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Author Details

William J Greenleaf
Stanford University
1998
151
58
Nathan Sheffield (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36897989Dissecting the energetic architecture within an RNA tertiary structural motif via high-throughput thermodynamic measurements.Proc Natl Acad Sci U S A2023
37679544Integration of spatial and single-cell data across modalities with weakly linked features.Nat Biotechnol2023
37944513RNA polymerase II dynamics and mRNA stability feedback scale mRNA amounts with cell size.Cell2023
38014075An encyclopedia of enhancer-gene regulatory interactions in the human genome.bioRxiv2023
37873344Single-cell chromatin state transitions during epigenetic memory formation.bioRxiv2023
37781619Genome-wide distribution of 5-hydroxymethyluracil and chromatin accessibility in the <i>Breviolum minutum</i> genome.bioRxiv2023
37961278The landscape of the histone-organized chromatin of Bdellovibrionota bacteria.bioRxiv2023
37770513Global mapping of RNA-chromatin contacts reveals a proximity-dominated connectivity model for ncRNA-gene interactions.Nat Commun2023
37095394Single-cell transcriptomic landscape of the developing human spinal cord.Nat Neurosci2023
37028221Systems biology approaches to unravel lymphocyte subsets and function.Curr Opin Immunol2023
36897989Dissecting the energetic architecture within an RNA tertiary structural motif via high-throughput thermodynamic measurements.Proc Natl Acad Sci U S A2023
36711792Integration of spatial and single-cell data across modalities with weak linkage.bioRxiv2023
36510022Aging-associated HELIOS deficiency in naive CD4<sup>+</sup> T cells alters chromatin remodeling and promotes effector cell responses.Nat Immunol2023
36635406High-throughput biochemistry in RNA sequence space: predicting structure and function.Nat Rev Genet2023
36807070Simultaneous Single-Cell Profiling of the Transcriptome and Accessible Chromatin Using SHARE-seq.Methods Mol Biol2023
36807067Single-Molecule Mapping of Chromatin Accessibility Using NOMe-seq/dSMF.Methods Mol Biol2023
36807060Genome-Wide Mapping of Active Regulatory Elements Using ATAC-seq.Methods Mol Biol2023
36696483Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria.Sci Transl Med2023
37425926Human Immune Cell Epigenomic Signatures in Response to Infectious Diseases and Chemical Exposures.bioRxiv2023
36848578Multifaceted role for p53 in pancreatic cancer suppression.Proc Natl Acad Sci U S A2023
37500727Integrated single-cell chromatin and transcriptomic analyses of human scalp identify gene-regulatory programs and critical cell types for hair and skin diseases.Nat Genet2023
38014075An encyclopedia of enhancer-gene regulatory interactions in the human genome.bioRxiv2023
37961278The landscape of the histone-organized chromatin of Bdellovibrionota bacteria.bioRxiv2023
37944513RNA polymerase II dynamics and mRNA stability feedback scale mRNA amounts with cell size.Cell2023
37781619Genome-wide distribution of 5-hydroxymethyluracil and chromatin accessibility in the <i>Breviolum minutum</i> genome.bioRxiv2023
37500727Integrated single-cell chromatin and transcriptomic analyses of human scalp identify gene-regulatory programs and critical cell types for hair and skin diseases.Nat Genet2023
37873344Single-cell chromatin state transitions during epigenetic memory formation.bioRxiv2023
37770513Global mapping of RNA-chromatin contacts reveals a proximity-dominated connectivity model for ncRNA-gene interactions.Nat Commun2023
37679544Integration of spatial and single-cell data across modalities with weakly linked features.Nat Biotechnol2023
37425926Human Immune Cell Epigenomic Signatures in Response to Infectious Diseases and Chemical Exposures.bioRxiv2023
37095394Single-cell transcriptomic landscape of the developing human spinal cord.Nat Neurosci2023
37028221Systems biology approaches to unravel lymphocyte subsets and function.Curr Opin Immunol2023
36696483Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria.Sci Transl Med2023
