Publications by authors named "Jorja G Henikoff"

31Publications

Efficient chromatin accessibility mapping by nucleosome-tethered tagmentation.

Elife 2020 Nov 16;9. Epub 2020 Nov 16.

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, United States.

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November 2020

Efficient low-cost chromatin profiling with CUT&Tag.

Nat Protoc 2020 10 10;15(10):3264-3283. Epub 2020 Sep 10.

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.

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October 2020

Improved CUT&RUN chromatin profiling tools.

Elife 2019 06 24;8. Epub 2019 Jun 24.

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, United States.

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June 2019

CUT&Tag for efficient epigenomic profiling of small samples and single cells.

Nat Commun 2019 04 29;10(1):1930. Epub 2019 Apr 29.

Basic Sciences Division, Fred Hutchinson Cancer Research Center, 1100N. FairviewAve, Seattle, WA, 98109, USA.

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April 2019

Targeted in situ genome-wide profiling with high efficiency for low cell numbers.

Nat Protoc 2018 05 12;13(5):1006-1019. Epub 2018 Apr 12.

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, Washington, USA.

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May 2018

A unique chromatin complex occupies young α-satellite arrays of human centromeres.

Sci Adv 2015 Feb;1(1)

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA ; Howard Hughes Medical Institute, Seattle, WA 98109, USA.

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February 2015

The CentO satellite confers translational and rotational phasing on cenH3 nucleosomes in rice centromeres.

Proc Natl Acad Sci U S A 2013 Dec 4;110(50):E4875-83. Epub 2013 Nov 4.

Department of Horticulture, University of Wisconsin, Madison, WI 53706.

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December 2013

"Point" centromeres of Saccharomyces harbor single centromere-specific nucleosomes.

Genetics 2012 Apr 10;190(4):1575-7. Epub 2012 Jan 10.

Basic Sciences Division, Howard Hughes Medical Institute, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109-1024, USA.

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April 2012

Tripartite organization of centromeric chromatin in budding yeast.

Proc Natl Acad Sci U S A 2012 Jan 19;109(1):243-8. Epub 2011 Dec 19.

Basic Sciences Division, Howard Hughes Medical Institute, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.

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January 2012

Epigenome characterization at single base-pair resolution.

Proc Natl Acad Sci U S A 2011 Nov 24;108(45):18318-23. Epub 2011 Oct 24.

Basic Sciences Division, The Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.

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November 2011

Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project.

Authors:
Mark B Gerstein Zhi John Lu Eric L Van Nostrand Chao Cheng Bradley I Arshinoff Tao Liu Kevin Y Yip Rebecca Robilotto Andreas Rechtsteiner Kohta Ikegami Pedro Alves Aurelien Chateigner Marc Perry Mitzi Morris Raymond K Auerbach Xin Feng Jing Leng Anne Vielle Wei Niu Kahn Rhrissorrakrai Ashish Agarwal Roger P Alexander Galt Barber Cathleen M Brdlik Jennifer Brennan Jeremy Jean Brouillet Adrian Carr Ming-Sin Cheung Hiram Clawson Sergio Contrino Luke O Dannenberg Abby F Dernburg Arshad Desai Lindsay Dick Andréa C Dosé Jiang Du Thea Egelhofer Sevinc Ercan Ghia Euskirchen Brent Ewing Elise A Feingold Reto Gassmann Peter J Good Phil Green Francois Gullier Michelle Gutwein Mark S Guyer Lukas Habegger Ting Han Jorja G Henikoff Stefan R Henz Angie Hinrichs Heather Holster Tony Hyman A Leo Iniguez Judith Janette Morten Jensen Masaomi Kato W James Kent Ellen Kephart Vishal Khivansara Ekta Khurana John K Kim Paulina Kolasinska-Zwierz Eric C Lai Isabel Latorre Amber Leahey Suzanna Lewis Paul Lloyd Lucas Lochovsky Rebecca F Lowdon Yaniv Lubling Rachel Lyne Michael MacCoss Sebastian D Mackowiak Marco Mangone Sheldon McKay Desirea Mecenas Gennifer Merrihew David M Miller Andrew Muroyama John I Murray Siew-Loon Ooi Hoang Pham Taryn Phippen Elicia A Preston Nikolaus Rajewsky Gunnar Rätsch Heidi Rosenbaum Joel Rozowsky Kim Rutherford Peter Ruzanov Mihail Sarov Rajkumar Sasidharan Andrea Sboner Paul Scheid Eran Segal Hyunjin Shin Chong Shou Frank J Slack Cindie Slightam Richard Smith William C Spencer E O Stinson Scott Taing Teruaki Takasaki Dionne Vafeados Ksenia Voronina Guilin Wang Nicole L Washington Christina M Whittle Beijing Wu Koon-Kiu Yan Georg Zeller Zheng Zha Mei Zhong Xingliang Zhou Julie Ahringer Susan Strome Kristin C Gunsalus Gos Micklem X Shirley Liu Valerie Reinke Stuart K Kim LaDeana W Hillier Steven Henikoff Fabio Piano Michael Snyder Lincoln Stein Jason D Lieb Robert H Waterston

