ewilban1's chipseq [41 articles] Export

Recent papers added to ewilban1's library classified by the tag chipseq. You can also see everyone's chipseq.

	ChIP-seq accurately predicts tissue-specific activity of enhancers [My Copy] Nature, Vol. 457, No. 7231. (12 February 2009), pp. 854-858. by Axel Visel, Matthew J. Blow, Zirong Li, et al.Tao Zhang, Jennifer A. Akiyama, Amy Holt, Ingrid Plajzer-Frick, Malak Shoukry, Crystal Wright, Feng Chen, Veena Afzal, Bing Ren, Edward M. Rubin, Len A. Pennacchio posted to transcription_fractor chipseq by ewilban1 on 2009-09-08 19:09:12 as along with 23 people and 2 groups hzoltan tonamswish samanthacooper ashkelon13 isimpson gdb dnewburger jochenG bertelsen oelemento rpatward cajunsushi WanderingAengus absterga provero cassj anphony dpollard caseybrown biomcgary xingxu idonaldson djkt RockmanLab cis-regulatory-evolution
	CEAS: cis-regulatory element annotation system [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2605-2606. by Hyunjin Shin, Tao Liu, Arjun K. Manrai, X. Shirley Liu posted to peakcaller chipseq ceas by ewilban1 on 2009-09-08 05:34:01 as along with 6 people bsamal maximilianh druvus guhjy idonaldson nuin
	Using ChIP-chip and ChIP-seq to study the regulation of gene expression: genome-wide localization studies reveal widespread regulation of transcription elongation. [My Copy] Methods (San Diego, Calif.), Vol. 48, No. 4. (9 August 2009), pp. 398-408. by Daniel A. Gilchrist, David C. Fargo, Karen Adelman posted to rna_polymerase review chipseq by ewilban1 on 2009-08-28 19:59:08 as along with 5 people fpattyn guhjy inesdesantiago sebastien_vigneau idonaldson
	ChIP-Seq of ER\|[alpha]\| and RNA polymerase II defines genes differentially responding to ligands [My Copy] EMBO J, Vol. 28, No. 10. (04 April 2009), pp. 1418-1428. by Willem-Jan Welboren, Marc A. van Driel, Eva M. Janssen-Megens, et al.Simon J. van Heeringen, Fred C. G. J. Sweep, Paul N. Span, Hendrik G. Stunnenberg posted to rna_polymerase chipseq by ewilban1 on 2009-08-28 19:58:45 as along with 1 person tonamswish
	Four histone variants mark the boundaries of polycistronic transcription units in Trypanosoma brucei. [My Copy] Genes & development, Vol. 23, No. 9. (1 May 2009), pp. 1063-1076. by T. Nicolai Siegel, Doeke R. Hekstra, Louise E. Kemp, et al.Luisa M. Figueiredo, Joanna E. Lowell, David Fenyo, Xuning Wang, Scott Dewell, George A. Cross posted to trypanosome histone chipseq by ewilban1 on 2009-08-28 19:58:23 as along with 1 person clearbluespring
	Mapping accessible chromatin regions using Sono-Seq. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 35. (18 August 2009), pp. 14926-14931. by Raymond K. Auerbach, Ghia Euskirchen, Joel Rozowsky, et al.Nathan Lamarre-Vincent, Zarmik Moqtaderi, Philippe Lefrançois, Kevin Struhl, Mark Gerstein, Michael Snyder posted to chromatin chipseq background by ewilban1 on 2009-08-28 19:17:18 as along with 3 people and 1 group sebastien_vigneau fenghezi polivares JLab
	Inherent Signals in Sequencing-Based Chromatin-ImmunoPrecipitation Control Libraries [My Copy] PLoS ONE, Vol. 4, No. 4. (15 April 2009), e5241. by Vinsensius B. Vega, Edwin Cheung, Nallasivam Palanisamy, Wing-Kin Sung posted to input_control chipseq by ewilban1 on 2009-08-14 22:12:18 as along with 1 person gdb
