Joseph R. Ecker

Q: What Schools Are Affiliated With Joseph R. Ecker

Joseph R. Ecker is affiliated with the following schools: University of California, Berkeley, North Carolina State University, University of California, San Diego, University of Missouri, University of California, Los Angeles, University of Southern California, University of Illinois College of Medicine, Pennsylvania State University, University of Chicago, The College of New Jersey, Duke University, University College London, Dartmouth College, Stanford University, University of Utah, University of Pennsylvania

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Joseph R. Ecker

Biology

#878

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#1535

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Molecular Biology

#219

World Rank

#223

Historical Rank

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Biology

Joseph R. Ecker's Degrees

PhD Biology University of Missouri
Bachelors Biology University of Missouri

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According to Wikipedia, Joseph R. Ecker is an American plant biologist and molecular biologist. He is Professor of Plant Molecular and Cellular Biology Laboratory and Director of the Genomic Analysis Laboratory at the Salk Institute for Biological Studies. He is also an Investigator of the Howard Hughes Medical Institute. He holds the Salk International Council Chair in Genetics.

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Joseph R. Ecker's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

Genome-Wide Insertional Mutagenesis of Arabidopsis thaliana (2003) (5302)
Integrative analysis of 111 reference human epigenomes (2015) (4979)
Human DNA methylomes at base resolution show widespread epigenomic differences (2009) (4245)
Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis (2008) (2315)
CTR1, a negative regulator of the ethylene response pathway in arabidopsis, encodes a member of the Raf family of protein kinases (1993) (1847)
HIV-1 Integration in the Human Genome Favors Active Genes and Local Hotspots (2002) (1794)
Genome-wide High-Resolution Mapping and Functional Analysis of DNA Methylation in Arabidopsis (2006) (1694)
The NIH Roadmap Epigenomics Mapping Consortium (2010) (1680)
Global Epigenomic Reconfiguration During Mammalian Brain Development (2013) (1562)
Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells (2011) (1522)
Phased diploid genome assembly with single-molecule real-time sequencing (2016) (1328)
Exploiting the triple response of Arabidopsis to identify ethylene-related mutants. (1990) (1281)
Chromatin architecture reorganization during stem cell differentiation (2015) (1280)
Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity (2014) (1249)
Ethylene Biosynthesis and Signaling Networks Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.001768. (2002) (1246)
EIN2, a bifunctional transducer of ethylene and stress responses in Arabidopsis. (1999) (1230)
Nuclear events in ethylene signaling: a transcriptional cascade mediated by ETHYLENE-INSENSITIVE3 and ETHYLENE-RESPONSE-FACTOR1. (1998) (1175)
Assignment of 30 microsatellite loci to the linkage map of Arabidopsis. (1994) (1116)
Mitogen-activated protein kinase cascades in plants: a new nomenclature. (2002) (1045)
Genome-wide analysis of cAMP-response element binding protein occupancy, phosphorylation, and target gene activation in human tissues. (2005) (979)
Retroviral DNA Integration: ASLV, HIV, and MLV Show Distinct Target Site Preferences (2004) (954)
Empirical Analysis of Transcriptional Activity in the Arabidopsis Genome (2003) (951)
Arabidopsis RIN4 Is a Target of the Type III Virulence Effector AvrRpt2 and Modulates RPS2-Mediated Resistance (2003) (942)
Activation of the Ethylene Gas Response Pathway in Arabidopsis by the Nuclear Protein ETHYLENE-INSENSITIVE3 and Related Proteins (1997) (912)
Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines (2010) (897)
The ethylene signaling pathway: new insights. (2004) (894)
Genome-wide association study of 107 phenotypes in a common set of Arabidopsis thaliana inbred lines (2010) (851)
1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana (2016) (840)
Plant Responses to Ethylene Gas Are Mediated by SCFEBF1/EBF2-Dependent Proteolysis of EIN3 Transcription Factor (2003) (815)
Widespread dynamic DNA methylation in response to biotic stress (2012) (801)
Distinct epigenomic landscapes of pluripotent and lineage-committed human cells. (2010) (800)
Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape (2016) (771)
Expanded encyclopaedias of DNA elements in the human and mouse genomes (2020) (765)
Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells (2011) (762)
Common Sequence Polymorphisms Shaping Genetic Diversity in Arabidopsis thaliana (2007) (744)
Independently Evolved Virulence Effectors Converge onto Hubs in a Plant Immune System Network (2011) (737)
Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications (2010) (673)
Class III Homeodomain-Leucine Zipper Gene Family Members Have Overlapping, Antagonistic, and Distinct Roles in Arabidopsis Developmentw⃞ (2005) (670)
Epigenomic Analysis of Multilineage Differentiation of Human Embryonic Stem Cells (2013) (670)
A role for LEDGF/p75 in targeting HIV DNA integration (2005) (643)
Functional Genomic Analysis of the AUXIN RESPONSE FACTOR Gene Family Members in Arabidopsis thaliana: Unique and Overlapping Functions of ARF7 and ARF19w⃞ (2005) (640)
Type-A Arabidopsis Response Regulators Are Partially Redundant Negative Regulators of Cytokinin Signaling Online version contains Web-only data. (2004) (636)
