Tag nextgen [98 articles] Export

Recent papers classified by the tag nextgen.

	Computation for ChIP-seq and RNA-seq studies. [My Copy] Nature methods, Vol. 6, No. 11 Suppl. (15 November 2009), pp. S22-S32. by Shirley Pepke, Barbara Wold, Ali Mortazavi posted to transcriptome transcriptionfactor software rnaseq review nextgen chipseq bioinformatics by stubrown on 2009-11-13 14:46:47 as along with 23 people and 2 groups urgi Jporci pst epigenetics timflutre molnet-mna Vincent_Rouilly guhjy cajunsushi mpizbioinfo hzoltan robertrentzsch xingxu oannes74 tonamswish inesdesantiago Baschl polivares jwfoley druvus GeeSharpMinor chvlyl heliopais molnet-macs Orengo Group Journal Picks
	BreakDancer: an algorithm for high-resolution mapping of genomic structural variation [My Copy] Nature Methods, Vol. 6, No. 9. (09 August 2009), pp. 677-681. by Ken Chen, John W. Wallis, Michael D. McLellan, et al.David E. Larson, Joelle M. Kalicki, Craig S. Pohl, Sean D. McGrath, Michael C. Wendl, Qunyuan Zhang, Devin P. Locke, Xiaoqi Shi, Robert S. Fulton, Timothy J. Ley, Richard K. Wilson, Li Ding, Elaine R. Mardis posted to whole-genome-seq translocation somatic_mutations software nextgen gene-fusion deletions cnv bioinformatics by stubrown on 2009-11-13 14:44:29 as along with 13 people and 1 group n00c Leaflet heliopais dakelley fenghezi daed natstreet druvus sitalange qayub gdb jasontsai danmaclean Journal picks
	CNV-seq, a new method to detect copy number variation using high-throughput sequencing. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 80. by Chao Xie, Martti T. Tammi posted to whole-genome-seq nextgen cnv bioinformatics by stubrown on 2009-11-03 16:26:43 as along with 18 people and 1 group hzoltan biovils cthachuk GustavoLacerda n00c darian bmenten natstreet sameersoi svenrahmann xiechao semrich pkonings rdiaz dswan sleepingcell neils magusina Bioinformatics
	Mapping translocation breakpoints by next-generation sequencing [My Copy] Genome Research, Vol. 18, No. 7. (7 July 2008), pp. 1143-1149. by Wei Chen, Vera Kalscheuer, Andreas Tzschach, et al.Corinna Menzel, Reinhard Ullmann, Marcel H. Schulz, Fikret Erdogan, Na Li, Zofia Kijas, Ger Arkesteijn, Isidora L. Pajares, Margret Goetz-Sothmann, Uwe Heinrich, Imma Rost, Andreas Dufke, Ute Grasshoff, Birgitta Glaeser, Martin Vingron, Hilger H. Ropers posted to whole-genome-seq translocation nextgen mutations bioinformatics by stubrown on 2009-11-03 16:23:58 as along with 7 people darian sameersoi nuin usagi-kirin caseybrown APRegier Neeperando
	Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 6. (10 February 2009), pp. 1886-1891. by Qi Zhao, Otavia L. Caballero, Samuel Levy, et al.Brian J. Stevenson, Christian Iseli, Sandro J. de Souza, Pedro A. Galante, Dana Busam, Margaret A. Leversha, Kalyani Chadalavada, Yu-Hui Rogers, J. Craig Venter, Andrew J. G. Simpson, Robert L. Strausberg posted to translocation transcriptome somatic_mutations rnaseq nextgen mutations cancer by stubrown on 2009-11-03 15:56:06 as along with 2 people n00c xingxu
	CloudBurst: highly sensitive read mapping with MapReduce [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1363-1369. by Michael C. Schatz posted to nextgen mapreduce hadoop by walshtp on 2009-11-02 21:38:05 as along with 33 people and 2 groups joshdsullivan cthachuk hzoltan jfr idonaldson orzenil heliopais dakelley bozdagd agbiotec jandot guhjy n00c cymacs semrich nuin operon AlexBateman fgibson rschulz dswan mitko djkt humburg jmeppley coela vagoskar svenrahmann natstreet brianb Neeperando druvus neils KCL & UCL Bioinformatics Bioinformatics
	Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution. [My Copy] Nature, Vol. 461, No. 7265. (8 October 2009), pp. 809-813. by Sohrab P. Shah, Ryan D. Morin, Jaswinder Khattra, et al.Leah Prentice, Trevor Pugh, Angela Burleigh, Allen Delaney, Karen Gelmon, Ryan Guliany, Janine Senz, Christian Steidl, Robert A. Holt, Steven Jones, Mark Sun, Gillian Leung, Richard Moore, Tesa Severson, Greg A. Taylor, Andrew E. Teschendorff, Kane Tse, Gulisa Turashvili, Richard Varhol, René L. Warren, Peter Watson, Yongjun Zhao, Carlos Caldas, David Huntsman, Martin Hirst, Marco A. Marra, Samuel Aparicio posted to whole-genome-seq transcriptome somatic_mutations rnaseq nextgen mutations cancer by stubrown on 2009-11-02 14:16:53 as along with 13 people and 2 groups misonneh pst jwfoley chvlyl giovenko frohike brianb Zephyrus jsuchit mkiyer torfinnnome merpublic djkt Chinnaiyan Lab Journal picks
	LookSeq: A browser-based viewer for deep sequencing data [My Copy] Genome Research, Vol. 19, No. 11. (29 November 2009), pp. 2125-2132. by Heinrich M. Manske, Dominic P. Kwiatkowski posted to nextgen lookseq browser by fpattyn on 2009-09-30 14:11:51 as along with 27 people and 2 groups hzoltan darian dakelley tonamswish inesdesantiago Thaverkamp idonaldson heliopais owhitney GustavoLacerda ngehlenborg sandfire xianjun katholt stubrown orzenil operon guhjy kongl stajich n00c torfinnnome nuin kshameer neils druvus natstreet BergmanLab Mycology
	ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2607-2608. by Martin Morgan, Simon Anders, Michael Lawrence, Patrick Aboyoun, Herve Pages, Robert Gentleman posted to r ngs nextgen bioconductor by walshtp on 2009-09-26 13:19:31 as along with 14 people and 1 group manduca darian jforment fstrozzi rschulz djkt jmeppley dswan torfinnnome jamesmorris joaocarrico natstreet n00c druvus Bioinformatics Core Service
	Impact of the next generation DNA sequencers. [My Copy] International journal of clinical and experimental medicine, Vol. 2, No. 2. (2009), pp. 193-202. by Kikuya Kato posted to sequencing nextgen by jandot to the group Journal picks on 2009-09-22 15:39:37 as along with 4 people n00c dswan sitalange darian
	Mutation of FOXL2 in granulosa-cell tumors of the ovary. [My Copy] The New England journal of medicine, Vol. 360, No. 26. (25 June 2009), pp. 2719-2729. by Sohrab P. Shah, Martin Köbel, Janine Senz, et al.Ryan D. Morin, Blaise A. Clarke, Kimberly C. Wiegand, Gillian Leung, Abdalnasser Zayed, Erika Mehl, Steve E. Kalloger, Mark Sun, Ryan Giuliany, Erika Yorida, Steven Jones, Richard Varhol, Kenneth D. Swenerton, Dianne Miller, Philip B. Clement, Colleen Crane, Jason Madore, Diane Provencher, Peter Leung, Anna DeFazio, Jaswinder Khattra, Gulisa Turashvili, Yongjun Zhao, Thomas Zeng, Mark N. Glover, Barbara Vanderhyden, Chengquan Zhao, Christine A. Parkinson, Mercedes Jimenez-Linan, David D. Bowtell, Anne-Marie M. Mes-Masson, James D. Brenton, Samuel A. Aparicio, Niki Boyd, Martin Hirst, C. Blake Gilks, Marco Marra, David G. Huntsman posted to snp rnaseq nextgen mutations cancer bioinformatics by stubrown on 2009-09-21 20:59:09 as
