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Yang Shen

Tiangong University · CN
Area of research
Molecular Biology · Computational Theory and Mathematics
Research interest
Research interests include Protein Structure and Dynamics, Computational Drug Discovery Methods, RNA and protein synthesis mechanisms, and Machine Learning in Bioinformatics.
h-index
41
citations
10,628
works
227
NIH funding
primary concept
email

Recent publications

Current and future directions in network biology
Bioinformatics Advances 2024cited by 92position: middledoi
Critical assessment of variant prioritization methods for rare disease diagnosis within the rare genomes project
Human Genomics 2024cited by 17position: middledoi
Assessing predictions on fitness effects of missense variants in HMBS in CAGI6
Human Genetics 2024cited by 2position: middledoi
Impact of <scp>AlphaFold</scp> on structure prediction of protein complexes: The <scp>CASP15‐CAPRI</scp> experiment
Proteins Structure Function and Bioinformatics 2023cited by 79position: middledoi
Impact of AlphaFold on Structure Prediction of Protein Complexes: The CASP15-CAPRI Experiment
2023cited by 17position: middledoi
Circulating ACE2-expressing extracellular vesicles block broad strains of SARS-CoV-2
Nature Communications 2022cited by 167position: middledoi
Prediction of protein assemblies, the next frontier: The <scp>CASP14‐CAPRI</scp> experiment
Proteins Structure Function and Bioinformatics 2021cited by 125position: middledoi
Reduced miR-363-3p expression in non-small cell lung cancer is associated with gemcitabine resistance via targeting of CUL4A
DOAJ (DOAJ: Directory of Open Access Journals) 2021cited by 6position: middle
Blind prediction of homo‐ and hetero‐protein complexes: The CASP13‐CAPRI experiment
Proteins Structure Function and Bioinformatics 2019cited by 140position: middledoi
Assessment of blind predictions of the clinical significance of <i>BRCA1</i> and <i>BRCA2</i> variants
Human Mutation 2019cited by 21position: middledoi
Genomic and Molecular Landscape of DNA Damage Repair Deficiency across The Cancer Genome Atlas
Cell Reports 2018cited by 1,220position: middledoi
Homophilic CD44 Interactions Mediate Tumor Cell Aggregation and Polyclonal Metastasis in Patient-Derived Breast Cancer Models
Cancer Discovery 2018cited by 407position: middledoi
The SERM/SERD bazedoxifene disrupts ESR1 helix 12 to overcome acquired hormone resistance in breast cancer cells
eLife 2018cited by 93position: middledoi
A mutation in the CACNA1C gene leads to early repolarization syndrome with incomplete penetrance: A Chinese family study
PLoS ONE 2017cited by 22position: middledoi
Estrogen receptor alpha somatic mutations Y537S and D538G confer breast cancer endocrine resistance by stabilizing the activating function-2 binding conformation
eLife 2016cited by 303position: middledoi
Identification of YbeY-Protein Interactions Involved in 16S rRNA Maturation and Stress Regulation in Escherichia coli
mBio 2016cited by 62position: middledoi
Overflow metabolism in Escherichia coli results from efficient proteome allocation
Nature 2015cited by 814position: middledoi
ESR1 ligand-binding domain mutations in hormone-resistant breast cancer
Nature Genetics 2013cited by 1,247position: middledoi
Overcoming mutation-based resistance to antiandrogens with rational drug design
eLife 2013cited by 389position: middledoi
Blind prediction of interfacial water positions in CAPRI
Proteins Structure Function and Bioinformatics 2013cited by 57position: middledoi