Auxin response factors ARF6 and ARF8 promote jasmonic acid production and flower maturation (2005) (615)
Transgenerational Epigenetic Instability Is a Source of Novel Methylation Variants (2011) (596)
Trp-dependent auxin biosynthesis in Arabidopsis: involvement of cytochrome P450s CYP79B2 and CYP79B3. (2002) (592)
Genetic analysis of ethylene signal transduction in Arabidopsis thaliana: five novel mutant loci integrated into a stress response pathway. (1995) (587)
EIN4 and ERS2 Are Members of the Putative Ethylene Receptor Gene Family in Arabidopsis (1998) (586)
Localization of Iron in Arabidopsis Seed Requires the Vacuolar Membrane Transporter VIT1 (2006) (584)
CDPKs CPK6 and CPK3 Function in ABA Regulation of Guard Cell S-Type Anion- and Ca2+- Permeable Channels and Stomatal Closure (2006) (575)
Chloroplast to nucleus communication triggered by accumulation of Mg-protoporphyrinIX (2003) (561)
ABA-activated SnRK2 protein kinase is required for dehydration stress signaling in Arabidopsis. (2002) (546)
Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain (2015) (541)
Human Body Epigenome Maps Reveal Noncanonical DNA Methylation Variation (2015) (538)
DELLA Proteins and Gibberellin-Regulated Seed Germination and Floral Development in Arabidopsis1[w] (2004) (529)
The ethylene gas signal transduction pathway: a molecular perspective. (1998) (529)
Recombination and linkage disequilibrium in Arabidopsis thaliana (2007) (512)
Global DNA hypomethylation coupled to repressive chromatin domain formation and gene silencing in breast cancer. (2012) (498)
Involvement of NRAMP1 from Arabidopsis thaliana in iron transport. (2000) (492)
CBF2/DREB1C is a negative regulator of CBF1/DREB1B and CBF3/DREB1A expression and plays a central role in stress tolerance in Arabidopsis. (2004) (490)
Epigenomic Diversity in a Global Collection of Arabidopsis thaliana Accessions (2016) (481)
Patterns of Population Epigenomic Diversity (2013) (472)
GUN4, a Regulator of Chlorophyll Synthesis and Intracellular Signaling (2003) (468)
HOOKLESS1, an Ethylene Response Gene, Is Required for Differential Cell Elongation in the Arabidopsis Hypocotyl (1996) (434)
Linking photoreceptor excitation to changes in plant architecture. (2012) (433)
Enhanced Fitness Conferred by Naturally Occurring Variation in the Circadian Clock (2003) (430)
Phototropin-related NPL1 controls chloroplast relocation induced by blue light (2001) (429)
RESPONSIVE-TO-ANTAGONIST1, a Menkes/Wilson Disease–Related Copper Transporter, Is Required for Ethylene Signaling in Arabidopsis (1999) (419)
Multiple Type-B Response Regulators Mediate Cytokinin Signal Transduction in Arabidopsisw⃞ (2005) (407)
Applications of DNA tiling arrays for whole-genome analysis. (2005) (407)
LUX ARRHYTHMO encodes a Myb domain protein essential for circadian rhythms. (2005) (403)
The Arabidopsis Histidine Phosphotransfer Proteins Are Redundant Positive Regulators of Cytokinin Signaling[W] (2006) (401)
Regulation of ethylene gas biosynthesis by the Arabidopsis ETO1 protein (2004) (398)
Ethylene-Induced Stabilization of ETHYLENE INSENSITIVE3 and EIN3-LIKE1 Is Mediated by Proteasomal Degradation of EIN3 Binding F-Box 1 and 2 That Requires EIN2 in Arabidopsis[C][W] (2010) (397)
Cryptochromes Interact Directly with PIFs to Control Plant Growth in Limiting Blue Light (2016) (395)
Processing and Subcellular Trafficking of ER-Tethered EIN2 Control Response to Ethylene Gas (2012) (391)
A link between RNA metabolism and silencing affecting Arabidopsis development. (2008) (389)
Molecular Criteria for Defining the Naive Human Pluripotent State (2016) (377)
Retroviral DNA Integration: Viral and Cellular Determinants of Target-Site Selection (2006) (376)
Arabidopsis Basic Helix-Loop-Helix Transcription Factors MYC2, MYC3, and MYC4 Regulate Glucosinolate Biosynthesis, Insect Performance, and Feeding Behavior[W][OPEN] (2013) (370)
NPH4/ARF7 and ARF19 promote leaf expansion and auxin-induced lateral root formation. (2005) (361)
Five components of the ethylene-response pathway identified in a screen for weak ethylene-insensitive mutants in Arabidopsis (2003) (360)
The Arabidopsis Phytochrome-Interacting Factor PIF7, Together with PIF3 and PIF4, Regulates Responses to Prolonged Red Light by Modulating phyB Levels[W] (2008) (356)
Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex (2017) (352)
Plant defense genes are regulated by ethylene. (1987) (351)
Dynamic DNA methylation: In the right place at the right time (2018) (344)
Finding the fifth base: genome-wide sequencing of cytosine methylation. (2009) (342)
Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis (2013) (332)
A transcription factor hierarchy defines an environmental stress response network (2016) (319)
Abnormalities in human pluripotent cells due to reprogramming mechanisms (2014) (313)
Interplay between ethylene, ETP1/ETP2 F-box proteins, and degradation of EIN2 triggers ethylene responses in Arabidopsis. (2009) (312)
Genome-Wide High-Resolution Mapping of Exosome Substrates Reveals Hidden Features in the Arabidopsis Transcriptome (2007) (311)
Literature-curated protein interaction datasets (2009) (309)
Disease development in ethylene-insensitive Arabidopsis thaliana infected with virulent and avirulent Pseudomonas and Xanthomonas pathogens. (1992) (307)
Integration of omic networks in a developmental atlas of maize (2016) (305)
Comparison of the transcriptional landscapes between human and mouse tissues (2014) (299)