	Extracting transcription factor targets from ChIP-Seq data [My Copy] Nucl. Acids Res., Vol. 37, No. 17. (1 September 2009), e113. by Geetu Tuteja, Peter White, Jonathan Schug, Klaus H. Kaestner posted to wold peakcaller glitr chipseq by ewilban1 on 2009-08-13 08:12:54 as along with 14 people and 4 groups hzoltan Vincent_Rouilly mfgreen idonaldson guhjy mkiyer rschulz fenghezi clearbluespring thegoose robeirne inesdesantiago malcook polivares Chinnaiyan Lab SIMR bioinformatics BergmanLab Journal picks
	An embryonic stem cell chromatin remodeling complex, esBAF, is an essential component of the core pluripotency transcriptional network. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 13. (31 March 2009), pp. 5187-5191. by Lena Ho, Raja Jothi, Jehnna L. Ronan, Kairong Cui, Keji Zhao, Gerald R. Crabtree posted to chipseq peakcaller tiroe by ewilban1 on 2009-07-30 19:47:10 as along with 2 people and 1 group wsjames shikin Oxford Virology
	Comparative study on ChIP-seq data: normalization and binding pattern characterization [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2334-2340. by Cenny Taslim, Jiejun Wu, Pearlly Yan, et al.Greg Singer, Jeffrey Parvin, Tim Huang, Shili Lin, Kun Huang posted to chipseq pol_ii by ewilban1 on 2009-07-29 22:02:32 as along with 8 people and 2 groups Stew tonamswish stubrown inesdesantiago guhjy mkiyer humburg rschulz Bioinformatics - CRUK Chinnaiyan Lab
	GeneTrack - a genomic data processing and visualization framework [My Copy] Bioinformatics, Vol. 24, No. 10. (3 April 2008), pp. btn119-1306. by Istvan Albert, Shinichiro Wachi, Cizhong Jiang, B. Franklin Pugh posted to chipseq genetrack peakcaller by ewilban1 on 2009-07-22 23:52:14 as along with 7 people oannes tonamswish cassj zhouyu wisdom_love guhjy inesdesantiago
	A clustering approach for identification of enriched domains from histone modification ChIP-Seq data [My Copy] Bioinformatics, Vol. 25, No. 15. (1 August 2009), pp. 1952-1958. by Chongzhi Zang, Dustin E. Schones, Chen Zeng, Kairong Cui, Keji Zhao, Weiqun Peng posted to chipseq histone sicer by ewilban1 on 2009-07-17 20:21:35 as along with 12 people and 2 groups hzoltan hagechouchin443 ashraya stubrown cassj guhjy humburg gdb inesdesantiago fenghezi ghattem polivares SIMR bioinformatics BergmanLab
	Genome-wide approaches to studying chromatin modifications. [My Copy] Nature reviews. Genetics, Vol. 9, No. 3. (March 2008), pp. 179-191. by Dustin E. Schones, Keji Zhao posted to chipseq rev by ewilban1 on 2009-07-13 20:23:24 as along with 15 people clearbluespring athma hkuhn geniac epigenetics inesdesantiago tmmurali dchughes vega zwang cabbagezs idonaldson faion bpcusack guhjy
	Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing [My Copy] Nature Methods, Vol. 4, No. 8. (11 June 2007), pp. 651-657. by Gordon Robertson, Martin Hirst, Matthew Bainbridge, et al.Misha Bilenky, Yongjun Zhao, Thomas Zeng, Ghia Euskirchen, Bridget Bernier, Richard Varhol, Allen Delaney, Nina Thiessen, Obi L. Griffith, Ann He, Marco Marra, Michael Snyder, Steven Jones posted to chipseq peakcaller stat1 xset by ewilban1 on 2009-07-07 23:18:17 as along with 14 people and 1 group bedo absterga samanthacooper stubrown fpattyn polivares caseybrown guhjy vega kengg ghattem slevy03 dquest raiyar Plantandetc
	Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding [My Copy] Genome Research, Vol. 18, No. 12. (3 December 2008), pp. 1906-1917. by A. Gordon Robertson, Mikhail Bilenky, Angela Tam, et al.Yongjun Zhao, Thomas Zeng, Nina Thiessen, Timothee Cezard, Anthony P. Fejes, Elizabeth D. Wederell, Rebecca Cullum, Ghia Euskirchen, Martin Krzywinski, Inanc Birol, Michael Snyder, Pamela A. Hoodless, Martin Hirst, Marco A. Marra, Steven J. M. Jones posted to chipseq findpeaks histone by ewilban1 on 2009-07-07 19:52:02 as along with 8 people tonamswish humburg gdb natstreet raylim maximilianh jernst cpreviti
	Genome-Wide uH2A Localization Analysis Highlights Bmi1-Dependent Deposition of the Mark at Repressed Genes [My Copy] PLoS Genet, Vol. 5, No. 6. (5 June 2009), e1000506. by Eric M. Kallin, Ru Cao, Raja Jothi, et al.Kai Xia, Kairong Cui, Keji Zhao, Yi Zhang posted to chipseq peakcaller tiroe by ewilban1 on 2009-07-07 19:01:42 as along with 1 person fenghezi
	Visualization of genomic data with the Hilbert curve [My Copy] Bioinformatics, Vol. 25, No. 10. (15 May 2009), pp. 1231-1235. by Simon Anders posted to bioinformatics chipseq genome-viewer visualization by ewilban1 on 2009-07-07 18:44:56 as along with 15 people and 1 group Yanno jfr jandot polivares inesdesantiago djkt behindtherabbit guhjy humburg Thaverkamp svenrahmann jmeppley idonaldson rdiaz paszkows BergmanLab
	FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin [My Copy] Genome Research, Vol. 17, No. 6. (19 June 2007), pp. 877-885. by Paul G. Giresi, Jonghwan Kim, Ryan M. McDaniell, Vishwanath R. Iyer, Jason D. Lieb posted to bias chipseq chromatin faire by ewilban1 on 2009-06-05 01:18:45 as along with 5 people and 1 group sf11 aprasad dpollard olympos uz_labu_laimi EisenLab
	From sextant to GPS: twenty-five years of mapping the genome with ChIP. [My Copy] Journal of cellular biochemistry, Vol. 107, No. 1. (1 May 2009), pp. 6-10. by D. A. Wacker, T. H. Kim posted to chipseq review by ewilban1 on 2009-05-27 22:41:04 as along with 1 person guhjy
	Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data [My Copy] Bioinformatics (Oxford, England) In Bioinformatics, Vol. 25, No. 14. (15 July 2009), pp. 1715-1721. by Hyungwon Choi, Alexey I. Nesvizhskii, Debashis Ghosh, Zhaohui S. Qin posted to chipseq hierarchical hmm metachip by ewilban1 on 2009-05-27 22:29:40 as along with 13 people and 1 group bsamal jfr tonamswish rdiaz fpattyn jcbarret guhjy hendrik85 inesdesantiago nklee polivares idonaldson humburg Journal picks
	Target Genes of the MADS Transcription Factor SEPALLATA3: Integration of Developmental and Hormonal Pathways in the <italic>Arabidopsis</italic> Flower [My Copy] PLoS Biol, Vol. 7, No. 4. (21 April 2009), e1000090. by Kerstin Kaufmann, Jose M. Muiño, Ruy Jauregui, et al.Chiara A. Airoldi, Cezary Smaczniak, Pawel Krajewski, Gerco C. Angenent posted to chipseq peakcaller by ewilban1 on 2009-05-12 19:25:50 as along with 1 person rs