	De novo transcriptome assembly with ABySS [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2872-2877. by Inanc Birol, Shaun D. Jackman, Cydney B. Nielsen, et al.Jenny Q. Qian, Richard Varhol, Greg Stazyk, Ryan D. Morin, Yongjun Zhao, Martin Hirst, Jacqueline E. Schein, Doug E. Horsman, Joseph M. Connors, Randy D. Gascoyne, Marco A. Marra, Steven J. M. Jones posted to software rnaseq nextgen mutations mapping_algorithms gene-fusion cancer bioinformatics assembly by stubrown on 2009-09-21 20:55:32 as along with 9 people dswan dakelley torfinnnome TRHvidsten rtogawa ramonvidal darshan GustavoLacerda druvus
	SNP discovery via 454 transcriptome sequencing [My Copy] The Plant Journal, Vol. 51, No. 5. (September 2007), pp. 910-918. by W. Brad Barbazuk, Scott J. Emrich, Hsin D. Chen, Li Li, Patrick S. Schnable posted to software snp rnaseq nextgen mutations bioinformatics 454 by stubrown on 2009-09-21 20:51:18 as along with 5 people n00c jlin orzenil guhjy natstreet
	An integrated genomic analysis of human glioblastoma multiforme. [My Copy] Science (New York, N.Y.), Vol. 321, No. 5897. (26 September 2008), pp. 1807-1812. by D. Williams Parsons, Siân Jones, Xiaosong Zhang, et al.Jimmy Cheng-Ho C. Lin, Rebecca J. Leary, Philipp Angenendt, Parminder Mankoo, Hannah Carter, I-Mei M. Siu, Gary L. Gallia, Alessandro Olivi, Roger McLendon, B. Ahmed Rasheed, Stephen Keir, Tatiana Nikolskaya, Yuri Nikolsky, Dana A. Busam, Hanna Tekleab, Luis A. Diaz, James Hartigan, Doug R. Smith, Robert L. Strausberg, Suely Kazue Nagahashi K. Marie, Sueli Mieko Oba M. Shinjo, Hai Yan, Gregory J. Riggins, Darell D. Bigner, Rachel Karchin, Nick Papadopoulos, Giovanni Parmigiani, Bert Vogelstein, Victor E. Velculescu, Kenneth W. Kinzler posted to targetedresequencing rnaseq nextgen mutations keypaper cancer by stubrown on 2009-09-21 19:51:18 as along with 15 people and 2 groups VGreiff Zephyrus zufar dolchan frohike caseybrown wimufi jfr srp33 renatomilani brianb shikin aheilbut songpku giovenko GeneGo Roswell Cancer Crosstalk
	High-resolution mapping of copy-number alterations with massively parallel sequencing. [My Copy] Nature methods, Vol. 6, No. 1. (30 January 2009), pp. 99-103. by Derek Y. Chiang, Gad Getz, David B. Jaffe, et al.Michael J. O'Kelly, Xiaojun Zhao, Scott L. Carter, Carsten Russ, Chad Nusbaum, Matthew Meyerson, Eric S. Lander posted to software nextgen cnv bioinformatics alignment by stubrown on 2009-09-21 18:05:39 as along with 6 people jfr Annab stsaft jbhiatt absterga xwbcn
	Transcriptome sequencing to detect gene fusions in cancer [My Copy] Nature, Vol. 458, No. 7234. (11 January 2009), pp. 97-101. by Christopher A. Maher, Chandan Kumar-Sinha, Xuhong Cao, et al.Shanker Kalyana-Sundaram, Bo Han, Xiaojun Jing, Lee Sam, Terrence Barrette, Nallasivam Palanisamy, Arul M. Chinnaiyan posted to rnaseq nextgen gene-fusion by stubrown on 2009-09-21 18:01:49 as along with 17 people hzoltan manduca ajbattle frohike torfinnnome jessopher guhjy jfr burak myzhang inesdesantiago dswan fenghezi jbhiatt mtagaya abizar xingxu
	Maximum likelihood genome assembly. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 16, No. 8. (August 2009), pp. 1101-1116. by Paul Medvedev, Michael Brudno posted to sequencing_technologies sequencing nextgen genomics by walshtp on 2009-09-21 09:33:13 as along with 7 people dakelley nuin djkt n00c natstreet druvus operon
	Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex [My Copy] Nature Methods, Vol. 5, No. 3. (10 February 2008), pp. 235-237. by Micah Hamady, Jeffrey J. Walker, J. Kirk Harris, Nicholas J. Gold, Rob Knight posted to nextgen barcode 454 by stubrown on 2009-09-17 21:31:16 as along with 10 people and 1 group natstreet druvus sandfire jlgreen jbhiatt skembel pdexheimer guhjy slevy03 sconlan iSEEM
	Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms. [My Copy] Nucleic acids research, Vol. 36, No. 21. (1 December 2008), e141. by Peter A. 't Hoen, Yavuz Ariyurek, Helene H. Thygesen, et al.Erno Vreugdenhil, Rolf H. Vossen, Renée X. de Menezes, Judith M. Boer, Gert-Jan J. van Ommen, Johan T. den Dunnen posted to rnaseq nextgen by stubrown on 2009-09-17 20:14:15 as along with 25 people manduca hzoltan GustavoLacerda GeeSharpMinor n00c guhjy hcoller daed poschm stsaft azazello jfr slevy03 felsani usagi-kirin shikin coela cthachuk ojabado caseybrown abizar natstreet druvus rschulz pengchy
	A pyrosequencing-tailored nucleotide barcode design unveils opportunities for large-scale sample multiplexing. [My Copy] Nucleic acids research, Vol. 35, No. 19. (2007) by Poornima Parameswaran, Roxana Jalili, Li Tao, et al.Shadi Shokralla, Baback Gharizadeh, Mostafa Ronaghi, Andrew Z. Fire posted to nextgen barcode 454 by stubrown on 2009-09-17 20:11:21 as along with 8 people and 1 group manduca heliopais jlgreen mikheyev jbhiatt pdexheimer alexisfjdufresne slevy03 iSEEM
	Fast mapping of short sequences with mismatches, insertions and deletions using index structures. [My Copy] PLoS computational biology, Vol. 5, No. 9. (11 September 2009), e1000502. by Steve Hoffmann, Christian Otto, Stefan Kurtz, et al.Cynthia M. Sharma, Philipp Khaitovich, Jörg Vogel, Peter F. Stadler, Jörg Hackermüller posted to nextgen mapping by jandot on 2009-09-17 11:14:11 as along with 19 people and 4 groups cthachuk hzoltan darian nuin fenghezi behindtherabbit walshtp torfinnnome stubrown dswan polivares orzenil natstreet djkt jmcq n00c heliopais ppgardne druvus Bioinformatics BergmanLab iSEEM Journal picks
	TagDust--a program to eliminate artifacts from next generation sequencing data [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2839-2840. by Timo Lassmann, Yoshihide Hayashizaki, Carsten O. Daub posted to sequencing_technologies nextgen by walshtp on 2009-09-16 07:29:25 as along with 20 people and 1 group orzenil hzoltan chvlyl operon kshameer djkt rtogawa seb1 idonaldson nuin debasis jgill GeeSharpMinor sotacam torfinnnome heliopais jandot n00c rschulz druvus Journal picks
	Personalized copy number and segmental duplication maps using next-generation sequencing. [My Copy] Nature genetics, Vol. 41, No. 10. (30 October 2009), pp. 1061-1067. by Can Alkan, Jeffrey M. Kidd, Tomas Marques-Bonet, et al.Gozde Aksay, Francesca Antonacci, Fereydoun Hormozdiari, Jacob O. Kitzman, Carl Baker, Maika Malig, Onur Mutlu, S. Cenk Sahinalp, Richard A. Gibbs, Evan E. Eichler posted to segmental_duplication nextgen cnv by jandot to the group Journal picks on 2009-09-02 12:04:21 as along with 30 people ongenetics chvlyl leemachado daed gbenson n00c bozdagd dakelley sbmontgomery eshirdel merpublic shyamsg scmelton qayub natstreet fenghezi Annab djkt nuin xingxu jamesmorris rdiaz brant torfinnnome pkonings danmaclean daforerog frohike rschulz gangcai