The beta-subunit of the Arabidopsis G protein negatively regulates auxin-induced cell division and affects multiple developmental processes. (2003) (297)
Convergence of signaling pathways in the control of differential cell growth in Arabidopsis. (2004) (297)
RF1 Knockout Allows Ribosomal Incorporation of Unnatural Amino Acids at Multiple Sites (2011) (294)
The phytochrome-interacting transcription factor, PIF3, acts early, selectively, and positively in light-induced chloroplast development. (2004) (292)
Next is now: new technologies for sequencing of genomes, transcriptomes, and beyond. (2009) (284)
Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements (2015) (280)
Convergent targeting of a common host protein-network by pathogen effectors from three kingdoms of life. (2014) (279)
Genome-Wide Analysis of Chromosomal Features Repressing Human Immunodeficiency Virus Transcription (2005) (277)
The Arabidopsis heavy metal P-type ATPase HMA5 interacts with metallochaperones and functions in copper detoxification of roots. (2006) (274)
Moving forward in reverse: genetic technologies to enable genome-wide phenomic screens in Arabidopsis (2006) (273)
Inhibition of gene expression in plant cells by expression of antisense RNA. (1986) (271)
Cerebral Organoids Recapitulate Epigenomic Signatures of the Human Fetal Brain. (2016) (261)
Three redundant brassinosteroid early response genes encode putative bHLH transcription factors required for normal growth. (2002) (254)
Genomics: ENCODE explained (2012) (250)
Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana (2000) (250)
A Combinatorial Interplay Among the 1-Aminocyclopropane-1-Carboxylate Isoforms Regulates Ethylene Biosynthesis in Arabidopsis thaliana (2009) (245)
Functional Genomic Analysis of the AUXIN/INDOLE-3-ACETIC ACID Gene Family Members in Arabidopsis thaliana[W] (2005) (244)
Circadian oscillations of protein-coding and regulatory RNAs in a highly dynamic mammalian liver epigenome. (2012) (230)
'Leveling' the playing field for analyses of single-base resolution DNA methylomes. (2012) (228)
Epigenome-wide inheritance of cytosine methylation variants in a recombinant inbred population (2013) (227)
MethylC-seq library preparation for base-resolution whole-genome bisulfite sequencing (2015) (224)
High contiguity Arabidopsis thaliana genome assembly with a single nanopore flow cell (2017) (221)
De-Etiolated 1 and Damaged DNA Binding Protein 1 Interact to Regulate Arabidopsis Photomorphogenesis (2002) (218)
Potential Sites of Bioactive Gibberellin Production during Reproductive Growth in Arabidopsis[W] (2008) (217)
Direct transcriptional control of the Arabidopsis immune receptor FLS2 by the ethylene-dependent transcription factors EIN3 and EIL1 (2010) (214)
Forward and reverse genetics through derivation of haploid mouse embryonic stem cells. (2011) (214)
An Arabidopsis circadian clock component interacts with both CRY1 and phyB (2001) (214)
An alternative pluripotent state confers interspecies chimaeric competency (2015) (213)
Integrative analysis of haplotype-resolved epigenomes across human tissues (2015) (205)
Ethylene signaling: from mutants to molecules. (2000) (200)
Mapping genome-wide transcription-factor binding sites using DAP-seq (2017) (196)
The BRAIN Initiative Cell Census Consortium: Lessons Learned toward Generating a Comprehensive Brain Cell Atlas (2017) (196)
Linking genotype to phenotype using the Arabidopsis unimutant collection. (2010) (194)
Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for natural flowering-time variation. (2005) (192)
A multimodal cell census and atlas of the mammalian primary motor cortex (2020) (190)
Mobile small RNAs regulate genome-wide DNA methylation (2016) (189)
Genome-wide identification of CCA1 targets uncovers an expanded clock network in Arabidopsis (2015) (187)
Active DNA demethylation at enhancers during the vertebrate phylotypic period (2016) (186)
Regulation of differential growth in the apical hook of Arabidopsis. (1999) (185)
Non-CG Methylation in the Human Genome. (2015) (185)
ETHYLENE-INSENSITIVE5 encodes a 5′→3′ exoribonuclease required for regulation of the EIN3-targeting F-box proteins EBF1/2 (2006) (183)
Arabidopsis Homologs of a c-Jun Coactivator Are Present Both in Monomeric Form and in the COP9 Complex, and Their Abundance Is Differentially Affected by the Pleiotropic cop/det/fus Mutations (1998) (177)
Comparative cellular analysis of motor cortex in human, marmoset and mouse (2021) (177)
PHYTOCHROME KINASE SUBSTRATE 1 is a phototropin 1 binding protein required for phototropism. (2006) (174)
An atlas of dynamic chromatin landscapes in mouse fetal development (2020) (172)
GCR1 Can Act Independently of Heterotrimeric G-Protein in Response to Brassinosteroids and Gibberellins in Arabidopsis Seed Germination1[w] (2004) (169)
Genome-wide patterns of single-feature polymorphism in Arabidopsis thaliana (2007) (168)
Dynamic DNA methylation reconfiguration during seed development and germination (2017) (166)
FRIGIDA-Independent Variation in Flowering Time of Natural Arabidopsis thaliana Accessions (2005) (163)
A Role for Peroxisomes in Photomorphogenesis and Development of Arabidopsis (2002) (160)
A complete BAC-based physical map of the Arabidopsis thaliana genome (1999) (159)
Sigma factor-mediated plastid retrograde signals control nuclear gene expression. (2013) (158)
Mutations in the Ca2+/H+ Transporter CAX1 Increase CBF/DREB1 Expression and the Cold-Acclimation Response in Arabidopsis Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.015248. (2003) (157)
Comprehensive analysis of single cell ATAC-seq data with SnapATAC (2021) (155)