Grants

Collaborative Research: Characterizing Spatial and Temporal Variations of Volcanic Rift Zones on Basaltic Shield Volcanoes: A Seismological Study at Kilauea and Mauna Loa, Hawaii
NSF2415948$303,7902024–2027PIRePORTER
CAREER: Physics-Constrained Modeling of Molecular Texts, Graphs, and Images for Deciphering Protein-Protein Interactions
NSF1943008$500,0002020–2026PIRePORTER
Collaborative Research: An Open Access Experiment to Seismically Image Galapagos Plume-Ridge Interaction
NSF1927133$335,2012020–2027PIRePORTER
Gaining new insights into the magmatic and tectonic processes at Kilauea Volcano from analysis of data recorded by the 2018 RAPID OBS array
NSF1949620$253,2532020–2024PIRePORTER
RAPID: COLLABORATIVE RESEARCH: OBS survey of Kilauea's submarine south flank following the May 4, 2018 M6.9 earthquake and Lower East Rift Zone eruption
NSF1840972$7,7752018–2019PIRePORTER
CCF: EAGER: Dimension Reduction and Optimization Methods for Flexible Refinement of Protein Docking
NSF1546278$88,5732015–2017PIRePORTER
CCF: EAGER: Dimension Reduction and Optimization Methods for Flexible Refinement of Protein Docking
NSF1347865$174,9872013–2015PIRePORTER
Developing a comprehensive model of subduction and continental accretion at Cascadia
NSF1144771$206,5762012–2015PIRePORTER
Collaborative Research: The Growth of the Tibetan Plateau - A Seismic Investigation of the Qilian Shan and Surrounding Tectonic Blocks
NSF0738779$224,9532008–2013PIRePORTER
"Upgrading computational facilities for URI Seismology and Marine Geophysics"
NSF0727919$67,3352007–2008PIRePORTER
"COLLABORATIVE RESEARCH: Compositional and thermal variations in the mantle transition zone from integrated seismological and petrological investigations"
NSF0551117$264,1712006–2012PIRePORTER
Joint tomography using three-dimensional sensitivity of finite-frequency body and surface waves: Methods and application to the Iceland hotspot
NSF0425747$329,5302004–2008PIRePORTER
Seismic Wave Propagation in the Oceanic Crust and Upper Mantle
NSF0241655$145,9952003–2006PIRePORTER
Collaborative Research: Constructing Self-Consistent Seismological And Geodynamic Models Of The Iceland Mantle Plume
NSF0118111$270,5632002–2004PIRePORTER
High-Resolution Mantle Discontinuity Structure Beneath Iceland and Hawaii
NSF9906902$214,1192000–2004PIRePORTER
Investigation of Local Seismicity Recorded by the MELT Array
NSF9896393$97,1361998–2000PIRePORTER
Investigation of Local Seismicity Recorded by the MELT Array
NSF9712176$53,6001997–1998PIRePORTER
Models of the 3-D Stratigraphy of Glaciated Continental Shelves
NSF9526930$80,0001996–1999PIRePORTER
Imaging the Pattern of Large-Scale Mantle Convection Beneath Mid-Ocean Ridges Through Upper Mantle Discontinuities
NSF9530317$65,2301996–1997PIRePORTER

Frequent collaborators

Geoffrey L. Greene · University of Chicago4 papers (2013–2018)Weiyi Toy · University of Nottingham Ningbo China3 papers (2013–2018)Sean W. Fanning · Loyola University Chicago3 papers (2013–2018)Sarat Chandarlapaty · Organogenesis (United States)3 papers (2013–2018)Patrick R. Griffin · Scripps Research Institute2 papers (2016–2018)Venkatasubramanian Dharmarajan · Scripps Research Institute2 papers (2016–2018)Teresa A. Martin · University of Illinois Urbana-Champaign2 papers (2016–2018)Christopher G. Mayne · Medical College of Wisconsin2 papers (2016–2018)John A. Katzenellenbogen · University of Illinois Urbana-Champaign2 papers (2016–2018)David J. Hosfield · Teradyne (United States)2 papers (2013–2018)Kathryn E. Carlson · University of Illinois Urbana-Champaign2 papers (2016–2018)Bradley Green · Gadsden State Community College2 papers (2013–2016)Emad Tajkhorshid · University of Illinois Urbana-Champaign2 papers (2016–2018)Huiping Liu · Zhejiang International Studies University1 papers (2018–2018)Hui Zhou · Nanchang University1 papers (2017–2017)Muriel Lainé · University of Chicago1 papers (2018–2018)Dhwani Patel · Pennsylvania State University1 papers (2018–2018)Rita A. Sakr · Dubai Hospital1 papers (2013–2013)Maarten Vercruysse · Massachusetts Institute of Technology1 papers (2016–2016)Philip A. Watson · University of Idaho1 papers (2013–2013)