Chromatin profiling by directly sequencing small quantities of immunoprecipitated DNA.

Nature Methods
Alon GorenBradley E Bernstein

Abstract

Chromatin structure and transcription factor localization can be assayed genome-wide by sequencing genomic DNA fractionated by protein occupancy or other properties, but current technologies involve multiple steps that introduce bias and inefficiency. Here we apply a single-molecule approach to directly sequence chromatin immunoprecipitated DNA with minimal sample manipulation. This method is compatible with just 50 pg of DNA and should thus facilitate charting chromatin maps from limited cell populations.

References

Jan 10, 2002·Genome Research·Serafim BatzoglouEric S Lander
Jun 5, 2002·Genome Research·W James KentDavid Haussler
Jul 5, 2002·Genome Research·Kathryn A SwanMichael R Cancilla
Jun 2, 2007·Science·David S JohnsonBarbara Wold
Jul 3, 2007·Nature·Tarjei S MikkelsenBradley E Bernstein
Apr 5, 2008·Science·Timothy D HarrisZheng Xie
Jul 10, 2008·Nature Biotechnology·Thomas A DownStephan Beck
Jul 29, 2008·Nucleic Acids Research·Juliane C DohmHeinz Himmelbauer
Feb 28, 2009·Genome Research·Michael Y TolstorukovPeter J Park
Mar 24, 2009·Nature Methods·Jay R HesselberthJohn A Stamatoyannopoulos
Jul 8, 2009·Nature Biotechnology·Doron LipsonMarie Causey
Jul 22, 2009·Nature Methods·Jayson BowersJohn F Thompson
Aug 12, 2009·Nature Biotechnology·Dmitry PushkarevStephen R Quake

❮ Previous
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Citations

Feb 17, 2010·Journal of Mammary Gland Biology and Neoplasia·Monique RijnkelsEve Devinoy
Jun 30, 2011·European Journal of Human Genetics : EJHG·Kaja K SelmerDag E Undlien
Oct 15, 2010·Nature Biotechnology·Alexander Meissner
Oct 15, 2010·Nature Biotechnology·John S SatterleeHuck-Hui Ng
Jul 14, 2010·Nature Methods·Mazhar AdliBradley E Bernstein
Jun 7, 2011·Nature Methods·Pattabhiraman ShankaranarayananHinrich Gronemeyer
Oct 27, 2010·Nature Neuroscience·Dengke K MaHongjun Song
Jul 2, 2011·Nature Protocols·Wieteke A M HoeijmakersHendrik G Stunnenberg
Oct 1, 2011·Nature Protocols·Mazhar Adli, Bradley E Bernstein
Dec 31, 2010·Nature Reviews. Genetics·Fatih Ozsolak, Patrice M Milos
Sep 21, 2010·Integrative Biology : Quantitative Biosciences From Nano to Macro·Xinyue Zhang, Jing Huang
Nov 26, 2010·Proceedings of the National Academy of Sciences of the United States of America·Mirco FanelliSaverio Minucci
Aug 3, 2012·Proceedings of the National Academy of Sciences of the United States of America·Michael W SchmittLawrence A Loeb
Jan 27, 2011·Briefings in Functional Genomics·Martin Hirst, Marco A Marra
Apr 2, 2013·Bioinformatics·Xiaoyi Cao, Sheng Zhong
Sep 23, 2010·Human Molecular Genetics·Eric E SchadtAndrew Kasarskis
Jul 19, 2011·Genome Research·John F ThompsonPatrice M Milos
Mar 2, 2011·BMC Genomics·Joshua W K HoPeter J Park
Nov 23, 2012·BMC Genomics·Gregor D GilfillanRobert Lyle
Jun 10, 2010·BMC Biology·Edison T LiuMikael Huss
Feb 12, 2013·BMC Pharmacology & Toxicology·Arkadiusz GertychJian Tajbakhsh
Nov 15, 2011·Breast Cancer Research : BCR·Yi HuangSteffi Oesterreich
May 17, 2011·PloS One·Tal RazJohn F Thompson
Apr 12, 2012·Haematologica·Kirsten GrønbækUNKNOWN European Genomics and Epigenomics Study on MDS and AML (EuGESMA), COST Action BM0801
Jun 1, 2013·Proceedings of the National Academy of Sciences of the United States of America·Michael Y TolstorukovCharles W M Roberts
Oct 5, 2013·Nature Nanotechnology·Carlos A Aguilar, Harold G Craighead
Jan 16, 2010·Molecular Biotechnology·Philippe Collas
Apr 4, 2012·Expert Opinion on Drug Discovery·Fatih Ozsolak
May 4, 2010·Trends in Biotechnology·Daojing Wang, Steven Bodovitz
May 4, 2011·Birth Defects Research. Part A, Clinical and Molecular Teratology·J Michael Salbaum, Claudia Kappen
Jan 5, 2011·Wiley Interdisciplinary Reviews. Systems Biology and Medicine·Alka Saxena, Piero Carninci
Oct 1, 2011·Wiley Interdisciplinary Reviews. RNA·Fatih Ozsolak, Patrice M Milos
Nov 12, 2010·Wiley Interdisciplinary Reviews. Systems Biology and Medicine·Tae-Min Kim, Peter J Park
Jul 28, 2015·Nature Methods·Zhenning CaoChang Lu
Dec 7, 2010·Developmental Biology·Maximilian Haeussler, Jean-Stéphane Joly
Oct 27, 2011·Seminars in Cell & Developmental Biology·Emma Meaburn, Reiner Schulz
Jun 12, 2012·Cell·Shu XiaoSheng Zhong
Jun 6, 2012·Clinica Chimica Acta; International Journal of Clinical Chemistry·J L García-GiménezF V Pallardó

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