stubrown's library 63 articles Export

	A Simple Cipher Governs DNA Recognition by TAL Effectors [My Copy] Science (16 November 2009), 1178817. by Matthew J. Moscou, Adam J. Bogdanove posted to transcriptionfactor motif bioinformatics by stubrown on 2009-11-17 18:03:35 as along with 1 person Dnogas
	Computation for ChIP-seq and RNA-seq studies [My Copy] Nature Methods, Vol. 6, No. 11s. (15 October 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 22 people and 2 groups 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 12 people and 1 group 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 Holger H. Schulz, Fikret Erdogan, Na Li, Zofia Kijas, Ger Arkesteijn, Isidora Lopez 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 6 people sameersoi nuin usagi-kirin caseybrown APRegier Neeperando
	A 1q44 deletion, paternal UPD of chromosome 2 and a deletion due to a complex translocation detected in children with abnormal phenotypes using new SNP array technology. [My Copy] Cytogenetic and genome research, Vol. 124, No. 1. (2009), pp. 94-101. by B. A. Talseth-Palmer, N. A. Bowden, C. Meldrum, et al.J. Nicholl, E. Thompson, K. Friend, J. Liebelt, D. Bratkovic, E. Haan, S. Yu, R. J. Scott posted to translocation snp-chip snp mutations genotyping deletions cnv bioinformatics by stubrown on 2009-11-03 16:21:23 as
	COPA-cancer outlier profile analysis. [My Copy] Bioinformatics (7 August 2006) by James W W. Macdonald, Debashis Ghosh posted to translocation software cancer bioinformatics by stubrown on 2009-11-03 16:12:18 as along with 3 people wimufi jfr shigepong
	Gene deregulation and spatial genome reorganization near breakpoints prior to formation of translocations in anaplastic large cell lymphoma [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 14. (7 April 2009), pp. 5831-5836. by Stephan Mathas, Stephan Kreher, Karen J. Meaburn, et al.Korinna Jöhrens, Björn Lamprecht, Chalid Assaf, Wolfram Sterry, Marshall E. Kadin, Masanori Daibata, Stefan Joos, Michael Hummel, Harald Stein, Martin Janz, Ioannis Anagnostopoulos, Evelin Schrock, Tom Misteli, Bernd Dörken posted to translocation somatic_mutations cancer by stubrown on 2009-11-03 16:11:01 as along with 1 person chunyi
	Chromosomal instability mediated by non-B DNA: cruciform conformation and not DNA sequence is responsible for recurrent translocation in humans. [My Copy] Genome research, Vol. 19, No. 2. (February 2009), pp. 191-198. by Hidehito Inagaki, Tamae Ohye, Hiroshi Kogo, et al.Takema Kato, Hasbaira Bolor, Mariko Taniguchi, Tamim H. Shaikh, Beverly S. Emanuel, Hiroki Kurahashi posted to translocation palindrome bioinformatics by stubrown on 2009-11-03 16:08:42 as along with 1 person LHON
	Unexpected complexity at breakpoint junctions in phenotypically normal individuals and mechanisms involved in generating balanced translocations t(1;22)(p36;q13). [My Copy] Genome research, Vol. 18, No. 11. (November 2008), pp. 1733-1742. by Marzena Gajecka, Andrew J. Gentles, Albert Tsai, et al.David Chitayat, Katherine L. Mackay, Caron D. Glotzbach, Michael R. Lieber, Lisa G. Shaffer posted to translocation keypaper bioinformatics by stubrown on 2009-11-03 16:04:43 as along with 1 person Archaeogenetics
	Deregulated expression of cytokine receptor gene, CRLF2, is involved in lymphoid transformation in B-cell precursor acute lymphoblastic leukemia [My Copy] Blood, Vol. 114, No. 13. (24 September 2009), pp. 2688-2698. by Lisa J. Russell, Melania Capasso, Inga Vater, et al.Takashi Akasaka, Olivier A. Bernard, Maria J. Calasanz, Thiruppavaii Chandrasekaran, Elise Chapiro, Stephan Gesk, Mike Griffiths, David S. Guttery, Claudia Haferlach, Lana Harder, Olaf Heidenreich, Julie Irving, Lyndal Kearney, Florence Nguyen-Khac, Lee Machado, Lynne Minto, Aneela Majid, Anthony V. Moorman, Heather Morrison, Vikki Rand, Jonathan C. Strefford, Claire Schwab, Holger Tonnies, Martin J. S. Dyer, Reiner Siebert, Christine J. Harrison posted to translocation cancer by stubrown on 2009-11-03 16:01:13 as along with 1 person leemachado
	Genetic aberrations in glioblastoma multiforme: translocation of chromosome 10 in an O-2A-like cell line. [My Copy] British journal of cancer, Vol. 79, No. 5-6. (February 1999), pp. 724-731. by X. Mao, T. A. Jones, I. Tomlinson, et al.A. J. Rowan, L. I. Fedorova, A. V. Zelenin, J. I. Mao, N. J. Gutowski, M. Noble, D. Sheer posted to translocation cancer by stubrown on 2009-11-03 15:59:45 as along with 1 person srp33
