Joseph R. Ecker

130.6k total citations · 48 hit papers
272 papers, 67.3k citations indexed

About

Joseph R. Ecker is a scholar working on Plant Science, Molecular Biology and Genetics. According to data from OpenAlex, Joseph R. Ecker has authored 272 papers receiving a total of 67.3k indexed citations (citations by other indexed papers that have themselves been cited), including 185 papers in Plant Science, 168 papers in Molecular Biology and 33 papers in Genetics. Recurrent topics in Joseph R. Ecker's work include Plant Molecular Biology Research (120 papers), Epigenetics and DNA Methylation (44 papers) and Plant Stress Responses and Tolerance (43 papers). Joseph R. Ecker is often cited by papers focused on Plant Molecular Biology Research (120 papers), Epigenetics and DNA Methylation (44 papers) and Plant Stress Responses and Tolerance (43 papers). Joseph R. Ecker collaborates with scholars based in United States, Australia and United Kingdom. Joseph R. Ecker's co-authors include José M. Alonso, Joseph R. Nery, Ryan Lister, Ronan C. O’Malley, Hongwei Guo, Gregg Roman, Huaming Chen, Plinio Guzmán, Charles C. Berry and Joseph J. Kieber and has published in prestigious journals such as Nature, Science and Cell.

In The Last Decade

Joseph R. Ecker

270 papers receiving 66.1k citations

Hit Papers

Human DNA methylomes at base resolution ... 1990 2026 2002 2014 2009 2008 1993 2002 2002 1000 2.0k 3.0k
What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

