Tag deep_sequencing [61 articles] Export

Recent papers classified by the tag deep_sequencing.

	The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line [My Copy] Nature Genetics, Vol. 41, No. 5. (19 April 2009), pp. 553-562. posted to transcription_factor leukemia differentiation deep_sequencing complex_networks by samubernard on 2009-12-13 12:08:21 as along with 18 people mamitamura thegoose schwartzjmc rdiaz rsaito guhjy hagechouchin443 gdb tonamswish burak YukaH coela mtagaya bertelsen xingxu TRHvidsten renatomilani antonkratz
	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 deep_sequencing copy-number by jfr on 2009-11-25 14:59:37 as along with 6 people Annab stubrown stsaft jbhiatt absterga xwbcn
	Limitations and possibilities of small RNA digital gene expression profiling [My Copy] Nature Methods In Nat Meth, Vol. 6, No. 7. (01 July 2009), pp. 474-476. by Sam E. V. Linsen, Elzo de Wit, Georges Janssens, et al.Sheila Heater, Laura Chapman, Rachael K. Parkin, Brian Fritz, Stacia K. Wyman, Ewart de Bruijn, Emile E. Voest, Scott Kuersten, Muneesh Tewari, Edwin Cuppen posted to technology mirna deep_sequencing by jfr on 2009-11-25 11:15:03 as along with 9 people and 2 groups manduca vingron pengchy guhjy lp2 timhubbard stajich gdb fpattyn RGASP Mycology
	Ultrafast and memory-efficient alignment of short DNA sequences to the human genome [My Copy] Genome Biology, Vol. 10, No. 3. (2009), R25. by Ben Langmead, Cole Trapnell, Mihai Pop, Steven Salzberg posted to software read_mapping deep_sequencing by jfr on 2009-11-19 11:28:31 as along with 39 people and 4 groups oannes mijam nuin hzoltan cthachuk darshan fstrozzi adijr debasis bozdagd polivares torfinnnome n00c talponer jmcq rschulz ghattem operon humburg idonaldson mmartin skembel dquest heliopais djkt GeeSharpMinor bertelsen darian semrich dakelley idoerg vmsr hpaces admash pdexheimer mhamada fpattyn natstreet druvus BergmanLab SIMR bioinformatics iSEEM Notre Dame Bioinformatics
	ABySS: a parallel assembler for short read sequence data. [My Copy] Genome research, Vol. 19, No. 6. (1 June 2009), pp. 1117-1123. by Jared T. Simpson, Kim Wong, Shaun D. Jackman, Jacqueline E. Schein, Steven J. Jones, Inanç Birol posted to software read_mapping deep_sequencing by jfr on 2009-11-19 11:26:57 as along with 27 people and 2 groups darian cthachuk hzoltan ramonvidal orzenil pachorip GustavoLacerda jonilaserson operon polivares reyez jasontsai n00c humburg dakelley jessopher idonaldson robsyme neils natstreet AaronDarling druvus rpatward dswan stajich jbhiatt erikarner BergmanLab Mycology
	SHRiMP: Accurate Mapping of Short Color-space Reads [My Copy] PLoS Comput Biol, Vol. 5, No. 5. (22 May 2009), e1000386. by Stephen M. Rumble, Phil Lacroute, Adrian V. Dalca, Marc Fiume, Arend Sidow, Michael Brudno posted to software read_mapping deep_sequencing by jfr on 2009-11-18 13:06:08 as along with 23 people and 4 groups idonaldson heliopais cthachuk hzoltan bozdagd ilanc burak guhjy djkt trfield n00c natstreet adijr druvus Stew farhat humburg kshameer operon stajich GeeSharpMinor AlexBateman barry Bioinformatics - CRUK Mycology Journal picks Bioinformatics
	ProbeMatch: rapid alignment of oligonucleotides to genome allowing both gaps and mismatches [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1424-1425. by You Jung Kim, Nikhil Teletia, Victor Ruotti, et al.Christopher A. Maher, Arul M. Chinnaiyan, Ron Stewart, James A. Thomson, Jignesh M. Patel posted to software read_mapping deep_sequencing by jfr to the group Bioinformatics on 2009-11-15 15:51:57 as along with 14 people and 1 group bsamal Julien_Fayolle mmartin n00c guhjy nuin idonaldson AlexBateman bmajoros humburg Thaverkamp druvus svenrahmann djkt Journal picks
