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Author Details

Gary D Stormo
Washington University in St. Louis
1981
193
67
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37294804Finding motifs using DNA images derived from sparse representations.Bioinformatics2023
36951113On the dependent recognition of some long zinc finger proteins.Nucleic Acids Res2023
37294804Finding motifs using DNA images derived from sparse representations.Bioinformatics2023
36951113On the dependent recognition of some long zinc finger proteins.Nucleic Acids Res2023
33720298Directed Evolution of an Enhanced POU Reprogramming Factor for Cell Fate Engineering.Mol Biol Evol2021
33720298Directed Evolution of an Enhanced POU Reprogramming Factor for Cell Fate Engineering.Mol Biol Evol2021
32817123Alternative Splicing During the <i>Chlamydomonas</i><i>reinhardtii</i> Cell Cycle.G3 (Bethesda)2020
33311538Autoregulation of yeast ribosomal proteins discovered by efficient search for feedback regulation.Commun Biol2020
32817123Alternative Splicing During the <i>Chlamydomonas</i><i>reinhardtii</i> Cell Cycle.G3 (Bethesda)2020
32665585Redefining fundamental concepts of transcription initiation in bacteria.Nat Rev Genet2020
33311538Autoregulation of yeast ribosomal proteins discovered by efficient search for feedback regulation.Commun Biol2020
32665585Redefining fundamental concepts of transcription initiation in bacteria.Nat Rev Genet2020
29510689Comparison of discriminative motif optimization using matrix and DNA shape-based models.BMC Bioinformatics2018
29510689Comparison of discriminative motif optimization using matrix and DNA shape-based models.BMC Bioinformatics2018
29587652Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq.BMC Mol Biol2018
29587652Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq.BMC Mol Biol2018
27915232Quantitative profiling of selective Sox/POU pairing on hundreds of sequences in parallel by Coop-seq.Nucleic Acids Res2017
28510715Quantitative specificity of STAT1 and several variants.Nucleic Acids Res2017
28686588Inherent limitations of probabilistic models for protein-DNA binding specificity.PLoS Comput Biol2017
28379348BEESEM: estimation of binding energy models using HT-SELEX data.Bioinformatics2017
29050852Coop-Seq Analysis Demonstrates that Sox2 Evokes Latent Specificities in the DNA Recognition by Pax6.J Mol Biol2017
28355564SMARCAD1 Contributes to the Regulation of Naive Pluripotency by Interacting with Histone Citrullination.Cell Rep2017
29159284Measuring quantitative effects of methylation on transcription factor-DNA binding affinity.Sci Adv2017
27915232Quantitative profiling of selective Sox/POU pairing on hundreds of sequences in parallel by Coop-seq.Nucleic Acids Res2017
28379348BEESEM: estimation of binding energy models using HT-SELEX data.Bioinformatics2017
28355564SMARCAD1 Contributes to the Regulation of Naive Pluripotency by Interacting with Histone Citrullination.Cell Rep2017
29050852Coop-Seq Analysis Demonstrates that Sox2 Evokes Latent Specificities in the DNA Recognition by Pax6.J Mol Biol2017
29159284Measuring quantitative effects of methylation on transcription factor-DNA binding affinity.Sci Adv2017
28510715Quantitative specificity of STAT1 and several variants.Nucleic Acids Res2017
28686588Inherent limitations of probabilistic models for protein-DNA binding specificity.PLoS Comput Biol2017
26772747Combinatorial Cis-regulation in Saccharomyces Species.G3 (Bethesda)2016
26772747Combinatorial Cis-regulation in Saccharomyces Species.G3 (Bethesda)2016
27684185DNA Structure Helps Predict Protein Binding.Cell Syst2016
27684185DNA Structure Helps Predict Protein Binding.Cell Syst2016
25362070Spec-seq: determining protein-DNA-binding specificity by sequencing.Brief Funct Genomics2015
25362070Spec-seq: determining protein-DNA-binding specificity by sequencing.Brief Funct Genomics2015
25691127Intermediate DNA methylation is a conserved signature of genome regulation.Nat Commun2015
26753103Determination of specificity influencing residues for key transcription factor families.Quant Biol2015
26752632A quantitative understanding of lac repressor's binding specificity and flexibility.Quant Biol2015
26088140Response Element Composition Governs Correlations between Binding Site Affinity and Transcription in Glucocorticoid Receptor Feed-forward Loops.J Biol Chem2015
26334922DNA Motif Databases and Their Uses.Curr Protoc Bioinformatics2015
26334922DNA Motif Databases and Their Uses.Curr Protoc Bioinformatics2015
26753103Determination of specificity influencing residues for key transcription factor families.Quant Biol2015
26752632A quantitative understanding of lac repressor's binding specificity and flexibility.Quant Biol2015
26088140Response Element Composition Governs Correlations between Binding Site Affinity and Transcription in Glucocorticoid Receptor Feed-forward Loops.J Biol Chem2015
25691127Intermediate DNA methylation is a conserved signature of genome regulation.Nat Commun2015
24369152Discriminative motif optimization based on perceptron training.Bioinformatics2014
24369152Discriminative motif optimization based on perceptron training.Bioinformatics2014
24523353An improved predictive recognition model for Cys(2)-His(2) zinc finger proteins.Nucleic Acids Res2014
24882217Innate host defense requires TFEB-mediated transcription of cytoprotective and antimicrobial genes.Immunity2014
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Collaborators

Ryan G Christensen
Co-authored papers 9
Scot A Wolfe
Co-authored papers 8
Ting Wang
Washington University School of Medicine
Co-authored papers 8
Panayiotis V Benos
University of Florida
Co-authored papers 6
Ankit Gupta
Co-authored papers 4
Kai Tan
University of Pennsylvania
Co-authored papers 4
Jason M Laramie
Co-authored papers 4
Rakesh Nagarajan
Current or past members of the College of American Pathologists
Co-authored papers 3
Timothy G Buchman
Uniformed Services University of the Health Sciences
Co-authored papers 3
Jin Billy Li
Co-authored papers 3
Christopher T Workman
Technical University of Denmark
Co-authored papers 3
David Haussler
Genomics Institute, University of California Santa Cruz
Co-authored papers 3
Marcus B Noyes
Co-authored papers 3
Ronak Y Patel
Baylor College of Medicine
Co-authored papers 3
David Kulp
Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard
Co-authored papers 2
Jeremy Buhler
Washington University in St. Louis
Co-authored papers 2
Thomas E Johnson
Institute for Behavioral Genetics, University of Colorado Boulder
Co-authored papers 2
Charles C Gu
Co-authored papers 2
Xiaoyun Xing
Co-authored papers 2
Yiing Lin
Co-authored papers 2
Howard L McLeod
Center for Precision Medicine and Functional Genomics, Utah Tech University
Co-authored papers 2
Lihua Julie Zhu
Co-authored papers 2
Bruce A McKinley
The Methodist Hospital Research Institute
Co-authored papers 1
Casey T Weaver
University of Alabama at Birmingham
Co-authored papers 1
Jacques van Helden
Co-authored papers 1
Lee Ann McCue
Pacific Northwest National Laboratory
Co-authored papers 1
Elton T Young
University of Washington
Co-authored papers 1
Manolis Kellis
Massachusetts Institute of Technology
Co-authored papers 1
Adam P Arkin
Lawrence Berkeley National Laboratory
Co-authored papers 1
Simon Melov
Buck Institute for Research on Aging
Co-authored papers 1
Release 1.2