  1. Human DNA methylomes at base resolution show widespread epigenomic differences
    2009 3.4k citations Joseph R. Ecker et al. profile →
  2. Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis
    2008 1.8k citations Ronan C. O’Malley, Brian D. Gregory et al. profile →
  3. CTR1, a negative regulator of the ethylene response pathway in arabidopsis, encodes a member of the Raf family of protein kinases
    1993 1.5k citations Joseph R. Ecker et al. profile →
  4. Ethylene Biosynthesis and Signaling Networks
    2002 1.4k citations Joseph R. Ecker et al. The Plant Cell profile →
  5. HIV-1 Integration in the Human Genome Favors Active Genes and Local Hotspots
    2002 1.4k citations Paul Shinn, Huaming Chen et al. profile →
  6. Genome-wide High-Resolution Mapping and Functional Analysis of DNA Methylation in Arabidopsis
    2006 1.3k citations Junshi Yazaki, Huaming Chen et al. profile →
  7. The NIH Roadmap Epigenomics Mapping Consortium
    2010 1.2k citations Joseph R. Ecker et al. profile →
  8. Phased diploid genome assembly with single-molecule real-time sequencing
    2016 1.2k citations Ronan C. O’Malley, Joseph R. Ecker et al. profile →
  9. Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells
    2011 1.1k citations Ronan C. O’Malley, Joseph R. Ecker et al. profile →
  10. Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape
    2016 1.1k citations Ronan C. O’Malley, Shao‐shan Carol Huang et al. profile →
  11. Chromatin architecture reorganization during stem cell differentiation
    2015 1.1k citations Joseph R. Ecker et al. profile →
  12. EIN2, a Bifunctional Transducer of Ethylene and Stress Responses in Arabidopsis
    1999 1.0k citations José M. Alonso, Saeid Nourizadeh et al. Science profile →
  13. Exploiting the triple response of Arabidopsis to identify ethylene-related mutants.
    1990 1.0k citations Plinio Guzmán, Joseph R. Ecker The Plant Cell profile →
  14. Nuclear events in ethylene signaling: a transcriptional cascade mediated by ETHYLENE-INSENSITIVE3 and ETHYLENE-RESPONSE-FACTOR1
    1998 1.0k citations Roberto Solano, Anna N. Stepanova et al. profile →
  15. Assignment of 30 Microsatellite Loci to the Linkage Map of Arabidopsis
    1994 928 citations Joseph R. Ecker et al. profile →
  16. Functional Genomic Analysis of theAUXIN RESPONSE FACTORGene Family Members inArabidopsis thaliana: Unique and Overlapping Functions ofARF7andARF19 
    2005 859 citations Yoko Okushima, Paul Overvoorde et al. The Plant Cell profile →
  17. Genome-wide analysis of cAMP-response element binding protein occupancy, phosphorylation, and target gene activation in human tissues
    2005 812 citations Huaming Chen, Joseph R. Ecker et al. Proceedings of the National Academy of Sciences profile →
  18. Activation of the Ethylene Gas Response Pathway in Arabidopsis by the Nuclear Protein ETHYLENE-INSENSITIVE3 and Related Proteins
    1997 808 citations Roberto Solano, Joseph R. Ecker et al. profile →
  19. Arabidopsis RIN4 Is a Target of the Type III Virulence Effector AvrRpt2 and Modulates RPS2-Mediated Resistance
    2003 778 citations José M. Alonso, Joseph R. Ecker et al. profile →
  20. Widespread dynamic DNA methylation in response to biotic stress
    2012 738 citations Robert J. Schmitz, Joseph R. Ecker et al. Proceedings of the National Academy of Sciences profile →
  21. Retroviral DNA Integration: ASLV, HIV, and MLV Show Distinct Target Site Preferences
    2004 737 citations Paul Shinn, Huaming Chen et al. profile →
  22. The ethylene signaling pathway: new insights
    2003 736 citations Joseph R. Ecker et al. profile →
  23. Plant Responses to Ethylene Gas Are Mediated by SCFEBF1/EBF2-Dependent Proteolysis of EIN3 Transcription Factor
    2003 716 citations Joseph R. Ecker et al. profile →
  24. Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells
    2011 643 citations Joseph R. Ecker et al. profile →
  25. Class III Homeodomain-Leucine Zipper Gene Family Members Have Overlapping, Antagonistic, and Distinct Roles in Arabidopsis Development
    2004 616 citations Michael J. Prigge, José M. Alonso et al. The Plant Cell profile →
  26. Type-A Arabidopsis Response Regulators Are Partially Redundant Negative Regulators of Cytokinin Signaling[W]
    2004 596 citations José M. Alonso, Joseph R. Ecker et al. The Plant Cell profile →