	A transcriptional sketch of a primary human breast cancer by 454 deep sequencing. [My Copy] BMC genomics, Vol. 10, No. 1. (2009), 163. by Alessandro Guffanti, Michele Iacono, Paride Pelucchi, et al.Namshin Kim, Giulia Soldà, Larry J. Croft, Ryan J. Taft, Ermanno Rizzi, Marjan Askarian-Amiri, Raoul J. Bonnal, Maurizio Callari, Flavio Mignone, Graziano Pesole, Giovanni Bertalot, Luigi Rossi R. Bernardi, Alberto Albertini, Christopher Lee, John S. Mattick, Ileana Zucchi, Gianluca De Bellis posted to deep_sequencing breast_cancer 454 by jfr on 2009-11-15 14:36:27 as along with 4 people guhjy jonilaserson fenghezi alessandro_guffanti
	How to map billions of short reads onto genomes. [My Copy] Nature biotechnology, Vol. 27, No. 5. (01 May 2009), pp. 455-457. by Cole Trapnell, Steven L. Salzberg posted to software review read_mapping deep_sequencing by jfr to the group Bioinformatics on 2009-11-10 17:28:25 as along with 31 people and 4 groups frohike agbiotec burak cthachuk hzoltan tonamswish heliopais giovenko torfinnnome daforerog jonilaserson mkiyer Annab darian polivares ghattem kiekyon n00c GeeSharpMinor guhjy nuin reyez orzenil Thaverkamp natstreet druvus fenghezi Stew inesdesantiago idonaldson neils Chinnaiyan Lab BergmanLab SIMR bioinformatics Bioinformatics - CRUK
	mRNA-Seq whole-transcriptome analysis of a single cell [My Copy] Nature Methods, Vol. 6, No. 5. (06 April 2009), pp. 377-382. by Fuchou Tang, Catalin Barbacioru, Yangzhou Wang, et al.Ellen Nordman, Clarence Lee, Nanlan Xu, Xiaohui Wang, John Bodeau, Brian B. Tuch, Asim Siddiqui, Kaiqin Lao, M. Azim Surani posted to technology single_cell mrna-seq deep_sequencing by jfr on 2009-11-09 14:42:04 as along with 16 people hzoltan inesdesantiago heliopais manduca debasis Vincent_Rouilly mtagaya woodson8 gdb guhjy kintoki fenghezi absterga jbhiatt pengchy sleepingcell
	Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embedded (FFPE) tumor tissues for copy-number- and mutation-analysis. [My Copy] PloS one, Vol. 4, No. 5. (2009) by Michal R. Schweiger, Martin Kerick, Bernd Timmermann, et al.Marcus W. Albrecht, Tatjana Borodina, Dmitri Parkhomchuk, Kurt Zatloukal, Hans Lehrach posted to technology mutation ffpe deep_sequencing copy-number by jfr on 2009-11-08 23:11:35 as along with 1 person reyez
	Power of deep, all-exon resequencing for discovery of human trait genes. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 10. (10 March 2009), pp. 3871-3876. by Gregory V. Kryukov, Alexander Shpunt, John A. Stamatoyannopoulos, Shamil R. Sunyaev posted to deep_sequencing by jfr on 2009-11-02 16:06:33 as along with 5 people daforerog jsatkosk guhjy lp2 bpcusack
	Sense from sequence reads: methods for alignment and assembly [My Copy] Nature Methods, Vol. 6, No. 11s. (15 October 2009), pp. S6-S12. by Paul Flicek, Ewan Birney posted to review deep_sequencing by venancio on 2009-10-30 18:43:43 as along with 16 people and 1 group claire_jubin n00c idoerg ajsferreira pst owenlancaster robertrentzsch oannes74 Thaverkamp jasontsai natstreet seb1 druvus chvlyl GeeSharpMinor desany Orengo Group 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 web_viewer deep_sequencing by xianjun on 2009-09-30 00:32:39 as along with 28 people and 2 groups humburg hzoltan darian dakelley tonamswish inesdesantiago Thaverkamp idonaldson heliopais owhitney GustavoLacerda ngehlenborg sandfire fpattyn katholt stubrown orzenil operon guhjy kongl stajich n00c torfinnnome nuin kshameer neils druvus natstreet BergmanLab Mycology
	MicroRNA Discovery and Profiling in Human Embryonic Stem Cells by Deep Sequencing of Small RNA Libraries [My Copy] Stem Cells, Vol. 26, No. 10. (1 October 2008), pp. 2496-2505. by Merav Bar, Stacia K. Wyman, Brian R. Fritz, et al.Junlin Qi, Kavita S. Garg, Rachael K. Parkin, Evan M. Kroh, Ausra Bendoraite, Patrick S. Mitchell, Angelique M. Nelson, Walter L. Ruzzo, Carol Ware, Jerald P. Radich, Robert Gentleman, Hannele Ruohola-Baker, Muneesh Tewari posted to stem microrna embryonic_stem_cells deep_sequencing by tonamswish to the group microRNA on 2009-09-15 14:28:02 as along with 5 people heliopais ealloza valeriehilgers myzhang inesdesantiago