	The ClinSeq Project: Piloting large-scale genome sequencing for research in genomic medicine. [My Copy] Genome research (5 August 2009) by Leslie G. Biesecker, James C. Mullikin, Flavia M. Facio, et al.Clesson Turner, Praveen F. Cherukuri, Robert W. Blakesley, Gerard G. Bouffard, Peter S. Chines, Pedro Cruz, Nancy F. Hansen, Jamie K. Teer, Baishali Maskeri, Alice C. Young, NISC Comparative Sequencing Program, Teri A. Manolio, Alexander F. Wilson, Toren Finkel, Paul Hwang, Andrew Arai, Alan T. Remaley, Vandana Sachdev, Robert Shamburek, Richard O. Cannon, Eric D. Green posted to nextgen clinical by jandot to the group Journal picks on 2009-09-01 10:46:22 as along with 7 people greg guhjy matusok giovanni jbhiatt aprasad frohike
	RazerS--fast read mapping with sensitivity control. [My Copy] Genome research, Vol. 19, No. 9. (10 September 2009), pp. 1646-1654. by David Weese, Anne-Katrin K. Emde, Tobias Rausch, Andreas Döring, Knut Reinert posted to nextgen mapping by jandot to the group Journal picks on 2009-09-01 10:34:48 as along with 6 people torfinnnome heliopais n00c reyez druvus natstreet
	RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. [My Copy] Genome research, Vol. 18, No. 9. (11 September 2008), pp. 1509-1517. by John C. Marioni, Christopher E. Mason, Shrikant M. Mane, Matthew Stephens, Yoav Gilad posted to rnaseq nextgen bioinformatics by stubrown on 2009-08-27 17:32:47 as along with 47 people and 2 groups zufar cthachuk hzoltan jwfoley heliopais debasis maren mtagaya mkiyer woodson8 jonilaserson burak Ayest ThomasDOtto huali n00c natstreet bandrewfox daed dandaman slevy03 pengchy felsani coela shikin fhalbrit inesdesantiago jmcq lp2 caseybrown jfr dakelley Ema balicea vega lusk semrich vmarshal fpattyn stajich giovanni ela503 Stew guhjy kengg shurjo GustavoLacerda SIMR bioinformatics Mycology
	Whole-Genome Mapping of Histone H3 Lys4 and 27 Trimethylations Reveals Distinct Genomic Compartments in Human Embryonic Stem Cells [My Copy] Cell Stem Cell, Vol. 1, No. 3. (13 September 2007), pp. 286-298. by X. Zhao, X. Han, J. Chew, et al.J. Liu, K. Chiu, A. Choo, Y. Orlov, W. Sung, A. Shahab, V. Kuznetsov posted to nextgen histone chipseq by stubrown on 2009-08-26 15:58:43 as along with 3 people RyuOgawa inesdesantiago jernst
	Global mapping of H3K4me3 and H3K27me3 reveals specificity and plasticity in lineage fate determination of differentiating CD4+ T cells. [My Copy] Immunity, Vol. 30, No. 1. (16 January 2009), pp. 155-167. by Gang Wei, Lai Wei, Jinfang Zhu, et al.Chongzhi Zang, Jane Hu-Li, Zhengju Yao, Kairong Cui, Yuka Kanno, Tae-Young Y. Roh, Wendy T. Watford, Dustin E. Schones, Weiqun Peng, Hong-Wei W. Sun, William E. Paul, John J. O'Shea, Keji Zhao posted to nextgen histone chipseq by stubrown on 2009-08-26 15:57:49 as along with 1 person ashkelon13
	Genomic tools for dissecting oncogenic transcriptional networks in human leukemia [My Copy] Leukemia, Vol. 23, No. 7. (22 January 2009), pp. 1236-1242. by T. Palomero, A. A. Ferrando posted to transcriptionfactor review nextgen histone chipseq by stubrown on 2009-08-25 19:43:10 as along with 1 person abizar
	A Strand-Specific RNA–Seq Analysis of the Transcriptome of the Typhoid Bacillus <italic>Salmonella</italic> Typhi [My Copy] PLoS Genet, Vol. 5, No. 7. (17 July 2009), e1000569. by Timothy T. Perkins, Robert A. Kingsley, Maria C. Fookes, et al.Paul P. Gardner, Keith D. James, Lu Yu, Samuel A. Assefa, Miao He, Nicholas J. Croucher, Derek J. Pickard, Duncan J. Maskell, Julian Parkhill, Jyoti Choudhary, Nicholas R. Thomson, Gordon Dougan posted to rnaseq nextgen by stubrown on 2009-08-25 15:33:42 as along with 5 people and 2 groups hzoltan fenghezi ghattem GeeSharpMinor ppgardne SIMR bioinformatics Journal picks
