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Author Details

Yana Bromberg
Rutgers University
2003
91
27
PMIDPaper TitleJournal TitlePublished Year
37739408Learning from the unknown: exploring the range of bacterial functionality.Nucleic Acids Res2023
34580920Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first 6 months of the COVID-19 pandemic.Proteins2022
35545619Deep learning of a bacterial and archaeal universal language of life enables transfer learning and illuminates microbial dark matter.Nat Commun2022
35347416Predicting embryonic aneuploidy rate in IVF patients using whole-exome sequencing.Hum Genet2022
35639953mebipred: identifying metal-binding potential in protein sequence.Bioinformatics2022
35627162Inferring Potential Cancer Driving Synonymous Variants.Genes (Basel)2022
36149496Computational interpretation of human genetic variation.Hum Genet2022
35030025Quantifying structural relationships of metal-binding sites suggests origins of biological electron transfer.Sci Adv2022
35338359Tightening the (neural) net for protein structure prediction.Nat Rev Genet2022
33999203PredictProtein - Predicting Protein Structure and Function for 29 Years.Nucleic Acids Res2021
33816556Low Diversity of Human Variation Despite Mostly Mild Functional Impact of De Novo Variants.Front Mol Biosci2021
33587919Impact of vitamin A transport and storage on intestinal retinoid homeostasis and functions.J Lipid Res2021
34850938Decoding the effects of synonymous variants.Nucleic Acids Res2021
34965893Correction to: Whole exome sequencing identifies novel candidate genes that modify chronic obstructive pulmonary disease susceptibility.Hum Genomics2021
32517697Amino acid encoding for deep learning applications.BMC Bioinformatics2020
32797732Virtual Boot Camp: COVID-19 evolution and structural biology.Biochem Mol Biol Educ2020
32762019Snow microbiome functional analyses reveal novel aspects of microbial metabolism of complex organic compounds.Microbiologyopen2020
31140652Predicting venous thromboembolism risk from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges.Hum Mutat2019
31666099Fingerprinting cities: differentiating subway microbiome functionality.Biol Direct2019
31649718Predicting Functional Effects of Synonymous Variants: A Systematic Review and Perspectives.Front Genet2019
31301157Assessing computational predictions of the phenotypic effect of cystathionine-beta-synthase variants.Hum Mutat2019
31184403Assessment of methods for predicting the effects of PTEN and TPMT protein variants.Hum Mutat2019
31268618What went wrong with variant effect predictor performance for the PCM1 challenge.Hum Mutat2019
31241222Assessing the performance of in silico methods for predicting the pathogenicity of variants in the gene CHEK2, among Hispanic females with breast cancer.Hum Mutat2019
31584091funtrp: identifying protein positions for variation driven functional tuning.Nucleic Acids Res2019
31260570Performance of computational methods for the evaluation of pericentriolar material 1 missense variants in CAGI-5.Hum Mutat2019
31342580Assessment of predicted enzymatic activity of α-N-acetylglucosaminidase variants of unknown significance for CAGI 2016.Hum Mutat2019
31510708ISMB/ECCB 2019 Proceedings.Bioinformatics2019
31307380VarI-COSI 2018: a forum for research advances in variant interpretation and diagnostics.BMC Genomics2019
31564248Identifying Crohn's disease signal from variome analysis.Genome Med2019
31144782Identifying mutation-driven changes in gene functionality that lead to venous thromboembolism.Hum Mutat2019
29112720fusionDB: assessing microbial diversity and environmental preferences via functional similarity networks.Nucleic Acids Res2018
29950022ISMB 2018 proceedings.Bioinformatics2018
29950013HFSP: high speed homology-driven function annotation of proteins.Bioinformatics2018
29300733Ten simple rules for drawing scientific comics.PLoS Comput Biol2018
