Exhibit 23.2 CONSENT OF ERNST & YOUNG LLP We consent to the incorporation by reference in the Registration Statements (Form S-8 Nos. 333-3898, 333-3900, 333-3902, 333-34008 and 333-71938) and the related Prospectuses of Hybridon, Inc. of our report dated January 23, 2003 (except for Note 18, as to which date is February 14, 2003), with respect to the consolidated financial statements of Hybridon, Inc. included in the Annual Report (Form 10-K) for the year ended December 31, 2002. /s/ Ernst & Young LLP Boston, Massachusetts March 25, 2003