	Transcriptome of embryonic and neonatal mouse cortex by high-throughput RNA sequencing [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 31. (4 August 2009), pp. 12741-12746. by Xinwei Han, Xia Wu, Wen-Yu Chung, et al.Tao Li, Anton Nekrutenko, Naomi S. Altman, Gong Chen, Hong Ma posted to rnaseq nextgen by stubrown on 2009-08-25 15:31:58 as along with 4 people fenghezi manduca mbj daforerog
	Stem cell transcriptome profiling via massive-scale mRNA sequencing [My Copy] Nature Methods, Vol. 5, No. 7. (30 May 2008), pp. 613-619. by Nicole Cloonan, Alistair R. R. Forrest, Gabriel Kolle, et al.Brooke B. A. Gardiner, Geoffrey J. Faulkner, Mellissa K. Brown, Darrin F. Taylor, Anita L. Steptoe, Shivangi Wani, Graeme Bethel, Alan J. Robertson, Andrew C. Perkins, Stephen J. Bruce, Clarence C. Lee, Swati S. Ranade, Heather E. Peckham, Jonathan M. Manning, Kevin J. McKernan, Sean M. Grimmond posted to rnaseq nextgen by stubrown on 2009-08-25 15:28:25 as along with 22 people manduca hzoltan jwfoley heliopais jmanning2k cassj n00c burak natstreet poschm felsani jbhiatt vplagnol rschulz umit myourshaw megraw inesdesantiago GeeSharpMinor caseybrown guhjy gdb
	Transcriptome content and dynamics at single-nucleotide resolution [My Copy] Genome Biology, Vol. 9 (18 September 2008), 234. by Nicole Cloonan, Sean M. Grimmond posted to rnaseq nextgen by stubrown on 2009-08-25 15:27:21 as along with 2 people xingxu inesdesantiago
	Transcript length bias in RNA-seq data confounds systems biology. [My Copy] Biology direct, Vol. 4, No. 1. (16 April 2009), 14. by Alicia Oshlack, Matthew J. Wakefield posted to rnaseq normalization nextgen bioinformatics by stubrown on 2009-08-24 17:45:26 as along with 14 people and 1 group hzoltan manduca jwfoley juokcho debasis dswan jmcq guhjy woodson8 n00c ghattem xingxu cajunsushi bandrewfox SIMR bioinformatics
	Statistical inferences for isoform expression in RNA-Seq [My Copy] Bioinformatics, Vol. 25, No. 8. (15 April 2009), pp. 1026-1032. by Hui Jiang, Wing H. Wong posted to rnaseq nextgen by stubrown on 2009-08-24 17:44:17 as along with 16 people and 2 groups jwfoley hzoltan heliopais GustavoLacerda woodson8 ThomasDOtto stajich guhjy ghattem djkt shikin pengchy vplagnol rschulz jmcq GeeSharpMinor Mycology SIMR bioinformatics
	Mapping Accuracy of Short Reads from Massively Parallel Sequencing and the Implications for Quantitative Expression Profiling [My Copy] PLoS ONE, Vol. 4, No. 7. (28 July 2009), e6323. by Nicola Palmieri, Christian Schlötterer posted to rnaseq nextgen alignment by stubrown on 2009-08-24 17:27:29 as along with 16 people and 3 groups torfinnnome hzoltan darian debasis mqbphcw3 Thaverkamp PabloMarin jasontsai ThomasDOtto heliopais guhjy cisevol n00c natstreet druvus jbhiatt Journal picks JLab BergmanLab
	SOAP2: an improved ultrafast tool for short read alignment [My Copy] Bioinformatics, Vol. 25, No. 15. (1 August 2009), pp. 1966-1967. by Ruiqiang Li, Chang Yu, Yingrui Li, et al.Tak-Wah Lam, Siu-Ming Yiu, Karsten Kristiansen, Jun Wang posted to software nextgen bioinformatics alignment by stubrown on 2009-08-24 17:25:20 as along with 26 people and 6 groups hzoltan agbiotec torfinnnome natstreet cthachuk jforment GustavoLacerda adijr bozdagd polivares guhjy ollieredfernwork operon cassj adamjamesreid Stew jamselem dswan idonaldson TRHvidsten humburg djkt farhat n00c jmeppley druvus Bioinformatics Core Service BergmanLab Orengo Group Journal Picks Bioinformatics - CRUK Bioinformatics Journal picks