	Design and analysis of ChIP-seq experiments for DNA-binding proteins. [My Copy] Nature biotechnology, Vol. 26, No. 12. (16 December 2008), pp. 1351-1359. by Peter V. Kharchenko, Michael Y. Tolstorukov, Peter J. Park posted to chipseq peakcaller r by ewilban1 on 2009-05-09 01:39:55 as along with 19 people and 2 groups hzoltan stubrown guhjy gdb tonamswish coela ekotelnikova jfr floatingpoint idonaldson inesdesantiago WanderingAengus vplagnol xwbcn fpattyn mutagenic kengg rschulz ghattem KCL & UCL Bioinformatics SIMR bioinformatics
	ChIP-Seq Data Reveal Nucleosome Architecture of Human Promoters [My Copy] Cell, Vol. 131, No. 5. (30 November 2007), pp. 831-832. by Christoph D. Schmid, Philipp Bucher posted to chipseq criticism by ewilban1 on 2009-05-09 00:33:14 as along with 4 people polivares mikaelhuss vega dquest
	High-resolution profiling of histone methylations in the human genome. [My Copy] Cell, Vol. 129, No. 4. (18 May 2007), pp. 823-837. by Artem Barski, Suresh Cuddapah, Kairong Cui, et al.Tae-Young Y. Roh, Dustin E. Schones, Zhibin Wang, Gang Wei, Iouri Chepelev, Keji Zhao posted to chipseq histone nucleosome by ewilban1 on 2009-05-08 21:28:23 as along with 22 people and 2 groups rsaito darian tonamswish stubrown fpattyn hagechouchin443 absterga suizifish jochenG caseybrown raylim jernst giovenko guhjy kengg sebastien_vigneau jackjackjjj ghattem epigenetics ksha inesdesantiago dquest JLab Plantandetc
	Genomic location analysis by ChIP-Seq [My Copy] Journal of Cellular Biochemistry, Vol. 107, No. 1. (1 May 2009), pp. 11-18. by Artem Barski, Keji Zhao posted to chipseq review by ewilban1 on 2009-05-08 20:23:36 as along with 9 people Vincent_Rouilly stubrown guhjy hagechouchin443 tonamswish humburg talponer cassj polivares
	Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. [My Copy] Nature, Vol. 448, No. 7153. (2 July 2007), pp. 553-560. by Tarjei S. Mikkelsen, Manching Ku, David B. Jaffe, et al.Biju Issac, Erez Lieberman, Georgia Giannoukos, Pablo Alvarez, William Brockman, Tae-Kyung Kim, Richard P. Koche, William Lee, Eric Mendenhall, Aisling O’donovan, Aviva Presser, Carsten Russ, Xiaohui Xie, Alexander Meissner, Marius Wernig, Rudolf Jaenisch, Chad Nusbaum, Eric S. Lander, Bradley E. Bernstein posted to chipseq histone mikkelsen peakcaller stat1 by ewilban1 on 2009-05-08 02:03:16 as along with 19 people and 1 group hkuhn RyuOgawa stubrown tonamswish gdb guhjy brant dchughes vega kengg vplagnol olympos epigenetics bioyang cabbagezs rschulz slevy03 jasonflannick inesdesantiago EisenLab
	PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls. [My Copy] Nature biotechnology, Vol. 27, No. 1. (04 January 2009), pp. 66-75. by Joel Rozowsky, Ghia Euskirchen, Raymond K. Auerbach, et al.Zhengdong D. Zhang, Theodore Gibson, Robert Bjornson, Nicholas Carriero, Michael Snyder, Mark B. Gerstein posted to chipseq peakcaller peakseq by ewilban1 on 2009-05-08 02:01:36 as along with 19 people and 1 group bedo hzoltan fpattyn gdb huali fenghezi smiddha jfr bertelsen JeremyZucker cassj inesdesantiago dakelley ghattem abizar polivares idonaldson WanderingAengus guhjy SIMR bioinformatics
	ChIP-seq: using high-throughput sequencing to discover protein-DNA interactions. [My Copy] Methods (San Diego, Calif.), Vol. 48, No. 3. (7 July 2009), pp. 240-248. by Dominic Schmidt, Michael D. Wilson, Christiana Spyrou, Gordon D. Brown, James Hadfield, Duncan T. Odom posted to chipseq review by ewilban1 on 2009-05-08 01:58:41 as along with 8 people samanthacooper fpattyn roys guhjy gdb idonaldson rschulz clearbluespring
