Joseph R Ecker

Proc Natl Acad Sci U S A 2019 Nov 29;116(46):23345-23356. Epub 2019 Oct 29.

Lund University Plant Sciences, Department of Biology, Lund University, 223 62 Lund, Sweden;

Nat Methods 2019 Oct 9;16(10):999-1006. Epub 2019 Sep 9.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.

Cell 2019 Oct;179(2):373-391.e27

Division of Biological Sciences, Section of Neurobiology, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0634, USA. Electronic address:

Nat Commun 2019 Sep 6;10(1):4021. Epub 2019 Sep 6.

Section of Cell and Developmental Biology and Howard Hughes Medical Institute, University of California, San Diego, La Jolla CA., 92093, USA.

Elife 2019 08 16;8. Epub 2019 Aug 16.

Plant Biology Laboratory, Salk Institute for Biological Studies, La Jolla, United States.

Proc Natl Acad Sci U S A 2019 Jul 24;116(28):14011-14018. Epub 2019 Jun 24.

Genomic Analysis Laboratory, Salk Institute for Biological Studies, La Jolla, CA 92037;

Breed Sci 2019 Jun 14;69(2):191-204. Epub 2019 May 14.

Howard Hughes Medical Institute, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA.

Elife 2019 Jan 15;8. Epub 2019 Jan 15.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United States.

PLoS Genet 2019 01 18;15(1):e1007819. Epub 2019 Jan 18.

Genomic Analysis Laboratory, Salk Institute for Biological Studies, La Jolla, CA, United States of America.

Elife 2018 10 16;7. Epub 2018 Oct 16.

Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, United States.

Curr Protoc Plant Biol 2018 09 14;3(3):e20071. Epub 2018 Aug 14.

Genomic Analysis Laboratory, Salk Institute for Biological Studies, La Jolla, California.

Elife 2018 09 6;7. Epub 2018 Sep 6.

Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, United States.

Nat Commun 2018 09 20;9(1):3824. Epub 2018 Sep 20.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA.

Science 2018 09;361(6409):1336-1340

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Wiley Interdiscip Rev Syst Biol Med 2018 05 30;10(3):e1411. Epub 2017 Nov 30.

Genomic Analysis Laboratory and Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.

Nat Commun 2018 05 22;9(1):2075. Epub 2018 May 22.

Plant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA.

Nat Commun 2018 04 23;9(1):1604. Epub 2018 Apr 23.

Plant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA.

Nat Commun 2018 02 7;9(1):541. Epub 2018 Feb 7.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA.

Nat Biotechnol 2017 12;35(12):1128-1132

Center for Personal Dynamic Regulomes, Stanford University, Stanford, California, USA.

Neuron 2017 Nov;96(3):542-557

Allen Institute for Brain Science, Seattle, WA 98109, USA.

Genome Biol 2017 09 15;18(1):171. Epub 2017 Sep 15.

Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA.

Plant J 2017 Aug 21;91(3):361-370. Epub 2017 Jun 21.

USDA ARS Western Regional Research Center, 800 Buchanan St., Albany, CA, 94710-1105, USA.

Nat Methods 2017 Aug 26;14(8):819-825. Epub 2017 Jun 26.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, California, USA.

Nat Protoc 2017 Aug 20;12(8):1659-1672. Epub 2017 Jul 20.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, California, USA.

Science 2017 08;357(6351):600-604

Genomic Analysis Laboratory, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

New Phytol 2017 Apr 20;214(2):808-819. Epub 2017 Jan 20.

Divisions of Plant Science and Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, 65211, USA.

Proc Natl Acad Sci U S A 2017 04 20;114(14):E2882-E2890. Epub 2017 Mar 20.

Department of Cognitive Science, University of California, San Diego, CA 92037;

Plant J 2017 Feb 11;89(4):805-824. Epub 2017 Feb 11.

Department of Animal, Plant and Soil Science, ARC Centre of Excellence in Plant Energy Biology, School of Life Science, La Trobe University, Melbourne, Vic, 3086, Australia.

New Phytol 2017 Feb 22;213(3):1378-1392. Epub 2016 Dec 22.

Plant Molecular Genetics Department, Centro Nacional de Biotecnología-CSIC (CNB-CSIC), Madrid, 28049, Spain.

Curr Biol 2017 Feb 19;27(3):437-444. Epub 2017 Jan 19.