	Swift: primary data analysis for the Illumina Solexa sequencing platform [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2194-2199. by Nava Whiteford, Tom Skelly, Christina Curtis, et al.Matt E. Ritchie, Andrea Lohr, Alexander W. Zaranek, Irina Abnizova, Clive Brown posted to software nextgen illumina bioinformatics by lh49 on 2009-08-23 10:25:56 as along with 21 people and 4 groups heliopais hzoltan dakelley sotacam djkt rtogawa cassj dswan torfinnnome rschulz natstreet druvus jasontsai jmeppley ghattem nuin polivares n00c aprasad niallhaslam idoerg Bioinformatics BergmanLab SIMR bioinformatics Journal picks
	Insights from genomic profiling of transcription factors [My Copy] Nature Reviews Genetics, Vol. 10, No. 9. (11 August 2009), pp. 605-616. by Peggy J. Farnham posted to transcriptionfactor review nextgen chipseq by stubrown on 2009-08-21 20:37:28 as along with 17 people and 2 groups heliopais inesdesantiago fenghezi nklee samanthacooper fpattyn druvus frohike qayub megraw TRHvidsten mkiyer ericrpaquet ilyashl jbhiatt idonaldson danmaclean Journal picks Chinnaiyan Lab
	What would you do if you could sequence everything? [My Copy] Nature Biotechnology, Vol. 26, No. 10. (01 October 2008), pp. 1125-1133. by Avak Kahvejian, John Quackenbush, John F. Thompson posted to review nextgen by stubrown on 2009-08-21 20:35:12 as along with 19 people n00c hzoltan seb1 inesdesantiago heliopais installe Annab jfr Borelli jbhiatt Pascalichouchou bertelsen frohike natstreet druvus reyez alexknight psique GeeSharpMinor
	Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 9. (3 March 2009), pp. 3264-3269. by Moran Yassour, Tommy Kaplan, Hunter B. Fraser, et al.Joshua Z. Levin, Jenna Pfiffner, Xian Adiconis, Gary Schroth, Shujun Luo, Irina Khrebtukova, Andreas Gnirke, Chad Nusbaum, Dawn-Anne Thompson, Nir Friedman, Aviv Regev posted to rnaseq nextgen by stubrown on 2009-08-21 20:31:30 as along with 8 people and 1 group hzoltan fstrozzi GustavoLacerda jfr stajich GeeSharpMinor jmcq provero Mycology
	Targeted capture and massively parallel sequencing of 12 human exomes. [My Copy] Nature, Vol. 461, No. 7261. (10 September 2009), pp. 272-276. by Sarah B. Ng, Emily H. Turner, Peggy D. Robertson, et al.Steven D. Flygare, Abigail W. Bigham, Choli Lee, Tristan Shaffer, Michelle Wong, Arindam Bhattacharjee, Evan E. Eichler, Michael Bamshad, Deborah A. Nickerson, Jay Shendure posted to targetedresequencing nextgen keypaper by stubrown on 2009-08-21 16:54:57 as along with 23 people and 1 group seb1 hzoltan liqbbi chvlyl ongenetics psique fenghezi n00c dswan jmanning2k torfinnnome GeeSharpMinor pkonings neils djkt daforerog PabloMarin danmaclean xingxu vplagnol druvus jandot frohike Journal picks
	Mapping and quantifying mammalian transcriptomes by RNA-Seq. [My Copy] Nature methods, Vol. 5, No. 7. (30 July 2008), pp. 621-628. by Ali Mortazavi, Brian A. A. Williams, Kenneth Mccue, Lorian Schaeffer, Barbara Wold posted to rnaseq nextgen keypaper by stubrown on 2009-08-20 02:09:50 as along with 42 people and 2 groups manduca cthachuk hzoltan jwfoley heliopais juokcho aktas debasis bertelsen idonaldson darian dswan ewilban1 mtagaya woodson8 burak jonilaserson inesdesantiago ThomasDOtto n00c GustavoG ghattem vplagnol druvus cfvillalta vmsr poschm dandaman shikin jmcq rschulz lp2 tmcphillips jfr myourshaw megraw GeeSharpMinor caseybrown xingxu guhjy shurjo gdb Bioinformatics SIMR bioinformatics
