Weilerstein has received a number of honors. In 2000-2001 she won an Avery Fisher Career Grant and was selected to play in the ECHO "Rising Stars" program and Chamber Music Society II, the young artists' program of the Chamber Music Society of Lincoln Center. In 2006 she was awarded the Leonard Bernstein Prize at the Schleswig-Holstein Music Festival. In 2011 she received a MacArthur Foundation "genius grant".
Alisa Weilerstein & Vivian Hornik Weilerstein: Works for Cello and Piano (recording in the EMI Classics "Debut" Series) (EMI 5 73498 2)
The Weilerstein Trio, with Donald Weilerstein (violin), Alisa Weilerstein (cello) and Vivian Hornik Weilerstein (piano): Dvořák Trios (recording from Koch International Classics) (Koch B000CC4W14)
Joseph Hallman: Cello Concerto (St. Petersburg) (live recording of premiere performance): Alisa Weilerstein (cello) and the St. Petersburg (Russia) Chamber Philharmonic, Jeffery Meyer, conductor and Artistic Director (jhallmanmusic 884502022742).