Fan Zheng
Fan Zheng
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Functional landscape of SARS-CoV-2 cellular restriction
L Martin-Sancho, MK Lewinski, L Pache, CA Stoneham, X Yin, ME Becker, ...
Molecular cell 81 (12), 2656-2668. e8, 2021
A protein interaction landscape of breast cancer
M Kim, J Park, M Bouhaddou, K Kim, A Rojc, M Modak, M Soucheray, ...
Science 374 (6563), eabf3066, 2021
A multi-scale map of cell structure fusing protein images and interactions
Y Qin, EL Huttlin, CF Winsnes, ML Gosztyla, L Wacheul, MR Kelly, ...
Nature 600 (7889), 536-542, 2021
A protein network map of head and neck cancer reveals PIK3CA mutant drug sensitivity
DL Swaney, DJ Ramms, Z Wang, J Park, Y Goto, M Soucheray, N Bhola, ...
Science 374 (6563), eabf2911, 2021
Interpretation of cancer mutations using a multiscale map of protein systems
F Zheng, MR Kelly, DJ Ramms, ML Heintschel, K Tao, B Tutuncuoglu, ...
Science 374 (6563), eabf3067, 2021
Multiscale community detection in Cytoscape
A Singhal, S Cao, C Churas, D Pratt, S Fortunato, F Zheng, T Ideker
PLoS computational biology 16 (10), e1008239, 2020
Tertiary structural propensities reveal fundamental sequence/structure relationships
F Zheng, J Zhang, G Grigoryan
Structure 23 (5), 961-971, 2015
Design and designability of protein-based assemblies
J Zhang, F Zheng, G Grigoryan
Current opinion in structural biology 27, 79-86, 2014
HiDeF: identifying persistent structures in multiscale ‘omics data
F Zheng, S Zhang, C Churas, D Pratt, I Bahar, T Ideker
Genome Biology 22 (1), 1-15, 2021
Computational design of selective peptides to discriminate between similar PDZ domains in an oncogenic pathway
F Zheng, H Jewell, J Fitzpatrick, J Zhang, DF Mierke, G Grigoryan
Journal of molecular biology 427 (2), 491-510, 2015
Sequence statistics of tertiary structural motifs reflect protein stability
F Zheng, G Grigoryan
PloS one 12 (5), e0178272, 2017
DDOT: A swiss army knife for investigating data-driven biological ontologies
MK Yu, J Ma, K Ono, F Zheng, SH Fong, A Gary, J Chen, B Demchak, ...
Cell systems 8 (3), 267-273. e3, 2019
Annotating gene sets by mining large literature collections with protein networks
S Wang, J Ma, MK Yu, F Zheng, EW Huang, J Han, J Peng, T Ideker
PACIFIC SYMPOSIUM ON BIOCOMPUTING 2018: Proceedings of the Pacific Symposium …, 2018
A multi-scale map of protein assemblies in the DNA damage response
A Kratz, M Kim, MR Kelly, F Zheng, CA Koczor, J Li, K Ono, Y Qin, ...
Cell Systems 14 (6), 447-463. e8, 2023
Design of Specific Peptide–Protein Recognition
F Zheng, G Grigoryan
Methods of molecular biology, 249-263, 2016
Simplifying the Design of Protein-Peptide Interaction Specificity with Sequence-Based Representations of Atomistic Models
F Zheng, G Grigoryan
Modeling Peptide-Protein Interactions: Methods and Protocols, 189-200, 2017
Desmosome mutations impact the tumor microenvironment to promote melanoma proliferation
M Baron, M Tagore, P Wall, F Zheng, D Barkley, I Yanai, J Yang, M Kiuru, ...
bioRxiv, 2023.09. 19.558457, 2023
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