PepMLM: Target Sequence-Conditioned Generation of Therapeutic Peptide Binders via Span Masked Language Modeling.

Autor: Chen T; Department of Biomedical Engineering, Duke University., Dumas M; Department of Microbiology and Immunology, College of Veterinary Medicine, Cornell University.; Department of Microbiology, College of Agriculture and Life Sciences, Cornell University., Watson R; Department of Biomedical Engineering, Duke University., Vincoff S; Department of Biomedical Engineering, Duke University., Peng C; Department of Biochemistry and Biomedical Sciences, McMaster University., Zhao L; Department of Biomedical Engineering, Duke University., Hong L; Department of Biomedical Engineering, Duke University., Pertsemlidis S; Department of Biomedical Engineering, Duke University., Shaepers-Cheu M; Department of Microbiology and Immunology, College of Veterinary Medicine, Cornell University., Wang TZ; Department of Biomedical Engineering, Duke University., Srijay D; Department of Biomedical Engineering, Duke University., Monticello C; Department of Biochemistry and Biomedical Sciences, McMaster University., Vure P; Department of Biomedical Engineering, Duke University., Pulugurta R; Department of Biomedical Engineering, Duke University., Kholina K; Department of Biomedical Engineering, Duke University., Goel S; Department of Biomedical Engineering, Duke University., DeLisa MP; Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, USA.; Robert F. Smith School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY, USA.; Cornell Institute of Biotechnology, Cornell University, Ithaca, NY, USA., Truant R; Department of Biochemistry and Biomedical Sciences, McMaster University., Aguilar HC; Department of Microbiology and Immunology, College of Veterinary Medicine, Cornell University., Chatterjee P; Department of Biomedical Engineering, Duke University.; Department of Computer Science, Duke University.; Department of Biostatistics and Bioinformatics, Duke University.

Publikováno v: ArXiv [ArXiv] 2024 Aug 11. Date of Electronic Publication: 2024 Aug 11.

De Novo Design of Peptide Binders to Conformationally Diverse Targets with Contrastive Language Modeling.

Autor: Bhat S; Department of Biomedical Engineering, Duke University., Palepu K; Department of Biomedical Engineering, Duke University., Hong L; Department of Biomedical Engineering, Duke University., Mao J; Department of Cell Biology, Duke University., Ye T; Robert F. Smith School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY, USA., Iyer R; Cancer Genome and Epigenetics Program, Sanford Burnham Prebys Institute, San Diego, CA, USA., Zhao L; Department of Biomedical Engineering, Duke University., Chen T; Department of Biomedical Engineering, Duke University., Vincoff S; Department of Biomedical Engineering, Duke University., Watson R; Department of Biomedical Engineering, Duke University., Wang T; Department of Biomedical Engineering, Duke University., Srijay D; Department of Biomedical Engineering, Duke University., Kavirayuni VS; Department of Biomedical Engineering, Duke University., Kholina K; Department of Biomedical Engineering, Duke University., Goel S; Department of Biomedical Engineering, Duke University., Vure P; Department of Biomedical Engineering, Duke University., Desphande AJ; Cancer Genome and Epigenetics Program, Sanford Burnham Prebys Institute, San Diego, CA, USA., Soderling SH; Department of Cell Biology, Duke University., DeLisa MP; Robert F. Smith School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY, USA.; Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, USA.; Cornell Institute of Biotechnology, Cornell University, Ithaca, NY, USA., Chatterjee P; Department of Biomedical Engineering, Duke University.; Department of Computer Science, Duke University.; Department of Biostatistics and Bioinformatics, Duke University.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2024 Jul 22. Date of Electronic Publication: 2024 Jul 22.