	ChromaSig: A Probabilistic Approach to Finding Common Chromatin Signatures in the Human Genome [My Copy] PLoS Comput Biol, Vol. 4, No. 10. (17 October 2008), e1000201. by Gary Hon, Bing Ren, Wei Wang posted to chipseq chromasig peakcaller by ewilban1 on 2009-05-08 01:51:54 as along with 6 people darian sebastien_vigneau guhjy magusina inesdesantiago djkt
	A Poisson mixture model to identify changes in RNA polymerase II binding quantity using high-throughput sequencing technology [My Copy] BMC Genomics, Vol. 9, No. Suppl 2. (2008), S23. by Weixing Feng, Yunlong Liu, Jiejun Wu, Kenneth Nephew, Tim Huang, Lang Li posted to chipseq peakcaller poisson by ewilban1 on 2009-05-08 01:50:40 as along with 2 people tonamswish WanderingAengus
	An HMM approach to genome-wide identification of differential histone modification sites from ChIP-seq data [My Copy] Bioinformatics, Vol. 24, No. 20. (15 October 2008), pp. 2344-2349. by Han Xu, Chia-Lin Wei, Feng Lin, Wing-Kin Sung posted to chipseq histone peakcaller by ewilban1 on 2009-05-08 01:49:40 as along with 8 people darian mkiyer tonamswish rschulz polivares caseybrown djkt epigenetics
	F-Seq: a feature density estimator for high-throughput sequence tags [My Copy] Bioinformatics, Vol. 24, No. 21. (1 November 2008), pp. 2537-2538. by Alan P. Boyle, Justin Guinney, Gregory E. Crawford, Terrence S. Furey posted to chipseq fseq histone peakcaller by ewilban1 on 2009-05-08 01:48:32 as along with 18 people and 2 groups hzoltan n00c darian idonaldson michaelbarton inesdesantiago gdb tonamswish guhjy kmdaily cassj fhalbrit jfr rschulz polivares cthachuk zhouyu aprasad JLab BergmanLab
	Modeling ChIP Sequencing In Silico with Applications [My Copy] PLoS Comput Biol, Vol. 4, No. 8. (22 August 2008), e1000158. by Zhengdong D. Zhang, Joel Rozowsky, Michael Snyder, Joseph Chang, Mark Gerstein posted to chipseq insilico modeling peakcaller by ewilban1 on 2009-05-08 01:44:34 as along with 10 people cassj WanderingAengus rschulz inesdesantiago aramesh2 djkt kengg Stew gdb caseybrown
	ChIP-seq: welcome to the new frontier [My Copy] Nat Meth, Vol. 4, No. 8. (01 August 2007), pp. 613-614. by Elaine R. Mardis posted to chipseq review by ewilban1 on 2009-05-08 01:32:53 as along with 5 people pradiptaray giovenko zhlei sleepingcell slevy03
	Genome-Wide Analysis of Protein-DNA Interactions [My Copy] Annual Review of Genomics and Human Genetics, Vol. 7, No. 1. (2006), pp. 81-102. by Tae H. Kim, Bing Ren posted to chipseq review by ewilban1 on 2009-05-08 01:25:45 as along with 5 people darian cabbagezs sebastien_vigneau epigenetics waraz
	Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data [My Copy] Nature Methods, Vol. 5, No. 9. (17 August 2008), pp. 829-834. by Anton Valouev, David S. Johnson, Andreas Sundquist, et al.Catherine Medina, Elizabeth Anton, Serafim Batzoglou, Richard M. Myers, Arend Sidow posted to chipseq peakcaller quest by ewilban1 on 2009-05-08 01:24:01 as along with 21 people and 1 group torfinnnome bsamal jwfoley nklee bertelsen stajich smiddha clearbluespring WanderingAengus polivares ptrobajo mdperry idonaldson gdb megraw kengg alhufton guhjy kjglennie bryankr maximilianh Mycology