  27. Auxin response factors ARF6 and ARF8 promote jasmonic acid production and flower maturation
    2005 581 citations José M. Alonso, Joseph R. Ecker et al. profile →
  28. The Ethylene Signal Transduction Pathway in Plants
    1995 579 citations Joseph R. Ecker Science profile →
  29. Common Sequence Polymorphisms Shaping Genetic Diversity in Arabidopsis thaliana
    2007 526 citations Richard M. Clark, Gabriele Schweikert et al. Science profile →
  30. Localization of Iron in Arabidopsis Seed Requires the Vacuolar Membrane Transporter VIT1
    2006 507 citations Sun A. Kim, Tracy Punshon et al. Science profile →
  31. A role for LEDGF/p75 in targeting HIV DNA integration
    2005 504 citations Paul Shinn, Joseph R. Ecker et al. profile →
  32. Trp-dependent auxin biosynthesis in Arabidopsis: involvement of cytochrome P450s CYP79B2 and CYP79B3
    2002 500 citations José M. Alonso, Joseph R. Ecker et al. profile →
  33. Transgenerational Epigenetic Instability Is a Source of Novel Methylation Variants
    2011 479 citations Robert J. Schmitz, Matthew D. Schultz et al. Science profile →
  34. Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain
    2015 475 citations Mark A. Urich, Joseph R. Ecker et al. profile →
  35. Dynamic DNA methylation: In the right place at the right time
    2018 455 citations Joseph R. Ecker et al. Science profile →
  36. Cryptochromes Interact Directly with PIFs to Control Plant Growth in Limiting Blue Light
    2015 455 citations Ullas V. Pedmale, Shao‐shan Carol Huang et al. profile →
  37. ArabidopsisBasic Helix-Loop-Helix Transcription Factors MYC2, MYC3, and MYC4 Regulate Glucosinolate Biosynthesis, Insect Performance, and Feeding Behavior  
    2013 435 citations Mathew G. Lewsey, Joseph R. Ecker et al. The Plant Cell profile →
  38. Mapping genome-wide transcription-factor binding sites using DAP-seq
    2017 433 citations Ronan C. O’Malley, Shao‐shan Carol Huang et al. profile →
  39. Linking photoreceptor excitation to changes in plant architecture
    2012 428 citations Robert J. Schmitz, José L. Pruneda-Paz et al. profile →
  40. Human body epigenome maps reveal noncanonical DNA methylation variation
    2015 424 citations Matthew D. Schultz, Mark A. Urich et al. profile →
  41. Processing and Subcellular Trafficking of ER-Tethered EIN2 Control Response to Ethylene Gas
    2012 409 citations Hong Qiao, Zhouxin Shen et al. Science profile →
  42. Patterns of population epigenomic diversity
    2013 407 citations Robert J. Schmitz, Matthew D. Schultz et al. profile →
  43. A transcription factor hierarchy defines an environmental stress response network
    2016 396 citations Shao‐shan Carol Huang, Huaming Chen et al. Science profile →
  44. Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis
    2013 334 citations Shao‐shan Carol Huang, Robert J. Schmitz et al. profile →
  45. Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex
    2017 326 citations Joseph R. Ecker et al. Science profile →
  46. Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements
    2015 285 citations Matthew D. Schultz, Joseph R. Ecker et al. profile →
  47. Comprehensive analysis of single cell ATAC-seq data with SnapATAC
    2021 225 citations Joseph R. Ecker et al. profile →
  48. A rare PRIMER cell state in plant immunity
    2025 30 citations Joseph R. Ecker et al. profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name h Career Trend Papers Cites
Joseph R. Ecker United States 135 43.3k 42.6k 7.7k 1.9k 1.6k 272 67.3k
Steven Henikoff United States 122 20.2k 0.5× 49.4k 1.2× 12.0k 1.6× 2.9k 1.5× 398 0.3× 374 64.0k
Wen‐Hsiung Li United States 91 14.2k 0.3× 27.4k 0.6× 16.2k 2.1× 1.9k 1.0× 417 0.3× 379 48.0k
Hamish McWilliam United Kingdom 15 10.7k 0.2× 25.5k 0.6× 6.1k 0.8× 907 0.5× 667 0.4× 18 46.3k
Jue Ruan China 21 11.0k 0.3× 27.6k 0.6× 12.6k 1.6× 4.4k 2.3× 339 0.2× 65 46.4k
Andreas Wilm Singapore 21 8.3k 0.2× 21.0k 0.5× 5.0k 0.7× 977 0.5× 570 0.4× 29 37.5k
Nils Homer United States 11 9.2k 0.2× 23.6k 0.6× 11.6k 1.5× 4.3k 2.2× 313 0.2× 16 41.5k
Alec Wysoker United States 8 9.1k 0.2× 24.3k 0.6× 11.6k 1.5× 4.3k 2.3× 328 0.2× 10 43.0k
Tim Fennell United States 8 10.0k 0.2× 26.6k 0.6× 14.3k 1.9× 5.3k 2.8× 348 0.2× 8 47.2k
Robert E. Handsaker United States 23 12.4k 0.3× 31.4k 0.7× 21.2k 2.8× 5.8k 3.0× 416 0.3× 28 59.7k
L. Aravind United States 123 6.5k 0.2× 39.4k 0.9× 9.0k 1.2× 2.6k 1.4× 606 0.4× 381 52.4k