Section of Cell and Developmental Biology and Howard Hughes Medical Institute, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA. Electronic address:

Proc Natl Acad Sci U S A 2017 02 13;114(9):E1633-E1640. Epub 2017 Feb 13.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037;

Cell Stem Cell 2017 01 10;20(1):112-119. Epub 2016 Nov 10.

Center for Embryonic Cell and Gene Therapy, Oregon Health & Science University, Portland, OR 97239, USA; Division of Reproductive Endocrinology, Department of Obstetrics and Gynecology, Oregon Health & Science University, Portland, OR 97239, USA. Electronic address:

Nat Methods 2016 Dec 17;13(12):1050-1054. Epub 2016 Oct 17.

Department of Computer Science, Johns Hopkins University, Baltimore, Maryland, USA.

Cell Rep 2016 12;17(12):3369-3384

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA. Electronic address:

Science 2016 11;354(6312)

Plant Biology Laboratory, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Cell Stem Cell 2016 10 14;19(4):502-515. Epub 2016 Jul 14.

Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA. Electronic address:

Nat Commun 2016 10 3;7:13018. Epub 2016 Oct 3.

Department of Molecular Biosciences, Institute for Cellular and Molecular Biology, Austin, Texas 78712, USA.

Cell 2016 Sep 8;166(6):1598. Epub 2016 Sep 8.

Science 2016 Aug;353(6301):814-8

Division of Biological Sciences, University of California San Diego, La Jolla, CA 92093, USA.

Proc Natl Acad Sci U S A 2016 07 29;113(29):E4238-47. Epub 2016 Jun 29.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037; Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, CA 92037;

Cell 2016 Jul;166(2):492-505

Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA. Electronic address:

Curr Protoc Plant Biol 2016 10;1(2):293-306. Epub 2016 Jun 10.

Plant Biology Laboratory, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Sci Rep 2016 06 30;6:28941. Epub 2016 Jun 30.

Division of Biological Sciences, Cell and Developmental Biology Section, University of California San Diego, La Jolla, California, USA.

Annu Rev Genomics Hum Genet 2015 4;16:55-77. Epub 2015 Jun 4.

Bioinformatics Program, University of California, San Diego, La Jolla, California 92093.

G3 (Bethesda) 2016 05 3;6(5):1383-90. Epub 2016 May 3.

Section of Cell and Developmental Biology and Howard Hughes Medical Institute, University of California San Diego, La Jolla, California 92093

Cell 2016 May;165(5):1280-1292

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, 10010 N. Torrey Pines Rd., La Jolla, CA 92037, USA; Plant Biology Laboratory, The Salk Institute for Biological Studies, 10010 N. Torrey Pines Rd., La Jolla, CA 92037, USA; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, 10010 N. Torrey Pines Rd., La Jolla, CA 92037, USA. Electronic address:

Nat Genet 2016 Apr 29;48(4):417-26. Epub 2016 Feb 29.

Australian Research Council Centre of Excellence in Plant Energy Biology, University of Western Australia, Perth, Western Australia, Australia.

Nat Plants 2016 04 29;2(5):16058. Epub 2016 Apr 29.

Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, California 92037, USA.

Elife 2016 Mar 7;5:e11613. Epub 2016 Mar 7.

Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, United States.

Plant Cell 2016 Mar 8;28(3):606-9. Epub 2016 Mar 8.

Max Planck Institute for Developmental Biology72076 Tübingen, Germany

Nature 2016 Feb 25;530(7589):242. Epub 2015 Nov 25.

Proc Natl Acad Sci U S A 2016 Feb 19;113(6):E801-10. Epub 2016 Jan 19.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037; Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, CA 92037

Cell 2016 Jan 24;164(1-2):233-245. Epub 2015 Dec 24.

Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, CA 92037, USA; Plant Biology Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA. Electronic address:

Methods Mol Biol 2015 ;1284:323-42

Genomic Analysis Laboratory, Salk Institute for Biological Studies, 10010 N. Torrey Pines Road, La Jolla, CA, 92037, USA,

PLoS Genet 2015 Sep 17;11(9):e1005452. Epub 2015 Sep 17.

BMC Bioinformatics 2015 Sep 29;16:313. Epub 2015 Sep 29.

Center for Genomic Science of IIT@SEMM, Istituto Italiano di Tecnologia (IIT), Milano, 20139, Italy.

Proc Natl Acad Sci U S A 2015 Aug 10;112(34):E4802-10. Epub 2015 Aug 10.