	An integrated software system for analyzing ChIP-chip and ChIP-seq data. [My Copy] Nature biotechnology, Vol. 26, No. 11. (02 November 2008), pp. 1293-1300. by Hongkai Ji, Hui Jiang, Wenxiu Ma, David S. Johnson, Richard M. Myers, Wing H. Wong posted to chipseq cisgenome peakcaller by ewilban1 on 2009-05-08 01:23:01 as along with 25 people and 3 groups bsamal hzoltan fpattyn stubrown isimpson huali tonamswish sebastien_vigneau jfr kmdaily cassj bryankr malcook rschulz mcm behindtherabbit psique renatomilani polivares guhjy inesdesantiago pengchy kengg bais idonaldson Neuroblastoma SIMR bioinformatics BenosLab
	Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 523. by David Nix, Samir Courdy, Kenneth Boucher posted to chipseq peakcaller useq by ewilban1 on 2009-05-08 01:22:03 as along with 9 people and 2 groups darian gdb slv23 inesdesantiago floatingpoint WanderingAengus magusina ghattem caseybrown Bioinformatics - CRUK SIMR bioinformatics
	FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology [My Copy] Bioinformatics In Bioinformatics, Vol. 24, No. 15. (1 August 2008), pp. 1729-1730. by Anthony P. Fejes, Gordon Robertson, Mikhail Bilenky, Richard Varhol, Matthew Bainbridge, Steven J. M. Jones posted to chipseq findpeaks peakcaller by ewilban1 on 2009-05-08 01:21:01 as along with 20 people and 2 groups torfinnnome hzoltan darian n00c polivares idonaldson tonamswish humburg Thaverkamp natstreet druvus stajich cassj WanderingAengus rschulz jfr sconlan reyez guhjy vega Bioinformatics Mycology
	Genome-Wide Mapping of in Vivo Protein-DNA Interactions [My Copy] Science, Vol. 316, No. 5830. (8 June 2007), pp. 1497-1502. by David S. Johnson, Ali Mortazavi, Richard M. Myers, Barbara Wold posted to chipseq peakcaller wold by ewilban1 on 2009-05-08 01:19:59 as along with 24 people and 5 groups oannes daforerog tonamswish aprasad jo_davies aalibes balicea andersbj JeremyZucker aswin kengg giovanni cjeans ghattem zwang epigenetics biomcgary george_g cabbagezs Jporci blobbybirdman caseybrown emptyhb dquest Bioinformatics microRNA Marcotte_Lab UH - Computational Biology Myxo group
	Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq data. [My Copy] Nucleic acids research, Vol. 36, No. 16. (6 September 2008), pp. 5221-5231. by R. Jothi, S. Cuddapah, A. Barski, K. Cui, K. Zhao posted to chipseq peakcaller sissrs by ewilban1 on 2009-05-08 01:19:05 as along with 10 people tonamswish talponer polivares guhjy mcm Eroslavochka inesdesantiago mdperry sebastien_vigneau idonaldson

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chipseq	41
peakcaller	22
review	8
fun	7
histone	7
wold	3
bioinformatics	2
tiroe	2
rna_polymerase	2
stat1	2
findpeaks	2
chromatin	2
genome-viewer	2
glitr	1
criticism	1
xset	1
circadian-rhythms	1
population-genomics	1
motif	1
metachip	1
pol_ii	1
quest	1
chromasig	1
visualization	1
paulinella	1
chip	1
endosymbiont	1
modeling	1
transcription_fractor	1
peakseq	1
sissrs	1
input_control	1
variation	1
hmm	1
sicer	1
faire	1
useq	1
chips	1
transcriptome	1
pseudogene-accumulation	1
poisson	1
trypanosome	1
genetrack	1
r	1
model-organism	1
ceas	1
mikkelsen	1
rev	1
haloarchaea	1
bias	1
nucleosome	1
background	1
cisgenome	1
salmonella	1
nrc-1	1
next-gen	1
e-range	1
insilico	1
fseq	1
nrsf	1
hierarchical	1

ewilban1's chipseq [41 articles] Export

ewilban1's tags