Transcriptional and epigenomic landscapes of CNS and non-CNS vascular endothelial cells (2018) (155)
A genome-scale resource for the functional characterization of Arabidopsis transcription factors. (2014) (153)
Phytochrome-Specific Type 5 Phosphatase Controls Light Signal Flux by Enhancing Phytochrome Stability and Affinity for a Signal Transducer (2005) (153)
Arabidopsis ETO1 specifically interacts with and negatively regulates type 2 1-aminocyclopropane-1-carboxylate synthases (2005) (151)
Regulation of flowering time in Arabidopsis by K homology domain proteins. (2004) (149)
Two Plant Viral Suppressors of Silencing Require the Ethylene-Inducible Host Transcription Factor RAV2 to Block RNA Silencing (2010) (148)
Unique cell-type specific patterns of DNA methylation in the root meristem (2016) (148)
Spatial and functional relationships among Pol V-associated loci, Pol IV-dependent siRNAs, and cytosine methylation in the Arabidopsis epigenome. (2012) (147)
Short-Term Growth Responses to Ethylene in Arabidopsis Seedlings Are EIN3/EIL1 Independent1 (2004) (145)
The Arabidopsis 14-3-3 Protein RARE COLD INDUCIBLE 1A Links Low-Temperature Response and Ethylene Biosynthesis to Regulate Freezing Tolerance and Cold Acclimation[C][W] (2014) (144)
An Arabidopsis NPR1-like gene, NPR4, is required for disease resistance. (2004) (143)
The developmental potential of iPSCs is greatly influenced by reprogramming factor selection. (2014) (139)
RACK1 mediates multiple hormone responsiveness and developmental processes in Arabidopsis. (2006) (134)
Small RNA-mediated chromatin silencing directed to the 3′ region of the Arabidopsis gene encoding the developmental regulator, FLC (2007) (134)
The POLARIS Peptide of Arabidopsis Regulates Auxin Transport and Root Growth via Effects on Ethylene Signaling[OA] (2006) (133)
Simultaneous profiling of 3D genome structure and DNA methylation in single human cells (2019) (131)
Downregulation of ClpR2 Leads to Reduced Accumulation of the ClpPRS Protease Complex and Defects in Chloroplast Biogenesis in Arabidopsis[W] (2006) (128)
An ABA-increased interaction of the PYL6 ABA receptor with MYC2 Transcription Factor: A putative link of ABA and JA signaling (2016) (128)
Flagellin is not a major defense elicitor in Ralstonia solanacearum cells or extracts applied to Arabidopsis thaliana. (2004) (126)
A Reevaluation of the Role of the Heterotrimeric G Protein in Coupling Light Responses in Arabidopsis1 (2003) (125)
Isolation and Characterization of phyC Mutants in Arabidopsis Reveals Complex Crosstalk between Phytochrome Signaling Pathways Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.012971. (2003) (124)
Human DNA methylomes of neurodegenerative diseases show common epigenomic patterns (2016) (122)
Epigenomic landscapes of retinal rods and cones (2016) (121)
The Central Role of PhEIN2 in Ethylene Responses throughout Plant Development in Petunia1 (2004) (120)
Regulation of membrane trafficking and organ separation by the NEVERSHED ARF-GAP protein (2009) (114)
Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays (2009) (114)
Auxin-sensitive Aux/IAA proteins mediate drought tolerance in Arabidopsis by regulating glucosinolate levels (2019) (113)
Literature-curated protein interaction (2009) (113)
The phosphatase laforin crosses evolutionary boundaries and links carbohydrate metabolism to neuronal disease (2007) (112)
An adapter ligation-mediated PCR method for high-throughput mapping of T-DNA inserts in the Arabidopsis genome (2007) (111)
National Science Foundation-Sponsored Workshop Report: "The 2010 Project" functional genomics and the virtual plant. A blueprint for understanding how plants are built and how to improve them. (2000) (110)
ERRs Mediate a Metabolic Switch Required for Somatic Cell Reprogramming to Pluripotency. (2015) (109)
Plant Stress Tolerance Requires Auxin-Sensitive Aux/IAA Transcriptional Repressors (2017) (109)
JAZ2 controls stomata dynamics during bacterial invasion. (2017) (108)
The DNA methylome (2011) (108)
CrY2H-seq: a massively-multiplexed assay for deep coverage interactome mapping (2017) (108)
Erratum: Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape (Cell (2016) 165(5) (1280–1292)) (2016) (107)
Ethylene gas: perception, signaling and response. (1998) (104)
Release Factor One Is Nonessential in Escherichia coli (2012) (103)
A B-ARR-mediated cytokinin transcriptional network directs hormone cross-regulation and shoot development (2018) (101)
Epigenetic and epigenomic variation in Arabidopsis thaliana. (2012) (96)
The complex architecture and epigenomic impact of plant T-DNA insertions (2018) (95)
Light-Response Quantitative Trait Loci Identified with Composite Interval and eXtreme Array Mapping in Arabidopsis thaliana Sequence data from this article have been deposited with the EMBL/GenBank Data Libraries under accession nos. AY394847 and AY466496. (2004) (94)
A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex (2021) (94)
Rapid Array Mapping of Circadian Clock and Developmental Mutations in Arabidopsis1 (2005) (93)
Development of large DNA methods for plants: molecular cloning of large segments of Arabidopsis and carrot DNA into yeast. (1988) (92)
A Homolog of Prokaryotic Thiol Disulfide Transporter CcdA Is Required for the Assembly of the Cytochrome b6f Complex in Arabidopsis Chloroplasts* (2004) (92)
HIV integration site selection: targeting in macrophages and the effects of different routes of viral entry. (2006) (90)
The genome of Arabidopsis thaliana. (1995) (89)
