Washington, D.C. 20549 FORM 10-K ☐ANNUAL REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934 APPLIED DNA SCIENCES, INC.(Exact name of registrant as specified in its charter) (State or other jurisdiction ofincorporation or organization) Securities registered pursuant to Section 12(b) of the Act: Indicate by check mark if the registrant is a well-known seasoned issuer, as defined in Rule 405 of the Securities Act. Yes☐No Indicate by check mark if the registrant is not required to file reports pursuant to Section 13 or Section 15(d) of the Act. 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 Actof 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subjectto such filing requirements for the past 90 days.☐Yes☐No Indicate by check mark whether the registrant has submitted electronically every Interactive Data File required to be submitted pursuant toRule 405 of Regulation S-T (§ 232.405 of this chapter) during the preceding 12 months (or for such shorter period that the registrant was requiredto submit such files). Yes☐No Indicate by check mark whether the registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer, a smaller reportingcompany, or an emerging growth company. See the definitions of “large accelerated filer,” “accelerated filer”, “smaller reporting company”, and“emerging growth company” in Rule 12b-2 of the Exchange Act. If an emerging growth company, indicate by a check mark if the registrant has elected to not use the extended transition period of complying withany new or revised financial accounting standards provided pursuant to Section 13(a) of the Exchange Act. ☐ Indicate by check mark whether the registrant has filed a report on and attestation to its management’s assessment of the effectiveness of itsinternal control over financial reporting under Section 404(b) of the Sarbanes-Oxley Act (15 U.S.C. 7262(b)) by the registered public accountingfirm that prepared or issued its audit report. ☐ If securities are registered pursuant to Section 12(b) of the Act, indicate by check mark whether the financial statements of the registrant includedin the filing reflect the correction of an error to previously issued financial statements. ☐ Indicate by check mark whether any of those error corrections are restatements that required a recovery analysis of incentive-based compensationreceived by any of the registrant’s executive officers during the relevant recovery period pursuant to §240.10D-1(b). ☐ Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Act). ☐Yes☐No The aggregate market value of the Registrant’s voting and non-voting common stock held by non-affiliates of the Registrant, based upon the lastsale price of the common stock reported on The Nasdaq Stock Market as of the last business day of the Registrant’s most recently completedsecond fiscal quarter (March 31, 2024), was approximately $5.7 million. Shares of the Registrant’s common stock held by each executive officerand director and by each entity or person that, to the Registrant’s knowledge, owned 10% or more of the Registrant’s outstanding common stockas of March 31, 2024 have been excluded in that such persons may be deemed to be affiliates of the Registrant. This determination of affiliatestatus is not necessarily a conclusive determination for other purposes. As of December 13, 2024, the Registrant had outstanding 52,294,359 shares of common stock, par value $0.001 per share. DOCUMENTS INCORPORATED BY REFERENCE Part III of this Annual Report on Form 10-K will be incorporated by reference from certain portions of the Registrant’s definitiveProxy Statement for its 2025 Annual Meeting of Shareholders, or will be included in an amendment hereto, to be filed not later than 120 daysafter the close of the fiscal year ended September 30, 2024. Except with respect to information specifically incorporated by reference in theAnnual Report on Form 10-K, the Proxy Statement is not deemed to be filed as part hereof. TABLE OF CONTENTS PagePART IITEM 1.BUSINESS5ITEM 1A. RISK FACTORS17ITEM 1B. UNRESOLVED STAFF COMMENTS35ITEM 1C CYBERSECURITY35ITEM 2.PROPERTIES36ITEM 3.LEGAL PROCEEDINGS36ITEM 4.MINE SAFETY DISCLOSURES36PART IIITEM 5.MARKET FOR COMMON EQUITY, RELATED STOCKHOLDER MATTERS AND ISSUERPURCHASES OF EQUITY SECURITIES36ITEM 6.RESERVED37ITEM 7.MANAGEMENT’S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION ANDRESULTS OF OPERATIONS37ITEM 7A. QUANTITATIVE AND QUALITATIVE DISCLOSURES ABOUT MARKET RISK51ITEM 8.FINANCIAL STATEMENTS AND SUPPLEMENTARY DATA51ITEM 9.CHANGES IN AND DISAGREEMENTS WITH ACCOUNTANTS ON ACCOUNTING ANDFINANCIAL DISCLOSURE51ITEM 9A. CONTROLS AND PROCEDURES51ITEM 9B. OTHER INFORMATION52ITEM 9C DISCLOSURE REGARDING FOREIGN JURISDICTIONS T