X0206 3 2026-02-26 0 0002100782 Generate Biomedicines, Inc. GENB 0001222012 AFEYAN NOUBAR 55 CAMBRIDGE PARKWAY, SUITE 800E CAMBRIDGE MA 02142 true false true false 0001725008 Flagship VentureLabs VI LLC 55 CAMBRIDGE PARKWAY, SUITE 800E CAMBRIDGE MA 02142 false false true false 0001716926 Flagship Pioneering Fund VI, L.P. 55 CAMBRIDGE PARKWAY, SUITE 800E CAMBRIDGE MA 02142 false false true false 0001805916 Flagship Pioneering Fund VII, L.P. 55 CAMBRIDGE PARKWAY, SUITE 800E CAMBRIDGE MA 02142 false false true false 0001780956 Nutritional Health LTP Fund, L.P. 55 CAMBRIDGE PARKWAY, SUITE 800E CAMBRIDGE MA 02142 false false true false 0001761283 Flagship Pioneering Special Opportunities Fund II, L.P. 55 CAMBRIDGE PARKWAY, SUITE 800E CAMBRIDGE MA 02142 false false true false 0001918834 FPN II, L.P. 55 CAMBRIDGE PARKWAY, SUITE 800E CAMBRIDGE MA 02142 false false true false Common Stock 25016458 I By Flagship VentureLabs VI, LLC Series A Preferred Stock Common Stock 12168390 I By Flagship Pioneering Fund VI, L.P. Series A Preferred Stock Common Stock 11202248 I By Flagship Pioneering Fund VII, L.P. Series A Preferred Stock Common Stock 987491 I By Nutritional Health LTP Fund, L.P. Series B Preferred Stock Common Stock 555550 I By Flagship Pioneering Fund VI, L.P. Series B Preferred Stock Common Stock 833325 I By Flagship Pioneering Fund VII, L.P. Series B Preferred Stock Common Stock 1944427 I By Flagship Pioneering Special Opportunities Fund II, L.P. Series B Preferred Stock Common Stock 1388876 I By FPN II, L.P. Series C Preferred Stock Common Stock 1666651 I By Flagship Pioneering Fund VII, L.P. Series C Preferred Stock Common Stock 833325 I By Flagship Pioneering Special Opportunities Fund II, L.P. Series C Preferred Stock Common Stock 1388876 I By FPN II, L.P. Stock Option (Right to Buy) 7.25 2034-02-08 Common Stock 32916 D Stock Option (Right to Buy) 9.15 2035-02-20 Common Stock 32916 D Securities held by Flagship VentureLabs VI LLC ("VentureLabs VI"). Flagship VentureLabs VI Manager LLC ("VentureLabs VI Manager") is the manager of VentureLabs VI. Flagship Pioneering, LLC ("Flagship Pioneering") is the manager of VentureLabs VI Manager. Noubar B. Afeyan, Ph.D. is the ultimate control person of Flagship Pioneering. Each of the Reporting Persons disclaims beneficial ownership of such shares except to the extent of his or its pecuniary interest therein, if any. Each share of Series A Preferred Stock, Series B Preferred Stock and Series C Preferred Stock (collectively, the "Preferred Stock") is convertible into Common Stock on a one-for-1.5190 basis at the option of the holder, and will convert automatically upon the closing of the Issuer's initial public offering into the number of shares shown in column 3 without payment of consideration. The Preferred Stock has no expiration date. Securities held by Flagship Pioneering Fund VI, L.P. ("Flagship Fund VI"). Flagship Pioneering Fund VI General Partner LLC ("Flagship Fund VI GP") is the general partner of Flagship Fund VI. Flagship Pioneering is the manager of Flagship Fund VI GP. Each of the Reporting Persons disclaims beneficial ownership of such shares except to the extent of his or its pecuniary interest therein, if any. Securities held by Flagship Pioneering Fund VII, L.P. ("Flagship Fund VII"). Flagship Pioneering Fund VII General Partner LLC ("Flagship Fund VII GP") is the general partner of Flagship Fund VII. Flagship Pioneering is the manager of Flagship Fund VII GP. Each of the Reporting Persons disclaims beneficial ownership of such shares except to the extent of his or its pecuniary interest therein, if any. Securities held by Nutritional Health LTP Fund, L.P. ("Nutritional LTP"). Nutritional Health LTP Fund General Partner LLC ("Nutritional LTP GP") is the general partner of Nutritional LTP. Flagship Pioneering is the manager of Nutritional LTP GP. Each of the Reporting Persons disclaims beneficial ownership of such shares except to the extent of his or its pecuniary interest therein, if any. Securities held by Flagship Pioneering Special Opportunities Fund II, L.P. ("Flagship Opportunities Fund II"). Flagship Pioneering Special Opportunities Fund II General Partner LLC ("Flagship Opportunities Fund II GP") is the general partner of Flagship Opportunities Fund II. Flagship Pioneering is the manager of Flagship Opportunities Fund II GP. Each of the Reporting Persons disclaims beneficial ownership of such shares except to the extent of his or its pecuniary interest therein, if any. Securities held by FPN II, L.P. ("FPN II Fund"). FPN General Partner LLC ("FPN GP") is the general partner of FPN II Fund. Flagship Pioneering is the manager of FPN GP. Each of the Reporting Persons disclaims beneficial ownership of such shares except to the extent of his or its pecuniary interest therein, if any. The shares underlying this option vest in sixteen equal quarterly installments following February 1, 2024, subject to the Reporting Person's continued service on each such vesting date. The shares underlying this option vest in sixteen equal quarterly installments following February 1, 2025, subject to the Reporting Person's continued service on each such vesting date. Form 1 of 2: This is the first of two Forms 3 being filed relating to the same event. The Form 3 is being split into two filings because there are more than 10 Reporting Persons in total, and the SEC's EDGAR filing system limits a single Form 3 to a maximum of 10 Reporting Persons. Each Form 3 is filed by Designated Filer Noubar Afeyan. /s/ Noubar B. Afeyan, Ph.D. 2026-02-26 Flagship VentureLabs VI LLC, By: /s/ Noubar B. Afeyan, Ph.D., Title: Sole Member and Manager of Manager of Manager of Manager 2026-02-26 Flagship Pioneering Fund VI, L.P., By: /s/ Noubar B. Afeyan, Ph.D., Title: Sole Member and Manager of Manager of Manager of General Partner 2026-02-26 Flagship Pioneering Fund VII, L.P., By: /s/ Noubar B. Afeyan, Ph.D., Title: Sole Member and Manager of Manager of Manager of General Partner 2026-02-26 Nutritional Health LTP Fund, L.P., By: /s/ Noubar B. Afeyan, Ph.D., Title: Sole Member and Manager of Manager of Manager of General Partner 2026-02-26 Flagship Pioneering Special Opportunities Fund II, L.P., By: /s/ Noubar B. Afeyan Ph.D., Title: Sole Member and Manager of Manager of Manager of General Partner 2026-02-26 FPN II, L.P., By: /s/ Noubar B. Afeyan, Ph.D., Title: Sole Member and Manager of Manager of Manager of General Partner 2026-02-26