36848578Multifaceted role for p53 in pancreatic cancer suppression.Proc Natl Acad Sci U S A2023
36807070Simultaneous Single-Cell Profiling of the Transcriptome and Accessible Chromatin Using SHARE-seq.Methods Mol Biol2023
36807067Single-Molecule Mapping of Chromatin Accessibility Using NOMe-seq/dSMF.Methods Mol Biol2023
36807060Genome-Wide Mapping of Active Regulatory Elements Using ATAC-seq.Methods Mol Biol2023
36711792Integration of spatial and single-cell data across modalities with weak linkage.bioRxiv2023
36510022Aging-associated HELIOS deficiency in naive CD4<sup>+</sup> T cells alters chromatin remodeling and promotes effector cell responses.Nat Immunol2023
36635406High-throughput biochemistry in RNA sequence space: predicting structure and function.Nat Rev Genet2023
35103973Single-Molecule Multikilobase-Scale Profiling of Chromatin Accessibility Using m6A-SMAC-Seq and m6A-CpG-GpC-SMAC-Seq.Methods Mol Biol2022
35463156Integrating transcription-factor abundance with chromatin accessibility in human erythroid lineage commitment.Cell Rep Methods2022
36171288PD-1 combination therapy with IL-2 modifies CD8<sup>+</sup> T cell exhaustion program.Nature2022
35817986Systematic discovery and perturbation of regulatory genes in human T cells reveals the architecture of immune networks.Nat Genet2022
35501385NEAT-seq: simultaneous profiling of intra-nuclear proteins, chromatin accessibility and gene expression in single cells.Nat Methods2022
35927243A comprehensive thermodynamic model for RNA binding by the Saccharomyces cerevisiae Pumilio protein PUF4.Nat Commun2022
35726067Single-cell analyses define a continuum of cell state and composition changes in the malignant transformation of polyps to colorectal cancer.Nat Genet2022
35471911Crowdsourced RNA design discovers diverse, reversible, efficient, self-contained molecular switches.Proc Natl Acad Sci U S A2022
36516854Engineered cell entry links receptor biology with single-cell genomics.Cell2022
36563664Integrative single-cell analysis of cardiogenesis identifies developmental trajectories and non-coding mutations in congenital heart disease.Cell2022
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Collaborators

Howard Y Chang
Center for Personal Dynamic Regulomes, Stanford University
Co-authored papers 36
Anshul Kundaje
Stanford University.
Co-authored papers 25
Jason D Buenrostro
Harvard University, Broad Institute of MIT and Harvard
Co-authored papers 21
Maxwell R Mumbach
Broad Institute of MIT and Harvard
Co-authored papers 12
Jeffrey M Granja
Stanford University School of Medicine
Co-authored papers 12
Ansuman T Satpathy
Stanford University
Co-authored papers 12
M Ryan Corces
Gladstone Institute of Neurological Disease
Co-authored papers 12
Georgi K Marinov
Co-authored papers 12
Michael Snyder
Stanford University
Co-authored papers 10
Arwa Kathiria
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Stanford University School of Medicine
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Stanford University School of Medicine
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Michael C Bassik
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Ulrike M Litzenburger
Center for Personal Dynamic Regulomes, Stanford University School of Medicine
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Mark M Davis
Co-authored papers 4
Seung Woo Cho
Center for Genomic Integrity, Institute for Basic Science
Co-authored papers 4
Monte M Winslow
Stanford University School of Medicine
Co-authored papers 4
Jacob E Corn
Co-authored papers 3
Rafi Ahmed
Co-authored papers 3
Wing Hung Wong
Stanford University
Co-authored papers 3
Shadi Shams
Rowan University School of Osteopathic Medicine
Co-authored papers 3
Ryan A Flynn
Boston Children's Hospital
Co-authored papers 3
Dimitre R Simeonov
University of California San Francisco
Co-authored papers 3
Jimena Andersen
Stanford University
Co-authored papers 3
Robert Landick
University of Wisconsin-Madison
Co-authored papers 3
Release 1.2