Countries citing papers authored by Joseph R. Ecker

Since Specialization
Citations

This map shows the geographic impact of Joseph R. Ecker's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Joseph R. Ecker with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Joseph R. Ecker more than expected).

Fields of papers citing papers by Joseph R. Ecker

Since Specialization
Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Joseph R. Ecker. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Joseph R. Ecker. The network helps show where Joseph R. Ecker may publish in the future.

Co-authorship network of co-authors of Joseph R. Ecker

This figure shows the co-authorship network connecting the top 25 collaborators of Joseph R. Ecker. A scholar is included among the top collaborators of Joseph R. Ecker based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Joseph R. Ecker. Joseph R. Ecker is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

20 of 20 papers shown
1.
Tian, Wei, Wubin Ding, Jiawei Shen, et al.. (2024). BAllC and BAllCools: efficient formatting and operating for single-cell DNA methylation data. Bioinformatics. 40(7). 1 indexed citations
2.
Dal-Bianco, Maximiller, João Paulo Machado, José Cleydson F. Silva, et al.. (2021). A plant-specific syntaxin-6 protein contributes to the intracytoplasmic route for the begomovirus CabLCV. PLANT PHYSIOLOGY. 187(1). 158–173. 10 indexed citations
3.
Prigge, Michael J., Kathleen Greenham, Yi Zhang, et al.. (2016). The Arabidopsis Auxin Receptor F-Box Proteins AFB4 and AFB5 Are Required for Response to the Synthetic Auxin Picloram. G3 Genes Genomes Genetics. 6(5). 1383–1390. 82 indexed citations
4.
Qiao, Hong, Zhouxin Shen, Shao‐shan Carol Huang, et al.. (2012). Processing and Subcellular Trafficking of ER-Tethered EIN2 Control Response to Ethylene Gas. Science. 338(6105). 390–393. 409 indexed citations breakdown →
5.
Schmitz, Robert J., Matthew D. Schultz, Mathew G. Lewsey, et al.. (2011). Transgenerational Epigenetic Instability Is a Source of Novel Methylation Variants. Science. 334(6054). 369–373. 479 indexed citations breakdown →
6.
Tsuchisaka, Atsunari, Guixia Yu, Hailing Jin, et al.. (2009). A Combinatorial Interplay Among the 1-Aminocyclopropane-1-Carboxylate Isoforms Regulates Ethylene Biosynthesis in Arabidopsis thaliana. Genetics. 183(3). 979–1003. 240 indexed citations
7.
Clark, Richard M., Gabriele Schweikert, Christopher Toomajian, et al.. (2007). Common Sequence Polymorphisms Shaping Genetic Diversity in Arabidopsis thaliana. Science. 317(5836). 338–342. 526 indexed citations breakdown →
8.
Kim, Sun A., Tracy Punshon, Antonio Lanzirotti, et al.. (2006). Localization of Iron in Arabidopsis Seed Requires the Vacuolar Membrane Transporter VIT1. Science. 314(5803). 1295–1298. 507 indexed citations breakdown →
9.
Olmedo, Gabriela, Hongwei Guo, Brian D. Gregory, et al.. (2006). ETHYLENE-INSENSITIVE5 encodes a 5′→3′ exoribonuclease required for regulation of the EIN3-targeting F-box proteins EBF1/2. Proceedings of the National Academy of Sciences. 103(36). 13286–13293. 139 indexed citations
10.
Chilley, Paul M., Stuart A. Casson, Petr Tarkowski, et al.. (2006). The POLARIS Peptide of Arabidopsis Regulates Auxin Transport and Root Growth via Effects on Ethylene Signaling. The Plant Cell. 18(11). 3058–3072. 112 indexed citations
11.
Lariguet, Patricia, Isabelle Schepens, Ullas V. Pedmale, et al.. (2006). PHYTOCHROME KINASE SUBSTRATE 1 is a phototropin 1 binding protein required for phototropism. Proceedings of the National Academy of Sciences. 103(26). 10134–10139. 134 indexed citations
12.
Overvoorde, Paul, Yoko Okushima, José Manuel Alonso Segura, et al.. (2005). Functional Genomic Analysis of the AUXIN/INDOLE-3-ACETIC ACID Gene Family Members in Arabidopsis thaliana  [W]. The Plant Cell. 17(12). 3282–3300. 305 indexed citations
13.
Borevitz, Justin, et al.. (2005). Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for natural flowering-time variation. Proceedings of the National Academy of Sciences. 102(7). 2460–2465. 150 indexed citations
14.
Hazen, Samuel P., Thomas F. Schultz, José L. Pruneda-Paz, et al.. (2005). LUX ARRHYTHMO encodes a Myb domain protein essential for circadian rhythms. Proceedings of the National Academy of Sciences. 102(29). 10387–10392. 349 indexed citations
15.
Borevitz, Justin, et al.. (2005). FRIGIDA-Independent Variation in Flowering Time of Natural Arabidopsis thaliana Accessions. Genetics. 170(3). 1197–1207. 127 indexed citations
16.
17.
Alonso, José M., et al.. (2004). CBF2/DREB1C is a negative regulator of CBF1/DREB1B and CBF3/DREB1A expression and plays a central role in stress tolerance in Arabidopsis. Proceedings of the National Academy of Sciences. 101(11). 3985–3990. 440 indexed citations
18.
Catalá, Rafael, Elisa Santos, José M. Alonso, et al.. (2003). Mutations in the Ca 2 + /H + Transporter CAX1 Increase CBF/DREB1 Expression and the Cold-Acclimation Response in Arabidopsis. The Plant Cell. 15(12). 2940–2951. 143 indexed citations
19.
Alonso, José M., Anna N. Stepanova, Roberto Solano, et al.. (2003). Five components of the ethylene-response pathway identified in a screen for weak ethylene-insensitive mutants in Arabidopsis. Proceedings of the National Academy of Sciences. 100(5). 2992–2997. 311 indexed citations
20.
Hu, Jianping, Maria L. Aguirre, Charles A. Peto, et al.. (2002). A Role for Peroxisomes in Photomorphogenesis and Development of Arabidopsis. Science. 297(5580). 405–409. 125 indexed citations

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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