date,  we  had  an accumulated deficit of approximately $166.5 million. We
expect  these  losses  to  continue  and  anticipate  negative 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. 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  ability to successfully continue development of a recently acquired
        cancer compound;
     -  our  need to expand our other proprietary 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.  For example, our newly acquired cancer
product  from  our  recent  relationship  with Bristol-Myers Squibb will require
significant  resources  for  development  that were not in our operational plans
prior  to  acquiring  the  cancer product.  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, we
expect  that  we  will  need  to manage multiple locations, including additional
locations  outside  of  the  United  States,  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  continuing  collaborative  research  agreements with Bayer,
Bristol-Myers  Squibb  (two  agreements),  Dow AgroSciences, Aventis and Protein
Design  Labs.  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.  In  addition, our agreements with Bayer are
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 six months
of  each  other and we are unable to find replacements acceptable to Bayer.  The
first  of  our  collaborative  agreement  with  Bristol-Myers  Squibb expires in
September  2002. The funded research term of second arrangement, entered into in
July  2002,  expires  in  July  2005.  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 June 2004. Aventis has the
right  to  terminate  the  research  arrangement  prior  to the expiration date,
provided  that  it  pays  the  annual  research  funding amount due for the year
following  termination.  Thereafter,  the  arrangement  renews  annually  unless
Aventis terminates automatic renewal prior to the scheduled date of renewal. The
Aventis  arrangement  is  conducted  through  a  limited  liability  company,
Agrinomics,  which  is  owned  equally  by  Aventis  and  Exelixis.  Aventis 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.  Bayer and Aventis recently announced an
exclusive  negotiation period for the purchase of Aventis by Bayer.  We have not
been  advised  of the status of those discussions nor are we able to predict the
impact of such an acquisition of Aventis, if the acquisition were to occur.  Our
agreement  with Protein Design Labs is scheduled to expire in May 2003.  Protein
Design  Labs  has  a  unilateral  right to renew for additional 12 and six month
periods  thereafter.  The  five-year  term  of  the  convertible promissory note
entered into as part of this arrangement is unaffected by whether or not Protein
Design  Labs  renews.  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.

We  recently  announced  the  reacquisition,  effective February 2002, of future
rights  to  research  programs  in metabolism and alzheimer's disease previously
licensed  exclusively  to  Pharmacia  Corporation.  The  existing agreement with
Pharmacia  will  terminate  as  of  that  date.  Pharmacia will retain rights to
targets  under  the existing agreement selected prior to the reacquisition date,
subject  to  the payment of milestones for certain of those targets selected and
royalties  for future development of products against or using those targets but
will  have  no  other  obligations  to  make  payments to the Company, including
approximately $9.0 million in annual funding that would otherwise be payable for
two  years if the Company had not elected to reacquire rights to the research at
this time.  Although we anticipate entering into future collaborations involving
either or both of these programs, there can be no assurance that we will be able
to  enter  into  new  collaborative  agreements or that such collaborations will
provide  revenues  equal  to  or  exceeding those otherwise obtainable under the
Pharmacia  collaboration.

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

We  intend  to  conduct  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 takes 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.

You  must evaluate us in light of the uncertainties and complexities affecting a
biotechnology  company.  Our  technologies  are  still  in  the  early stages of
development.  Our research and operations thus far have allowed us to identify a
number  of  product  targets  for  use by our collaborators and our own internal
development  programs.  We  are not certain, however, of the commercial value of
any  of our current or future targets, and we may not be successful in expanding
the  scope  of  our  research  into  new  fields  of pharmaceutical or pesticide
research,  or  other agricultural applications such as enhancing plant traits to
produce  superior  crop  yields,  disease  resistance  or  increased nutritional
content. 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.

