EXHIBIT 31.1

                            APPLIED DNA SCIENCES, INC
                  OFFICER'S CERTIFICATE PURSUANT TO SECTION 302

     I, James A. Hayward, certify that:

        1. I have  reviewed  this amended  quarterly  report on Form 10-QSB/A of
           Applied DNA Sciences, Inc.;

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

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

        4. The small  business  issuer's other  certifying  officer(s) and I are
           responsible for establishing and maintaining  disclosure controls and
           procedures (as defined in Exchange Act Rules 13a-15(e) and 15d-15(e))
           and internal control over financial reporting (as defined in Exchange
           Act Rules  13a-15(f) and 15d-15(f)) for the small business issuer and
           have:

              (a) Designed such disclosure  controls and  procedures,  or caused
                  such  disclosure  controls and procedures to be designed under
                  our supervision,  to ensure that material information relating
                  to the  small  business  issuer,  including  its  consolidated
                  subsidiaries,  is made  known  to us by  others  within  those
                  entities,  particularly during the period in which this report
                  is being prepared;

              (b) [Omitted pursuant to SEC Release No. 33-8238];

              (c) Evaluated the  effectiveness  of the small  business  issuer's
                  disclosure  controls  and  procedures  and  presented  in this
                  report  our  conclusions   about  the   effectiveness  of  the
                  disclosure  controls  and  procedures,  as of  the  end of the
                  period covered by this report based on such evaluation; and

              (d) Disclosed  in this  report  any  change in the small  business
                  issuer's  internal  control  over  financial   reporting  that
                  occurred during the small business issuer's most recent fiscal
                  quarter (the small business  issuer's fourth fiscal quarter in
                  the case of an annual report) that has materially affected, or
                  is reasonably likely to materially  affect, the small business
                  issuer's internal control over financial reporting; and

        5. The small business  issuer's other  certifying  officer(s) and I have
           disclosed,  based on our most recent  evaluation of internal  control
           over financial reporting, to the small business issuer's auditors and
           the audit committee of the small business issuer's board of directors
           (or persons performing the equivalent functions):

              (a) All significant  deficiencies  and material  weaknesses in the
                  design  or  operation  of  internal   control  over  financial
                  reporting which are reasonably  likely to adversely affect the
                  small business issuer's ability to record, process,  summarize
                  and report financial information; and

              (b) Any fraud,  whether or not material,  that involves management
                  or other  employees who have a  significant  role in the small
                  business issuer's internal control over financial reporting.

Date: October 10, 2006

/s/ JAMES A. HAYWARD
--------------------
James A. Hayward
Chief Executive Officer