Exhibit 10.1

                                MODIFICATION NO.1

                                       TO

             STEVENSON-WYDLER (15 USC 3710) COOPERATIVE RESEARCH AND
            DEVELOPMENT AGREEMENT (hereinafter "CRADA") No. 04-CR-09

                                     BETWEEN

   Battelle Energy Alliance, LLC under its U.S. Department of Energy Contract
                No. ED-AC07-05ID14517 (hereinafter "Contractor")

                                       AND

             Applied DNA Sciences, Inc. (hereinafter "Participant"),

     hereinafter referred to singularly as "Party" and jointly as "Parties"

Whereas both Parties  desire to modify CRADA No.  04-CR-09;  the Parties  hereby
agree to incorporate the following changes:

1.   Replace  Article III,  Paragraph A with "The  effective  date of this CRADA
     shall be the latter  date of (1) the date on which it is signed by the last
     of the  Parties,  (2) the date on which it is  approved  by DOE, or (3) the
     date on which the advance funding  referred to in Article III.B is received
     by the  Contractor.  The work to be  performed  under this  CRADA  shall be
     complete within three (3) years from the effective date.

2.   Replace Article III, Paragraph B with "Participant's estimated contribution
     is $50,000 funds-in and $0 in-kind for FT-04 and $1,701,216 funds-in and $0
     in-kind for FY-05.  There is no  Government  funding  associated  with this
     CRADA.

3.   Replace the Contractor information under Article XXVII: NOTICES as follows:

     Agreements Administrator
     Technology Transfer & Commercialization
     Battelle Energy Alliance, LLC
     2525 N. Fremont Ave.
     P.O. Box 1625, MS 3805
     Idaho Falls, ID 83415-3805
     E-mail: agradmin@inl.gov
     Phone: (208) 526-6141
     Fax: (208) 526-0876



4.   Add the following  paragraph to Appendix A, "Statement of Work",  paragraph
     10 "Further develop and refine the selected applications:

     Validate  Biowell  Embedded  DNA  Technology,  including:  1) marker  DNA &
     primer/probe  characterization,  2) unique DNA  productions  and  embedding
     methods  assessment,   validation  replication,  and  enhancement,  and  3)
     embedding  matrix  material  analysis,   signature  signal  assessment  and
     stand-off detection methods. In addition, develop a new product application
     including:   1)  thread  detection  methods   validation,   RT-PCR  methods
     development  and  protocol   standardization;   2)  ink  detection  methods
     validation,   RT-PCR  methods  development  and  protocol  standardization;
     gasoline  methods  validation,  RT-PCR  methods  development  and  protocol
     standardization;  and 4) explosive  materials detection methods validation,
     RT-PCR methods development and protocol standardization. Also develop a new
     petroleum product application including stand-off sensing.

5.   Delete the header "Timeline:" and associated table in the scope of work.

ACCEPTED TO AND AGREED TO:

FOR BATTELLE ENERGY ALLIANCE, LLC

BY:               /s/ A. RAY BARNES
                  -----------------
PRINTED NAME:     A. RAY BARNES

TITLE:            Group Manager, Technology Transfer & Commercialization

DATE:             March 24, 2005


FOR APPLIED DNA SCIENCES, INC.

BY:               /s/ KARIN KLEMM
                  ---------------
PRINTED NAME:     Karim Klemm

TITLE:            Chief Operating Officer/Chief Financial Officer

DATE:             March 24, 2005