Molecular and Computational Biology Section, University of Southern California, Los Angeles, CA 90089;

Nature 2015 Jul 1;523(7559):212-6. Epub 2015 Jun 1.

1] Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, California 92037, USA [2] Howard Hughes Medical Institute, The Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, California 92037, USA.

Elife 2015 Jul 21;4. Epub 2015 Jul 21.

ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia, Perth, Australia.

Science 2015 Jun;348(6239):1094-5

Genomic Analysis Laboratory and Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Neuron 2015 Jun;86(6):1369-84

Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA; Department of Neuroscience, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA; Howard Hughes Medical Institute, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. Electronic address:

Cell Stem Cell 2015 May 9;16(5):547-55. Epub 2015 Apr 9.

Gene Expression Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA; Howard Hughes Medical Institute, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA. Electronic address:

Nature 2015 May 6;521(7552):316-21. Epub 2015 May 6.

The Salk Institute for Biological Studies, Gene Expression Laboratory, La Jolla, California 92037, USA.

Nat Protoc 2015 Mar 18;10(3):475-83. Epub 2015 Feb 18.

1] Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, California, USA. [2] Howard Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, California, USA.

Nature 2015 Feb;518(7539):317-30

1] Computer Science and Artificial Intelligence Lab, Massachusetts Institute of Technology, 32 Vassar St, Cambridge, Massachusetts 02139, USA. [2] The Broad Institute of Harvard and MIT, 415 Main Street, Cambridge, Massachusetts 02142, USA.

Nature 2015 Feb;518(7539):331-6

1] Ludwig Institute for Cancer Research, 9500 Gilman Drive, La Jolla, California 92093-0653, USA [2] University of California, San Diego School of Medicine, Department of Cellular and Molecular Medicine, Institute of Genomic Medicine, 9500 Gilman Drive, La Jolla, California 92093-0653, USA.

Nature 2015 Feb;518(7539):350-354

Ludwig Institute for Cancer Research, La Jolla, CA 92093, USA.

Proc Natl Acad Sci U S A 2014 Dec 20;111(48):17224-9. Epub 2014 Nov 20.

Department of Genetics, Stanford University, Stanford, CA 94305;

Genome Res 2014 Oct 28;24(10):1613-23. Epub 2014 Aug 28.

Mouse Cancer Genetics Program, Center for Cancer Research, National Cancer Institute, Frederick, Maryland 21702, USA; Leidos Biomedical Research, Inc., Basic Science Program, Frederick National Laboratory, Frederick, Maryland 21702, USA

Cell Stem Cell 2014 Sep;15(3):295-309

Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Skolkovo Institute of Science and Technology (Skoltech), Novaya strazha 100, Skolkovo Moscow Region 143025, Russia. Electronic address:

Cell Host Microbe 2014 Sep;16(3):364-75

Technische Universität München (TUM), Center for Life and Food Sciences Weihenstephan, Department for Plant Systems Biology, D-85354 Freising, Germany. Electronic address:

Cell 2014 Sep;158(6):1431-1443

Banting and Best Department of Medical Research and Donnelly Centre, University of Toronto, Toronto ON M5S 3E1, Canada; Department of Molecular Genetics, University of Toronto, Toronto ON M5S 1A8, Canada. Electronic address:

Plant Cell 2014 Aug 8;26(8):3326-42. Epub 2014 Aug 8.

Departamento de Biología Medioambiental, Centro Investigaciones Biológicas, 28040 Madrid, Spain

PLoS Genet 2014 Jul 3;10(7):e1004446. Epub 2014 Jul 3.

Department of Botany and Plant Sciences, Center for Plant Cell Biology, Institute of Integrative Genome Biology, University of California Riverside, Riverside, California, United States of America; Howard Hughes Medical Institute, University of California Riverside, Riverside, California, United States of America.

Nature 2014 Jul 2;511(7508):177-83. Epub 2014 Jul 2.

1] Center for Embryonic Cell and Gene Therapy, Oregon Health & Science University, 3303 Southwest Bond Avenue, Portland, Oregon 97239, USA [2] Division of Reproductive and Developmental Sciences, Oregon National Primate Research Center, Oregon Health & Science University, 505 Northwest 185th Avenue, Beaverton, Oregon 97006, USA [3] Division of Reproductive Endocrinology, Department of Obstetrics and Gynecology, Oregon Health & Science University, 3181 Southwest Sam Jackson Park Road, Portland, Oregon 97239, USA.

Cell Rep 2014 Jul 17;8(2):622-32. Epub 2014 Jul 17.