A Family of Bacterial Cysteine Protease Type III Effectors Utilizes Acylation-dependent and -independent Strategies to Localize to Plasma Membranes* (2009) (89)
Robust single-cell DNA methylome profiling with snmC-seq2 (2018) (89)
Integrated Multi-omic Framework of the Plant Response to Jasmonic Acid (2019) (85)
Integration Targeting by Avian Sarcoma-Leukosis Virus and Human Immunodeficiency Virus in the Chicken Genome (2005) (85)
Isolation and Characterization of phyC Mutants in Arabidopsis Reveals Complex Crosstalk between Phytochrome Signaling Pathways (2003) (85)
Genome-wide DNA methylation patterns in LSH mutant reveals de-repression of repeat elements and redundant epigenetic silencing pathways (2014) (84)
Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape (2016) (84)
Higher plants possess two different types of ATX1-like copper chaperones. (2007) (83)
Ethylene gas: it's not just for ripening any more! (1993) (82)
NPSN11 Is a Cell Plate-Associated SNARE Protein That Interacts with the Syntaxin KNOLLE1 (2002) (82)
PFGE and YAC analysis of the Arabidopsis genome (1990) (81)
Phosphoproteomic analysis of ethylene‐regulated protein phosphorylation in etiolated seedlings of Arabidopsis mutant ein2 using two‐dimensional separations coupled with a hybrid quadrupole time‐of‐flight mass spectrometer (2009) (80)
Perspectives on ENCODE (2020) (79)
EIN2-dependent regulation of acetylation of histone H3K14 and non-canonical histone H3K23 in ethylene signalling (2016) (79)
A Growth Regulatory Loop That Provides Homeostasis to Phytochrome A Signaling Online version contains Web-only data. Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.014563. (2003) (78)
CBF 2 DREB 1 C is a negative regulator of CBF 1 DREB 1 B and CBF 3 DREB 1 A expression and plays a central role in stress tolerance in Arabidopsis (2004) (78)
An atlas of gene regulatory elements in adult mouse cerebrum (2020) (75)
The ACC synthase TOE sequence is required for interaction with ETO1 family proteins and destabilization of target proteins (2006) (75)
A user's guide to the Arabidopsis T-DNA insertion mutant collections. (2015) (75)
DNA methylation atlas of the mouse brain at single-cell resolution (2020) (74)
The Arabidopsis Auxin Receptor F-Box Proteins AFB4 and AFB5 Are Required for Response to the Synthetic Auxin Picloram (2015) (74)
Functional Characterization of Type-B Response Regulators in the Arabidopsis Cytokinin Response1[W][OA] (2013) (73)
Robust single-cell Hi-C clustering by convolution- and random-walk–based imputation (2019) (73)
A WD40 Domain Cyclophilin Interacts with Histone H3 and Functions in Gene Repression and Organogenesis in Arabidopsis[W] (2007) (71)
Mutations in the Ca 2 / H Transporter CAX 1 Increase CBF / DREB 1 Expression and the Cold-Acclimation Response in Arabidopsis (2003) (71)
Unexpected Diversity of Chloroplast Noncoding RNAs as Revealed by Deep Sequencing of the Arabidopsis Transcriptome (2011) (69)
Integration site selection by HIV-based vectors in dividing and growth-arrested IMR-90 lung fibroblasts. (2006) (68)
Evolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse (2020) (66)
Reentry of the Ethylene MPK6 Module (2004) (66)
Functional Human Oocytes Generated by Transfer of Polar Body Genomes. (2017) (66)
Improved regulatory element prediction based on tissue-specific local epigenomic signatures (2017) (66)
An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types (2020) (66)
Fast and Accurate Clustering of Single Cell Epigenomes Reveals Cis-Regulatory Elements in Rare Cell Types (2019) (66)
Mapping the genome landscape using tiling array technology. (2007) (65)
Extraction of Distinct Neuronal Cell Types from within a Genetically Continuous Population (2020) (65)
Plant genomics: the third wave. (2004) (63)
A MYC2/MYC3/MYC4-dependent transcription factor network regulates water spray-responsive gene expression and jasmonate levels (2019) (63)
Mapping transcription factor interactome networks using HaloTag protein arrays (2016) (62)
The β-Subunit of the Arabidopsis G Protein Negatively Regulates Auxin-Induced Cell Division and Affects Multiple Developmental Processes Online version contains Web-only data. Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.006148. (2003) (62)
Signaling in plants. (1997) (60)
methylPipe and compEpiTools: a suite of R packages for the integrative analysis of epigenomics data (2015) (60)
Chimeric Activators and Repressors Define HY5 Activity and Reveal a Light-Regulated Feedback Mechanism[OPEN] (2020) (59)
Spatiotemporal DNA methylome dynamics of the developing mouse fetus (2020) (58)
Utilizing tiling microarrays for whole-genome analysis in plants. (2007) (57)
Divergent cytosine DNA methylation patterns in single-cell, soybean root hairs. (2017) (54)
Dynamic and rapid changes in the transcriptome and epigenome during germination and in developing rice (Oryza sativa) coleoptiles under anoxia and re‐oxygenation (2017) (54)
Global DNA methylation remodeling during direct reprogramming of fibroblasts to neurons (2018) (53)
Genomic Decoding of Neuronal Depolarization by Stimulus-Specific NPAS4 Heterodimers (2019) (53)
Surveillance of 3′ Noncoding Transcripts Requires FIERY1 and XRN3 in Arabidopsis (2012) (52)
The Ethylene Pathway: A Paradigm for Plant Hormone Signaling and Interaction (2001) (50)
Corrigendum to ‘‘Applications of DNA tiling arrays for whole-genome analysis’’ [Genomics 85 (2005) 1–15] (2005) (48)
SnapATAC: A Comprehensive Analysis Package for Single Cell ATAC-seq (2019) (46)
Ethylene signaling in Arabidopsis: Events from the membrane to the nucleus (1998) (44)