We  recently  acquired  a  development  compound,  an  analog  to  rebeccamycin
("Rebeccamycin"),  directed  against  cancer  under  our  recent  collaborative
arrangement  with Bristol-Myers Squibb.  Clinical development of Rebeccamycin to
date  has  been  conducted  by  the  National  Cancer Institute (the "NCI"), and
manufacturing  of  this  product  has  been  the responsibility of Bristol-Myers
Squibb.  Rebeccamycin  has recently completed Phase I clinical studies and is in
Phase  I  and early Phase II clinical trials being conducted by the NCI.  We are
currently  in  negotiations  with  the  NCI  to  use the results of the clinical
studies  they  have  conducted  and  are  conducting  in order to determine what
additional studies, if any, will be conducted by the NCI or us.  There can be no
assurance  that  we  will successfully agree upon further development plans, the
respective  rights and obligations of the parties to conduct additional clinical
studies  or  the timing of such studies.  In addition, there can be no assurance
that  the  clinical  studies  conducted  to  date  will support further clinical
development  or  be  accepted  by  the  Food  and Drug Administration or FDA, in
conjunction  with  any application for product approval submitted to the FDA for
Rebeccamycin.  Moreover, although Bristol-Myers Squibb has provided the NCI with
sufficient  quantities  of  Rebeccamycin to complete the existing Phase I and II
clinical studies, development necessary for further clinical studies and product
approval  will  require us to either develop internal manufacturing capabilities
or  retain  a  third  party  to  manufacture  the product.  In addition, we have
recently  hired a new Senior Vice President responsible for clinical development
of  this product, as well as any new potential products that we may develop.  As
a  result,  we have limited experience in clinical development and no experience
in  manufacturing  potential  drug  products.  Accordingly,  the  development of
Rebeccamycin  is  subject to significant risk and uncertainty, particularly with
respect  to  our  ability  to  successfully  develop,  manufacture  and  market
Rebeccamycin  as  a  product.

With respect to products developed against our proprietary drug targets, we will
rely  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. Our recent
success 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  ("IND")  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.  Moreover,  our recent
acquisition  of  Rebeccamycin will require that resources and management time be
directed  to  clinical  development and manufacturing of this potential product.
There  can  be  no assurance that allocating resources and time to these efforts
will  allow us to remain competitive in existing programs and potential areas of
future research.  The resources dedicated to the development of Rebeccamycin may
limit  or hinder our ability to meet currently estimated timelines and goals for
completing preclinical development efforts and filing an IND for our proprietary
compounds.

OUR  COMPETITORS  MAY DEVELOP PRODUCTS AND TECHNOLOGIES THAT MAKE OURS 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 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,  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  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.
Significant  research  and  development  efforts  will  be  necessary before any
products  resulting  from  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.

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  OUR  COLLABORATORS  OR  WE  DEVELOP  IN  THE  FUTURE.

Our  collaborators  or  we  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,  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 use
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  license,  milestone  or  other  fees;
     -  payments  of  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;
     -  general  and  industry-specific  economic conditions that may affect our
        collaborators' research and development expenditures; and
     -  exposure  to  fluctuations  in  foreign  currency

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;
     -  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 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 location, our facilities are vulnerable to damage from earthquakes. We
are  also  vulnerable  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.  In
October  2000,  a  significant  number  of  shares  of  our common stock held by
existing  stockholders  became freely tradable, 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 MAY NOT MAKE
DECISIONS  THAT  ARE  IN  THE  BEST  INTERESTS  OF  ALL  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 May 15, 2001, the Company filed a Reg FD, Item 9 Current Report on
     Form 8-K, in connection with the announcement of the Company's first
     quarter financial results.

     On May 15, 2001, the Company filed an Item 2 Current Report on Form 8-K
     in connection with the Company's acquisition of Artemis.

                                    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: August 14, 2001





                                    EXELIXIS,  INC.



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




                                INDEX TO EXHIBITS

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


2.1       Share  Exchange and Assignment Agreement, dated April 23, 2001, by and
          among  Exelixis,  Inc. and the Artemis stockholders named therein. (1)
3.1       Amended  and  Restated  Certificate  of  Incorporation  (2)
3.2       Amended  and  Restated  Bylaws  (2)
4.1       Specimen  Common  Stock  Certificate  (2)
4.2       Form of Convertible  Promissory  Note,  dated May 22, by and between
          Exelixis,Inc.  and  Protein  Design  Labs,  Inc.
4.3       Form of Note  Purchase  Agreement, dated May 22, by and between
          Exelixis, Inc.and  Protein  Design  Labs,  Inc.
10.28*    Collaboration Agreement, dated May 22, 2001, by and between Exelixis,
          Inc.  and  Protein  Design  Labs,  Inc.
- -------------------------------
     (1)  Filed  with  Exelixis' Item 2 Current Report on Form 8-K filed on May
          15,  2001  and  incorporated  herein  by  reference.
     (2)  Filed  with  Exelixis'  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.
     *    Confidential treatment requested for certain portions of this exhibit.