Division of Biological Sciences, University of California, San Diego, La Jolla, CA 92093, USA; Center for Chronobiology, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address:

Proc Natl Acad Sci U S A 2014 Apr 7;111(16):5890-5. Epub 2014 Apr 7.

Mouse Cancer and Genetics Program, Center for Cancer Research, National Cancer Institute, Frederick, MD 21702.

Genome Res 2014 Feb 5;24(2):267-80. Epub 2013 Dec 5.

Department of Human Genetics, University of Chicago, Howard Hughes Medical Institute, Chicago, Illinois 60637, USA;

Bioinformatics 2013 Dec 27;29(24):3204-10. Epub 2013 Sep 27.

Department of Chemistry and Biochemistry, University of California, San Diego, CA 92093, USA, Department of Neuroscience, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA, The ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, Western Australia 6009, Australia, Key Laboratory for Symbolic Computation and Knowledge Engineering of Ministry of Education, College of Computer Science and Technology, Jilin University, Changchun 130012, China, Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA, Department of Cellular and Molecular Medicine, University of California, San Diego, CA 92093, USA and Ludwig Institute for Cancer Research, La Jolla, CA 92093, USA.

Genome Res 2013 Oct 5;23(10):1663-74. Epub 2013 Jun 5.

Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, California 92037, USA;

Proc Natl Acad Sci U S A 2013 Oct 30;110(42):16927-32. Epub 2013 Sep 30.

Department of Genetics, University of Wisconsin-Madison, Madison, WI 53706.

Plant Signal Behav 2013 Aug 31;8(8). Epub 2013 May 31.

Plant Biology Laboratory; The Salk Institute for Biological Studies; La Jolla, CA USA.

Science 2013 Aug 4;341(6146):1237905. Epub 2013 Jul 4.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Plant Cell 2013 Aug 13;25(8):3117-32. Epub 2013 Aug 13.

Department of Plant Molecular Biology, University of Lausane, CH-1015 Lausane, Switzerland.

Elife 2013 Jun 11;2:e00675. Epub 2013 Jun 11.

Plant Biology Laboratory, and Genomic Analysis Laboratory , The Salk Institute for Biological Studies , La Jolla , United States.

Plant Physiol 2013 May 12;162(1):212-24. Epub 2013 Mar 12.

Department of Biological Sciences, Dartmouth College, Hanover, New Hampshire 03755, USA.

Cell 2013 May 9;153(5):1134-48. Epub 2013 May 9.

Ludwig Institute for Cancer Research, La Jolla, CA 92093, USA.

Nature 2013 Mar 6;495(7440):193-8. Epub 2013 Mar 6.

Plant Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, California 92037, USA.

Nat Biotechnol 2013 Feb;31(2):119-20

Plant J 2013 Jan 5;73(1):1-13. Epub 2012 Nov 5.

Plant Biology Laboratory, The Salk Institute, 10010 North Torrey Pines Road, La Jolla, CA, 92037, USA.

Trends Genet 2012 Dec 3;28(12):583-5. Epub 2012 Nov 3.

Cancer Res 2012 Dec 27;72(24):6319-24. Epub 2012 Nov 27.

Research Department of Cancer Biology, University College London Cancer Institute, University College London, London, United Kingdom.

Cell Metab 2012 Dec;16(6):833-45

Regulatory Biology Laboratory, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Science 2012 Oct 30;338(6105):390-3. Epub 2012 Aug 30.

Plant Biology Laboratory, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Nature 2012 Sep;489(7414):52-5

Howard Hughes Medical Institute and the Salk Institute for Biological Studies, La Jolla, California 92037, USA.

ACS Chem Biol 2012 Aug 13;7(8):1337-44. Epub 2012 Jun 13.

The Jack H. Skirball Center for Chemical Biology and Proteomics, The Salk Institute for Biological Studies, 10010 N. Torrey Pines Road, La Jolla, CA 92037, USA.

Proc Natl Acad Sci U S A 2012 Aug 25;109(32):E2183-91. Epub 2012 Jun 25.

Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA.

Genes Dev 2012 Aug 1;26(16):1825-36. Epub 2012 Aug 1.

Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, Michigan 48109, USA.

Bioinformatics 2012 Jun;28(12):i163-71

Department of Computer Science and Engineering, University of California-San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.

G3 (Bethesda) 2012 Apr 1;2(4):487-98. Epub 2012 Apr 1.