	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 nextgen keypaper histone chipseq by stubrown on 2009-08-20 02:04:10 as along with 22 people and 2 groups rsaito darian tonamswish fpattyn hagechouchin443 absterga ewilban1 suizifish jochenG caseybrown raylim jernst giovenko guhjy kengg sebastien_vigneau jackjackjjj ghattem epigenetics ksha inesdesantiago dquest JLab Plantandetc
	Improved base calling for the Illumina Genome Analyzer using machine learning strategies [My Copy] Genome Biology, Vol. 10, No. 8. (14 August 2009), R83. by Martin Kircher, Udo Stenzel, Janet Kelso posted to nextgen mpi illumina ibis duitsland calling base by fpattyn on 2009-08-19 21:22:03 as along with 7 people and 1 group seb1 djkt reyez danmaclean ppgardne n00c druvus Journal picks
	Managing and Analyzing Next-Generation Sequence Data [My Copy] PLoS Comput Biol, Vol. 5, No. 6. (26 June 2009), e1000369. by Brent G. Richter, David P. Sexton posted to review nextgen by stubrown on 2009-08-19 17:15:30 as along with 43 people and 3 groups burak idoerg Geknitics cthachuk hzoltan chvlyl sameersoi hpaces gdv GeeSharpMinor idonaldson darian daveGerrard tharris Yanno inesdesantiago jcaddy agbiotec humburg Zephyrus daforerog GustavoLacerda torfinnnome natstreet polivares orzenil kongl guhjy druvus n00c leemond31 nuin operon jasontsai jmeppley rdiaz michaelbarton dswan reyez kshameer TRHvidsten djkt ppgardne BergmanLab Bioinformatics Journal picks
	The Sequence Alignment/Map format and SAMtools [My Copy] Bioinformatics, Vol. 25, No. 16. (15 August 2009), pp. 2078-2079. by Heng Li, Bob Handsaker, Alec Wysoker, et al.Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin, 1000 Genome Project Data Processing Subgroup posted to software nextgen keypaper by stubrown on 2009-08-19 17:14:24 as along with 27 people and 2 groups cthachuk hzoltan seb1 heliopais urgi idonaldson GustavoLacerda cassj kshameer ciax polivares carlosjavierna jandot katholt jmcq guhjy orzenil jasontsai operon farhat AlexBateman chrisamiller nuin n00c natstreet sandfire druvus BergmanLab Journal picks
	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 transcriptionfactor nextgen keypaper chipseq by stubrown on 2009-08-19 17:10:38 as along with 13 people and 1 group absterga samanthacooper ewilban1 fpattyn polivares caseybrown guhjy vega kengg ghattem slevy03 dquest raiyar Plantandetc
	Identifying Positioned Nucleosomes with Epigenetic Marks in Human from ChIP-Seq [My Copy] BMC Genomics, Vol. 9, No. 1. (2008), 537. by Yong Zhang, Hyunjin Shin, Jun Song, Ying Lei, X. Shirley Liu posted to software nucleosome-position nextgen histone chipseq by stubrown on 2009-08-19 17:06:48 as along with 6 people antonkratz hagechouchin443 inesdesantiago polivares idonaldson caseybrown
	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 software nextgen histone chipseq by stubrown on 2009-08-19 17:04:05 as along with 12 people and 2 groups hzoltan hagechouchin443 ashraya cassj guhjy humburg ewilban1 gdb inesdesantiago fenghezi ghattem polivares SIMR bioinformatics BergmanLab

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454	17
chipseq	16
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cancer	8
histone	8
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keypaper	6
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bioconductor	1
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esp	1
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