	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
	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
	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 : for cell and molecular biology, 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] Nat Meth, Vol. 6, No. 1. (30 November 2008), pp. 99-103. by Derek Y. Chiang, Gad Getz, David B. Jaffe, et al.Michael J. T. 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 4 people 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
	Copy number variants, diseases and gene expression [My Copy] Hum. Mol. Genet., Vol. 18, No. R1. (15 April 2009), pp. R1-8. by Charlotte N. Henrichsen, Evelyne Chaignat, Alexandre Reymond posted to cnv by stubrown on 2009-09-21 17:49:19 as along with 5 people guhjy jdbowes giovanni pkonings rdiaz
	Segmental copy number variation shapes tissue transcriptomes. [My Copy] Nature genetics (8 March 2009) by Charlotte N N. Henrichsen, Nicolas Vinckenbosch, Sebastian Zöllner, et al.Evelyne Chaignat, Sylvain Pradervand, Frédéric Schütz, Manuel Ruedi, Henrik Kaessmann, Alexandre Reymond posted to cnv by stubrown on 2009-09-21 17:46:51 as along with 11 people leemachado absterga lwaldron psique bertrandservin fenghezi megraw djkt rdiaz daforerog buyske
	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 24 people 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 7 people and 1 group 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 software nextgen mapping_algorithms bioinformatics alignment by stubrown on 2009-09-14 19:27:07 as along with 19 people and 4 groups cthachuk hzoltan darian nuin fenghezi behindtherabbit jandot walshtp torfinnnome dswan polivares orzenil natstreet djkt jmcq n00c heliopais ppgardne druvus Bioinformatics BergmanLab iSEEM Journal picks
	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 46 people and 2 groups 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 21 people 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
	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 18 people 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. (16 August 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
	Targeted deletion of the genes encoding NTH1 and NEIL1 DNA N-glycosylases reveals the existence of novel carcinogenic oxidative damage to DNA☆ [My Copy] DNA Repair, Vol. 8, No. 7. (04 July 2009), pp. 786-794. by Michael K. Chan, Maria T. Ocampo-Hafalla, Vladimir Vartanian, et al.Pawel Jaruga, Güldal Kirkali, Karen L. Koenig, Stuart Brown, R. Stephen Lloyd, Miral Dizdaroglu, George W. Teebor posted to teebor dnarepair bioinformatics by stubrown on 2009-08-21 15:11:55 as
	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 41 people and 2 groups 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
	Sequence logos: a new way to display consensus sequences. [My Copy] Nucleic acids research, Vol. 18, No. 20. (25 October 1990), pp. 6097-6100. by T. D. Schneider, R. M. Stephens posted to motif keypaper bioinformatics by stubrown on 2009-08-20 02:00:18 as along with 8 people and 1 group mgomes GustavoLacerda calderonv hplatero analogAI indigoviolet yevishere austin EisenLab
	Managing and analyzing next-generation sequence data. [My Copy] PLoS computational biology, 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 41 people and 3 groups 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
	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 visualization software nextgen by stubrown on 2009-08-19 17:12:41 as along with 27 people and 2 groups hzoltan darian dakelley tonamswish inesdesantiago Thaverkamp idonaldson heliopais owhitney GustavoLacerda ngehlenborg sandfire fpattyn xianjun katholt orzenil operon guhjy kongl stajich n00c torfinnnome nuin kshameer neils druvus natstreet BergmanLab Mycology
	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

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nextgen	51
rnaseq	21
bioinformatics	19
software	19
chipseq	16
translocation	10
cancer	9
keypaper	8
mutations	8
review	8
alignment	7
histone	7
cnv	6
transcriptionfactor	5
somatic_mutations	4
whole-genome-seq	4
454	3
gene-fusion	3
snp	3
transcriptome	3
altsplice	2
barcode	2
deletions	2
mapping_algorithms	2
motif	2
normalization	2
targetedresequencing	2
assembly	1
cisgenome	1
dnarepair	1
genotyping	1
macs	1
maq	1
nucleosome-position	1
palindrome	1
snp-chip	1
teebor	1
visualization	1

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