CG hypomethylation in Lsh−/− mouse embryonic fibroblasts is associated with de novo H3K4me1 formation and altered cellular plasticity (2014) (44)
Allele-specific non-CG DNA methylation marks domains of active chromatin in female mouse brain (2017) (39)
Sequencing and functional validation of the JGI Brachypodium distachyon T‐DNA collection (2017) (35)
Common alleles of CMT2 and NRPE1 are major determinants of CHH methylation variation in Arabidopsis thaliana (2019) (35)
Iterative single-cell multi-omic integration using online learning (2021) (34)
Epigenomic diversity of cortical projection neurons in the mouse brain (2020) (34)
The emergence of the brain non-CpG methylation system in vertebrates (2021) (34)
Genome and time-of-day transcriptome of Wolffia australiana link morphological minimization with gene loss and less growth control (2020) (33)
The phosphatase laforin crosses evolutionary boundaries and links carbohydrate metabolism to neuronal disease (2007) (33)
Systematic mapping of chromatin state landscapes during mouse development (2017) (31)
Losing Dnmt3a dependent methylation in inhibitory neurons impairs neural function by a mechanism impacting Rett syndrome (2020) (30)
Genetic analysis of a seedling stress response to ethylene in Arabidopsis. (1995) (29)
The JA-pathway MYC transcription factors regulate photomorphogenic responses by targeting HY5 gene expression. (2019) (29)
Genome mapping with anchored clones: theoretical aspects. (1991) (29)
A Proposal Regarding Best Practices for Validating the Identity of Genetic Stocks and the Effects of Genetic Variants[OPEN] (2016) (29)
Genetic and physical linkage of the Arabidopsis genome: methods for anchoring yeast artificial chromosomes. (1992) (28)
Single nucleus multi-omics links human cortical cell regulatory genome diversity to disease risk variants (2019) (27)
An International Bioinformatics Infrastructure to Underpin the Arabidopsis Community (2010) (26)
Activity-dependent modulation of synapse-regulating genes in astrocytes (2020) (26)
Diversity and dynamics of DNA methylation: epigenomic resources and tools for crop breeding (2019) (25)
PHYTOCHROME-INTERACTING FACTORs trigger environmentally responsive chromatin dynamics in plants (2019) (24)
Roles for Mating and Environment in C . elegans Sex Determination (24)
DNA Topoisomerase 1α Promotes Transcriptional Silencing of Transposable Elements through DNA Methylation and Histone Lysine 9 Dimethylation in Arabidopsis (2014) (23)
Epigenomic programming contributes to the genomic drift evolution of the F-Box protein superfamily in Arabidopsis (2013) (23)
A blueprint for an international cancer epigenome consortium. A report from the AACR Cancer Epigenome Task Force. (2012) (23)
Spatiotemporal DNA Methylome Dynamics of the Developing Mammalian Fetus (2017) (23)
Detection of allele-specific methylation through a generalized heterogeneous epigenome model (2012) (22)
NPSN 11 Is a Cell Plate-Associated SNARE Protein That Interacts with the Syntaxin KNOLLE 1 (2002) (21)
19 Ethylene: A Unique Plant Signaling Molecule (1994) (20)
Profiling of transcription factor binding events by chromatin immunoprecipitation sequencing (ChIP-seq). (2016) (20)
Mutant analysis as an experimental approach towards understanding plant hormone action (1993) (18)
Single nucleus multi-omics identifies human cortical cell regulatory genome diversity (2022) (18)
Epigenetic trigger for tomato ripening (2013) (18)
Challenges and recommendations for epigenomics in precision health (2017) (17)
BRI-ghtening the Pathway to Steroid Hormone Signaling Events in Plants (1997) (16)
Piecing together cis‐regulatory networks: insights from epigenomics studies in plants (2018) (15)
A massively parallel barcoded sequencing pipeline enables generation of the first ORFeome and interactome map for rice (2020) (15)
The NIH Roadmap Epigenomics Mapping (2010) (15)
Epigenetic silencing of a multifunctional plant stress regulator (2019) (15)
Single nucleus multi-omics regulatory landscape of the murine pituitary (2021) (14)
STAR: an integrated solution to management and visualization of sequencing data (2013) (14)
Epiallelic variation in Arabidopsis thaliana. (2012) (14)
Genome sequencing: Genes blossom from a weed (1998) (14)
Reading the Second Code: Mapping Epigenomes to Understand Plant Growth, Development, and Adaptation to the Environment[OA] (2012) (13)
Molecular and Genetic Analysis of the Constitutive Ethylene Response Mutation Ctr1 (1994) (12)
Type-A Arabidopsis Response Regulators Are Partially Redundant Negative Regulators of Cytokinin Signaling W (2004) (12)
Systematic mapping of occluded genes by cell fusion reveals prevalence and stability of cis-mediated silencing in somatic cells (2014) (12)
Iterative Refinement of Cellular Identity from Single-Cell Data Using Online Learning (2020) (11)
Correction: Corrigendum: Human body epigenome maps reveal noncanonical DNA methylation variation (2015) (11)
Exceptional epigenetics in the brain (2015) (10)
Divergent perspectives on GM food (2002) (10)
ETHYLENE-INSENSITIVE 5 Encodes a 5 ' → 3 ' Exoribonuclease Required for Regulation of the EIN 3-Targeting F-Box Proteins EDF 1 ⁄ 2 (2017) (9)
Addendum: Literature-curated protein interaction datasets (2009) (9)
Yield Effects of Genetically Modified Crops in Developing Countries (2012) (9)
Author Correction: PHYTOCHROME-INTERACTING FACTORs trigger environmentally responsive chromatin dynamics in plants (2023) (7)
Grand Challenges for Biological and Environmental Research: A Long-Term Vision (2010) (7)
Integrated multi-omics framework of the plant response to jasmonic acid (2020) (7)
