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Author Details

Joseph R Nery
The Salk Institute for Biological Studies
2009
65
42
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36690743Author Correction: CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping.Nat Methods2023
38092918Conserved and divergent gene regulatory programs of the mammalian neocortex.Nature2023
38092919Brain-wide correspondence of neuronal epigenomics and distant projections.Nature2023
38092913Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain.Nature2023
37131654Single-cell DNA Methylome and 3D Multi-omic Atlas of the Adult Mouse Brain.bioRxiv2023
37066152Comparative single cell epigenomic analysis of gene regulatory programs in the rodent and primate neocortex.bioRxiv2023
36690790Author Correction: PHYTOCHROME-INTERACTING FACTORs trigger environmentally responsive chromatin dynamics in plants.Nat Genet2023
36690743Author Correction: CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping.Nat Methods2023
37425926Human Immune Cell Epigenomic Signatures in Response to Infectious Diseases and Chemical Exposures.bioRxiv2023
37492103Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes.Cell Genom2023
37492103Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes.Cell Genom2023
38092918Conserved and divergent gene regulatory programs of the mammalian neocortex.Nature2023
38092919Brain-wide correspondence of neuronal epigenomics and distant projections.Nature2023
38092913Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain.Nature2023
37425926Human Immune Cell Epigenomic Signatures in Response to Infectious Diseases and Chemical Exposures.bioRxiv2023
37131654Single-cell DNA Methylome and 3D Multi-omic Atlas of the Adult Mouse Brain.bioRxiv2023
37066152Comparative single cell epigenomic analysis of gene regulatory programs in the rodent and primate neocortex.bioRxiv2023
36690790Author Correction: PHYTOCHROME-INTERACTING FACTORs trigger environmentally responsive chromatin dynamics in plants.Nat Genet2023
35319013Author Correction: Comparative cellular analysis of motor cortex in human, marmoset and mouse.Nature2022
35419551Single nucleus multi-omics identifies human cortical cell regulatory genome diversity.Cell Genom2022
35666176Leaf cell-specific and single-cell transcriptional profiling reveals a role for the palisade layer in UV light protection.Plant Cell2022
35604009<i>Dnmt3a</i> knockout in excitatory neurons impairs postnatal synapse maturation and increases the repressive histone modification H3K27me3.Elife2022
35319013Author Correction: Comparative cellular analysis of motor cortex in human, marmoset and mouse.Nature2022
35604009<i>Dnmt3a</i> knockout in excitatory neurons impairs postnatal synapse maturation and increases the repressive histone modification H3K27me3.Elife2022
35666176Leaf cell-specific and single-cell transcriptional profiling reveals a role for the palisade layer in UV light protection.Plant Cell2022
35419551Single nucleus multi-omics identifies human cortical cell regulatory genome diversity.Cell Genom2022
33462491The emergence of the brain non-CpG methylation system in vertebrates.Nat Ecol Evol2021
33462491The emergence of the brain non-CpG methylation system in vertebrates.Nat Ecol Evol2021
34140685PHYTOCHROME-INTERACTING FACTORs trigger environmentally responsive chromatin dynamics in plants.Nat Genet2021
33875866Iterative single-cell multi-omic integration using online learning.Nat Biotechnol2021
33976139Single nucleus multi-omics regulatory landscape of the murine pituitary.Nat Commun2021
34616066A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex.Nature2021
34616062Comparative cellular analysis of motor cortex in human, marmoset and mouse.Nature2021
34616065Epigenomic diversity of cortical projection neurons in the mouse brain.Nature2021
33875866Iterative single-cell multi-omic integration using online learning.Nat Biotechnol2021
34616066A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex.Nature2021
34616062Comparative cellular analysis of motor cortex in human, marmoset and mouse.Nature2021
34616065Epigenomic diversity of cortical projection neurons in the mouse brain.Nature2021
33976139Single nucleus multi-omics regulatory landscape of the murine pituitary.Nat Commun2021
34140685PHYTOCHROME-INTERACTING FACTORs trigger environmentally responsive chromatin dynamics in plants.Nat Genet2021
32159514Losing Dnmt3a dependent methylation in inhibitory neurons impairs neural function by a mechanism impacting Rett syndrome.Elife2020
32170290Integrated multi-omics framework of the plant response to jasmonic acid.Nat Plants2020
32159514Losing Dnmt3a dependent methylation in inhibitory neurons impairs neural function by a mechanism impacting Rett syndrome.Elife2020
32728242Spatiotemporal DNA methylome dynamics of the developing mouse fetus.Nature2020
32728242Spatiotemporal DNA methylome dynamics of the developing mouse fetus.Nature2020
32170290Integrated multi-omics framework of the plant response to jasmonic acid.Nat Plants2020
30644360Global DNA methylation remodeling during direct reprogramming of fibroblasts to neurons.Elife2019
30644360Global DNA methylation remodeling during direct reprogramming of fibroblasts to neurons.Elife2019
30657772The complex architecture and epigenomic impact of plant T-DNA insertions.PLoS Genet2019
31501549Simultaneous profiling of 3D genome structure and DNA methylation in single human cells.Nat Methods2019
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Collaborators

Joseph R Ecker
The Salk Institute for Biological Studies
Co-authored papers 65
Bing Ren
Center for Epigenomics, University of California San Diego
Co-authored papers 19
Huaming Chen
The Salk Institute for Biological Studies
Co-authored papers 16
Yupeng He
Salk Institute for Biological Studies
Co-authored papers 15
Eran A Mukamel
University of California San Diego
Co-authored papers 15
Mark A Urich
The Salk Institute for Biological Studies
Co-authored papers 15
Jingtian Zhou
Co-authored papers 11
Robert J Schmitz
University of Georgia
Co-authored papers 10
Ryan Lister
Co-authored papers 10
Zhuzhu Zhang
The Salk Institute for Biological Studies
Co-authored papers 9
Matthew D Schultz
Co-authored papers 8
Shao-Shan Carol Huang
Salk Institute for Biological Studies
Co-authored papers 8
Zizhen Yao
Allen Institute for Brain Science
Co-authored papers 7
Hongkui Zeng
Allen Institute for Brain Science
Co-authored papers 7
Manoj Hariharan
Co-authored papers 6
Terrence J Sejnowski
Co-authored papers 6
Rongxin Fang
Ludwig Institute for Cancer Research, University of California San Diego
Co-authored papers 5
Sebastian Preissl
Center for Epigenomics, University of California San Diego
Co-authored papers 5
Mattia Pelizzola
Center for Genomic Science of , Istituto Italiano di Tecnologia (IIT)
Co-authored papers 5
Ed S Lein
Allen Institute for Brain Science
Co-authored papers 5
Fangming Xie
University of California Los Angeles
Co-authored papers 5
Steven A McCarroll
Co-authored papers 4
Stephan Fischer
Institut Pasteur, Universite Paris Cite
Co-authored papers 3
Ziv Bar-Joseph
Carnegie Mellon University
Co-authored papers 3
Ronna Hertzano
University of Maryland School of Medicine
Co-authored papers 3
Gary C Hon
Cecil H. and Ida Green Center for Reproductive Biology Sciences
Co-authored papers 3
Ah Young Lee
Co-authored papers 3
Michael Hawrylycz
Allen Institute for Brain Science
Co-authored papers 3
Evan Z Macosko
Co-authored papers 3
John W Whitaker
Co-authored papers 3
Release 1.2