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Arxiv|January 29, 2025
FlowDock: Geometric Flow Matching for Generative Protein-Ligand Docking and Affinity PredictionAlex Morehead, Jianlin ChengNucleic Acids Research|February 10, 2017
3D genome structure modeling by Lorentzian objective functionTuan Trieu, Jianlin ChengNAR Genomics and Bioinformatics|May 8, 2026
Integrating protein and DNA embeddings for improving genome-wide transcription factor binding site predictionShreya Basnet, Jianlin ChengBMC Genomics|April 17, 2008
HMMEditor: a visual editing tool for profile hidden Markov modelJianyong Dai, Jianlin ChengCommunications Chemistry|July 3, 2024
Geometry-complete diffusion for 3D molecule generation and optimizationAlex Morehead, Jianlin ChengBiorxiv : the Preprint Server for Biology|December 15, 2025
ETSAM: Effectively Segmenting Cell Membranes in cryo-Electron TomogramsJoel Selvaraj, Jianlin ChengJournal of Chemical Information and Modeling|October 29, 2013
ReactionMap: an efficient atom-mapping algorithm for chemical reactionsDavid Fooshee, Alessio Andronico, Pierre BaldiBMC Bioinformatics|November 26, 2013
A study and benchmark of DNcon: a method for protein residue-residue contact prediction using deep networksJesse Eickholt, Jianlin ChengMethods (San Diego, Calif.)|September 16, 2015
Integrated protein function prediction by mining function associations, sequences, and protein-protein and gene-gene interaction networksRenzhi Cao, Jianlin ChengNAR Genomics and Bioinformatics|March 24, 2025
Reconstructing 3D chromosome structures from single-cell Hi-C data with SO(3)-equivariant graph neural networksYanli Wang, Jianlin ChengPageof 54