Author response: Transcriptional and epigenomic landscapes of CNS and non-CNS vascular endothelial cells (2018) (7)
2020 vision for biology: the role of plants in addressing grand challenges in biology. (2008) (6)
Response to Perspective (2013) (6)
Profiling Interactome Networks with the HaloTag-NAPPA In Situ Protein Array. (2018) (6)
Zeroing in on DNA methylomes with no BS (2010) (6)
Author response: Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements (2015) (6)
methylationthe fifth base: Genome-wide sequencing of cytosine (2009) (6)
Ethylene Responses in Seedling Growth and Development (2010) (5)
Leaf cell-specific and single-cell transcriptional profiling reveals a role for the palisade layer in UV light protection (2022) (5)
Genotypic variation of gene expression during the soybean innate immunity response (2014) (5)
PHYTOMap: Multiplexed single-cell 3D spatial gene expression analysis in plant tissue (2022) (5)
The role of ATXR6 expression in modulating genome stability and transposable element repression in Arabidopsis (2022) (5)
HiCluster: A Robust Single-Cell Hi-C Clustering Method Based on Convolution and Random Walk (2018) (5)
Plant defense genes are regulated by ethylene ( stress responses / plant hormone / wounding / RNA blot analysis (5)
Epigenomic Analysis of Multi-lineage Differentiation of Human Embryonic Stem Cells. (2013) (4)
Corrigendum: Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells (2014) (4)
Genome Wide Patterns of Single Feature Polymorphism Diversity in Arabidopsis Thaliana (2007) (4)
Multi-omic profiling of transcriptome and DNA methylome in single nuclei with molecular partitioning (2018) (4)
Fish egg cryopreservation: what we know until now? In: Methods in Reproductive Aquaculture: Marine and Freshwater Species, Cabrita, E., Robles V., Herraez, M.P. (Eds.) (2009) (4)
The biology of time: dynamic responses of cell types to developmental, circadian, and environmental cues. (2021) (4)
Author Correction: An atlas of dynamic chromatin landscapes in mouse fetal development (2020) (3)
Current Protocols in Plant Biology (2016) (3)
Author Correction: An atlas of dynamic chromatin landscapes in mouse fetal development (2021) (3)
Correction: DNA Topoisomerase 1α Promotes Transcriptional Silencing of Transposable Elements through DNA Methylation and Histone Lysine 9 Dimethylation in Arabidopsis (2015) (3)
A B-ARR-mediated cytokinin transcriptional network directs hormone cross-regulation and shoot development (2018) (3)
Single nucleus multi-omics regulatory atlas of the murine pituitary (2020) (3)
The complex architecture of plant transgene insertions (2018) (3)
Genome and time-of-day transcriptome of Wolffia australiana link morphological extreme minimization with un-gated plant growth (2020) (3)
Arabidopsis Interactome Mapping Consortium Interactome Map Arabidopsis Evidence for Network Evolution in an (2014) (3)
Single-cell multi-omic profiling of chromatin conformation and DNA methylome (2018) (3)
A Homolog of Prokaryotic Thiol Disulfide Transporter CcdA Is Required for the Assembly of the Cytochrome b 6 f Complex in (2004) (2)
The BRAIN Initiative Cell Census Network Data Ecosystem: A User’s Guide (2022) (2)
Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes (2022) (2)
Dnmt3a knockout in excitatory neurons impairs postnatal synapse maturation and is partly compensated by repressive histone modification H3K27me3 (2019) (2)
Common alleles of CMT2 and NRPE1 are major determinants of de novo DNA methylation variation in Arabidopsis thaliana (2019) (2)
Integrative analysis of 111 reference human epigenomes Open (2015) (2)
Epigenomic complexity of the human brain revealed by single-cell DNA methylomes and 3D genome structures (2022) (2)
Genome studies and molecular genetics (2004) (2)
Author Correction: A B-ARR-mediated cytokinin transcriptional network directs hormone cross-regulation and shoot development (2018) (2)
Drought Recovery Induced Immunity Confers Pathogen Resistance (2023) (1)
Dnmt3a knockout in excitatory neurons impairs postnatal synapse maturation and increases the repressive histone modification H3K27me3 (2022) (1)
Arabidopsis encyclopedia using full-length cDNAs and its application for functional genomics (2004) (1)
Constructing Hepitypes: Phasing Local Genotype and DNA Methylation (2013) (1)
Next Generation Protein Interactomes for Plant Systems Biology and Biomass Feedstock Research (2016) (1)
Epigenomic and chromosomal architectural reconfiguration in developing human frontal cortex and hippocampus (2022) (1)
An Arabidopsis thaliana G-box-binding protein similar to the wheat leucine zipper protein identified as HBP-1. (1991) (1)
Friction Anisotropy-Driven Domain Imaging on Exfoliated (2011) (1)
Polycomb-mediated repression compensates for loss of postnatal DNA methylation in excitatory neurons (2019) (1)
Mimicking genuine drought responses using a high throughput plate assay (2022) (1)
CrY2H-seq interactome screening (2017) (1)
methylPipe and compEpiTools: a suite of R packages for the integrative analysis of epigenomics data (2015) (1)
Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes (2021) (1)
Loss of Dnmt3a dependent methylation in inhibitory neurons impairs neural function through a mechanism that impacts Rett syndrome (2019) (1)
Single-cell multi-omic profiling of chromatin conformation and DNA methylation (2019) (1)
Title : Comprehensive gene expression analysis of prefrontal cortex and hippocampus in social isolation rearing mouse model (2015) (0)
Author response: Epigenomic landscapes of retinal rods and cones (2015) (0)