Science 2010 Dec 22;330(6012):1775-87. Epub 2010 Dec 22.

Program in Computational Biology and Bioinformatics, Yale University, Bass 432, 266 Whitney Avenue, New Haven, CT 06520, USA.

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December 2010

Identification of functional elements and regulatory circuits by Drosophila modENCODE.

Science 2010 Dec 22;330(6012):1787-97. Epub 2010 Dec 22.

Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology (MIT), Cambridge, MA 02139, USA.

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December 2010

H2A.Z nucleosomes enriched over active genes are homotypic.

Nat Struct Mol Biol 2010 Dec 7;17(12):1500-7. Epub 2010 Nov 7.

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, Washington, USA.

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December 2010

Genome-wide kinetics of nucleosome turnover determined by metabolic labeling of histones.

Science 2010 May;328(5982):1161-4

Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.

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May 2010

A comprehensive map of insulator elements for the Drosophila genome.

PLoS Genet 2010 Jan 15;6(1):e1000814. Epub 2010 Jan 15.

Institute for Genomics and Systems Biology, Department of Human Genetics, and Department of Ecology and Evolution, University of Chicago, Chicago, Illinois, USA.

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January 2010

A native chromatin purification system for epigenomic profiling in Caenorhabditis elegans.

Nucleic Acids Res 2010 Mar 4;38(4):e26. Epub 2009 Dec 4.

Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.

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March 2010

Genome-wide profiling of salt fractions maps physical properties of chromatin.

Genome Res 2009 Mar 16;19(3):460-9. Epub 2008 Dec 16.

Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109-1024, USA.

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March 2009

Using the blocks database to recognize functional domains.

Curr Protoc Bioinformatics 2002 Aug;Chapter 2:Unit 2.2

Fred Hutchinson Cancer Research Center, Seattle, Washington, USA.

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August 2002

Histone replacement marks the boundaries of cis-regulatory domains.

Science 2007 Mar;315(5817):1408-11

Basic Sciences Division, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue North, Seattle, WA 98109, USA.

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March 2007

High-throughput TILLING for Arabidopsis.

Methods Mol Biol 2006 ;323:127-35

Basic Sciences Division, Fred Hutchison Cancer Research Center, Department of Biology, University of Washington, Seattle, USA.

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June 2006

Genome-scale profiling of histone H3.3 replacement patterns.

Nat Genet 2005 Oct 11;37(10):1090-7. Epub 2005 Sep 11.

Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue North, Seattle, Washington 98109, USA.

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October 2005

DNA methylation profiling identifies CG methylation clusters in Arabidopsis genes.

Curr Biol 2005 Jan;15(2):154-9

Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue North, Seattle, WA 98109, USA.

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January 2005

Suboptimal pharmacotherapeutic management of chronic stable angina in the primary care setting.

Am J Med 2004 Aug;117(4):234-41

Health Services Research and Development Center of Excellence, Veterans Affairs Puget Sound Health Care System, Seattle, WA 98108, USA.

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August 2004

CODEHOP (COnsensus-DEgenerate Hybrid Oligonucleotide Primer) PCR primer design.

Nucleic Acids Res 2003 Jul;31(13):3763-6

Department of Pathobiology, School of Public Health and Community Medicine, University of Washington, Seattle, WA 98195, USA.

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July 2003

Genome-wide profiling of DNA methylation reveals transposon targets of CHROMOMETHYLASE3.

Curr Biol 2002 Jan;12(1):65-8

Howard Hughes Medical Institute and Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.

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January 2002