Exhibit 32.2


                            CERTIFICATION PURSUANT TO
                             18 U.S.C. Section 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 September 30, 2003 as filed with the Securities
and Exchange Commission on the date hereof (the "Report"), I, John R. Judd,
Controller of the Company, certify, pursuant to 18 U.S.C. Section 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 Sections
                  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.


                                                      /s/ John R. Judd
                                                      --------------------------
                                                      John R. Judd
                                                      Chief Financial Officer
                                                      December 2, 2003

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.


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