29194524Functional sequencing read annotation for high precision microbiome analysis.Nucleic Acids Res2018
29194481fusionDB: assessing microbial diversity and environmental preferences via functional similarity networks.Nucleic Acids Res2018
27896956COMPUTATIONAL APPROACHES TO UNDERSTANDING THE EVOLUTION OF MOLECULAR FUNCTION.Pac Symp Biocomput2017
28440912Performance of in silico tools for the evaluation of p16INK4a (CDKN2A) variants in CAGI.Hum Mutat2017
28487536Common sequence variants affect molecular function more than rare variants?Sci Rep2017
28134345Computational predictors fail to identify amino acid substitution effects at rheostat positions.Sci Rep2017
29547916ISMB/ECCB 2017 proceedings.Bioinformatics2017
28618195Novel reductive dehalogenases from the marine sponge associated bacterium Desulfoluna spongiiphila.Environ Microbiol Rep2017
28634997Working toward precision medicine: Predicting phenotypes from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges.Hum Mutat2017
28609295clubber: removing the bioinformatics bottleneck in big data analyses.J Integr Bioinform2017
26744305Whole exome sequencing identifies novel candidate genes that modify chronic obstructive pulmonary disease susceptibility.Hum Genomics2016
27713481Computational prediction shines light on type III secretion origins.Sci Rep2016
27536940Predicted Molecular Effects of Sequence Variants Link to System Level of Disease.PLoS Comput Biol2016
27423136Protein function in precision medicine: deep understanding with machine learning.FEBS Lett2016
27357578VarI-SIG 2015: methods for personalized medicine - the role of variant interpretation in research and diagnostics.BMC Genomics2016
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Collaborators

Burkhard Rost
Technical University of Munich (TUM)
Co-authored papers 20
Predrag Radivojac
Indiana University
Co-authored papers 12
Rita Casadio
Department of Pharmacy and Biotechnology, University of Bologna
Co-authored papers 8
Pier Luigi Martelli
Department of Pharmacy and Biotechnology, University of Bologna
Co-authored papers 8
Olivier Lichtarge
Baylor College of Medicine
Co-authored papers 7
John Moult
Institute for Bioscience and Biotechnology Research
Co-authored papers 7
Steven E Brenner
University of California berkeley
Co-authored papers 7
Castrense Savojardo
Department of Pharmacy and Biotechnology, University of Bologna
Co-authored papers 6
Andre Franke
Institute of Clinical Molecular Biology, Kiel University
Co-authored papers 5
Sean D Mooney
University of Washington
Co-authored papers 5
Tatyana Goldberg
TUM (Technical University of Munich) Department of Informatics
Co-authored papers 4
Silvio C E Tosatto
University of Padova
Co-authored papers 4
Vikas Pejaver
Institute for Genomic Health, Icahn School of Medicine at Mount Sinai
Co-authored papers 4
Yaoqi Zhou
Co-authored papers 3
Russ B Altman
Stanford University
Co-authored papers 3
Jinchuan Xing
The State University of New Jersey
Co-authored papers 3
Manuel Giollo
University of Padua
Co-authored papers 3
Nir Ben-Tal
Co-authored papers 3
Marco Carraro
Hematology and Clinical Immunology Unit, University of Padova
Co-authored papers 3
Carlo Ferrari
University of Padua
Co-authored papers 3
Mauno Vihinen
Lund University
Co-authored papers 3
Reinhard Schneider
Co-authored papers 3
Hannah Carter
University of California San Diego
Co-authored papers 3
Nicholas Katsanis
Northwestern University
Co-authored papers 2
Jonas Reeb
AbbVie Deutschland GmbH & Co. KG
Co-authored papers 2
Chris Sander
Broad Institute of MIT and Harvard
Co-authored papers 2
Constantina Bakolitsa
University of California berkeley
Co-authored papers 2
Stefan Schreiber
Co-authored papers 2
Stephen K Burley
The State University of New Jersey
Co-authored papers 2
Brian P Hudson
The State University of New Jersey
Co-authored papers 2
Release 1.2