EXHIBIT 99.3


                            CERTIFICATION PURSUANT TO
                               18 U.S.C. ss.1350,
                             AS ADOPTED PURSUANT TO
                  SECTION 906 OF THE SARBANES-OXLEY ACT OF 2002


In connection with the Quarterly Report of ATS Medical, Inc. (the "Company") on
Form 10-Q for the period ended March 31, 2003 as filed with the Securities and
Exchange Commission on the date hereof (the "Report"), I, Deborah K. Chapman,
Controller of the Company, certify, pursuant to 18 U.S.C. ss.1350, as adopted
pursuant to Section 906 of the Sarbanes-Oxley Act of 2002, that, to the best of
my knowledge:

     1. The Report fully complies with the requirements of Section 13(a) or
        15(d) of the Securities Exchange Act of 1934; and

     2. The information contained in the Report fairly presents, in all material
        respects, the financial condition and results of operations of the
        Company.

A signed original of this written statement required by Section 906 has been
provided to ATS Medical, Inc. and will be retained by ATS Medical, Inc. and
furnished to the Securities and Exchange Commission or its staff upon request.




                                   /s/ Deborah K. Chapman
                                   -----------------------------------------
                                   Deborah K. Chapman
                                   Controller
                                   May 13, 2003