of EIN3 Transcription Factor (2003) (0)
methylation Finding the fifth base : Genome-wide sequencing of cytosine (2009) (0)
RCN: AN INTERNATIONAL ARABIDOPSIS INFORMATICS CONSORTIUM (2010) (0)
Structural Variation Detection and De Novo Assembly in Complex Genomes Using Extremely Long Single-Molecule Imaging (2014) (0)
Modern Epigenomics DNA Methylomics (2012) (0)
Correction (2008) (0)
OGT binds a conserved C-terminal domain of TET 1 to regulate TET 1 activity and function in 1 development 2 3 (0)
Mukhtar Plant Immune System Network Independently Evolved Virulence Effectors Converge onto Hubs in a (2011) (0)
A plant-specific syntaxin-6 protein contributes to the intracytoplasmic route for begomoviruses (2020) (0)
An Arabidopsis Thaliana Leucine Zipper Protein that Binds to G-Box Promoter Sequences (1991) (0)
Isolation of Arabidopsis DREB homologues that are involved in dehydration, cold and salt response, and functional analysis of DREB2A using Arabidopsis T-DNA insertion mutant (2001) (0)
Dynamic DNA methylation reconfiguration during seed development and germination (2017) (0)
Publisher Correction: Integrated multi-omics framework of the plant response to jasmonic acid (2020) (0)
Reply to 'Divergent perspectives on GM food' (2002) (0)
Divergent perspectives on GM food-Letter 2 (2008) (0)
Choi Graphene Driven Domain Imaging on Exfoliated Monolayer − Friction Anisotropy (2014) (0)
High contiguity Arabidopsis thaliana genome assembly with a single nanopore flow cell (2018) (0)
A massively parallel barcoded sequencing pipeline to generate the first ORFeome and interactome map for rice (2020) (0)
ISPMB Will Disband in 2006 after 8th International Congress of Plant Molecular Biology (2007) (0)
Author response: Losing Dnmt3a dependent methylation in inhibitory neurons impairs neural function by a mechanism impacting Rett syndrome (2020) (0)
Functional Genomic Analysis of the AUXIN RESPONSE FACTOR Gene Family Members in Arabidopsis thaliana : Unique and Overlapping Functions of ARF7 and ARF19 W (2005) (0)
Molecular and Genetic Analysis of Hormone-Regulated Differential Cell Elongation in Arabidopsis (2005) (0)
Author response: Epigenetic silencing of a multifunctional plant stress regulator (2019) (0)
Epigenetic Regulation of Hormone-dependent Plant Growth Processes (2016) (0)
PHITE: Precision High Intensity Training Through Epigenetics (2020) (0)
Towards complete analysis of structural variants through genome map guided assembly (2014) (0)
Author Correction: Comparative cellular analysis of motor cortex in human, marmoset and mouse (2022) (0)
Transcription Factor Dynamics in Cross-Regulation of Plant Hormone Signaling Pathways (2023) (0)
LUX ARRHYTHMO encodes a Myb transcription factor essential for circadian rhythms (2005) (0)
Eto1 et proteines associees, et methodes visant a reguler la biosynthese d'ethylene (2001) (0)
Molecular genetic analysis of an Arabidopsis mutant, ethylene-overproducerl (etol) (2001) (0)
The Balance between phytochrome kinase substrate1 and PKS2 Provides Homeostasis for Phytochrome A Signaling in Arabidopsis (2003) (0)
Analysis of the ETO1 transgenic tomato. (2003) (0)
SESSION 1: DNA METHYLATION ACROSS GENOMES AND SPECIES (2015) (0)
Genome meets epigenome: Sequencing and analysis of the DNA methylome (2008) (0)
Deep methylomes reveal diverse roles of DNA methylation in human tissues (235.1) (2014) (0)
SAT-298 Integrative Single-Cell Transcriptomic and Epigenomic Landscape of Mouse Anterior Pituitary Cell Types (2020) (0)
Comparative cellular analysis of motor cortex in human, marmoset and mouse (2021) (0)
Author Correction: Perspectives on ENCODE (2022) (0)
Brain-wide Correspondence Between Neuronal Epigenomics and Long-Distance Projections (2023) (0)
An atlas of dynamic chromatin landscapes in mouse fetal development (2020) (0)
Comprehensive analysis of single cell ATAC-seq data with SnapATAC (2021) (0)
The emergence of the brain non-CpG methylation system in vertebrates (2021) (0)
Robust single-cell DNA methylome profiling with snmC-seq2 (2018) (0)
Author Correction: A B-ARR-mediated cytokinin transcriptional network directs hormone cross-regulation and shoot development (2018) (0)
Simultaneous profiling of 3D genome structure and DNA methylation in single human cells (2019) (0)
A Single-Nucleus Atlas of Seed-to-Seed Development in Arabidopsis (2023) (0)
Presentation Title: Perinatal Disruption of Nmda Receptor Function Results in Life-long Transcriptional Changes in Frontal Cortex Location: Hall F-j (2012) (0)
Author Correction: CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping (2023) (0)
Title : Cortical neuron cell types develop highly divergent epigenetic configurations (2014) (0)
Single-cell DNA Methylome and 3D Multi-omic Atlas of the Adult Mouse Brain (2023) (0)
Time-resolved single-cell and spatial gene regulatory atlas of plants under pathogen attack (2023) (0)
Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes (2022) (0)
Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes (2022) (0)
Table of Contents (1992) (0)
Comparative single cell epigenomic analysis of gene regulatory programs in the rodent and primate neocortex (2023) (0)
A comparative atlas of single-cell chromatin accessibility in the human brain (2022) (0)
silencing pathways de-repression of repeat elements and redundant epigenetic Genome-wide DNA methylation patterns in LSH mutant reveals Material Supplemental (2014) (0)
Cell signalling and gene regulation: piecing the puzzle together (1998) (0)

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