	Footprints by deep sequencing [My Copy] Nat Meth, Vol. 6, No. 4. (01 April 2009), pp. 254-255. by Gordon Hager posted to deep_sequencing by tonamswish on 2009-09-11 18:35:21 as along with 1 person coela
	Repertoire of bovine miRNA and miRNA-like small regulatory RNAs expressed upon viral infection. [My Copy] PloS one, Vol. 4, No. 7. (27 July 2009), e6349. by Evgeny A. Glazov, Kritaya Kongsuwan, Wanchai Assavalapsakul, Paul F. Horwood, Neena Mitter, Timothy J. Mahony posted to cow deep_sequencing microrna by heliopais to the group microRNA on 2009-08-01 15:50:35 as along with 2 people fstrozzi samgj
	Expression profiling of microRNAs by deep sequencing [My Copy] Brief Bioinform, Vol. 10, No. 5. (30 March 2009), pp. bbp019-497. by Chad J. Creighton, Jeffrey G. Reid, Preethi H. Gunaratne posted to deep_sequencing microrna microrna_profiling by heliopais to the group microRNA on 2009-07-30 15:20:12 as along with 9 people hzoltan fishtank guhjy reyez TRHvidsten natstreet druvus nuin cassj
	Characterization of microRNAs in cephalochordates reveals a correlation between microRNA repertoire homology and morphological similarity in chordate evolution. [My Copy] Evolution & development, Vol. 11, No. 1. (b 2009), pp. 41-49. by Z. Dai, Z. Chen, H. Ye, et al.L. Zhou, L. Cao, Y. Wang, S. Peng, L. Chen posted to deep_sequencing evolution microrna by heliopais to the group microRNA on 2009-07-30 10:48:43 as along with 1 person samgj
	Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor-independent, Dicer-dependent small RNAs. [My Copy] Genes & development, Vol. 22, No. 20. (15 October 2008), pp. 2773-2785. by J. E. Babiarz, J. G. Ruby, Y. Wang, D. P. Bartel, R. Blelloch posted to deep_sequencing dgcr8 dicer dicer-knockout drosha microrna by heliopais to the group microRNA on 2009-07-30 09:37:24 as along with 3 people gdb samgj valeriehilgers
	Dynamic expression of small non-coding RNAs, including novel microRNAs and piRNAs/21U-RNAs, during Caenorhabditis elegans development [My Copy] Genome Biology, Vol. 10, No. 5. (21 May 2009), R54. by Masaomi Kato, Alexandre de Lencastre, Zachary Pincus, Frank Slack posted to deep_sequencing microrna worm by heliopais to the group microRNA on 2009-07-29 16:56:16 as along with 2 people fenghezi samgj
	Argonaute loading improves the 5' precision of both MicroRNAs and their miRNA strands in flies. [My Copy] Current biology : CB, Vol. 18, No. 2. (22 January 2008), pp. 147-151. by H. Seitz, M. Ghildiyal, P. D. Zamore posted to deep_sequencing fly microrna by heliopais to the group microRNA on 2009-07-29 14:34:14 as along with 1 person valeriehilgers
	Cloning, characterization and expression analysis of porcine microRNAs. [My Copy] BMC genomics, Vol. 10 (05 February 2009), 65. by Alavala Matta M. Reddy, Yun Zheng, Guru Jagadeeswaran, et al.Simone L. Macmil, Wiley B. Graham, Bruce A. Roe, Udaya Desilva, Weixiong Zhang, Ramanjulu Sunkar posted to deep_sequencing microrna pig by heliopais to the group microRNA on 2009-07-29 12:15:29 as along with 2 people guhjy samgj
	Parallel DNA pyrosequencing unveils new zebrafish microRNAs. [My Copy] BMC genomics, Vol. 10 (27 April 2009), 195. by A. R. Soares, P. M. Pereira, B. Santos, et al.C. Egas, A. C. Gomes, J. Arrais, J. L. Oliveira, G. R. Moura, M. A. Santos posted to deep_sequencing microrna zebrafish by heliopais to the group microRNA on 2009-07-29 11:54:36 as along with 1 person samgj
	Sexually Dimorphic MicroRNA Expression During Chicken Embryonic Gonadal Development [My Copy] Biol Reprod, Vol. 81, No. 1. (1 July 2009), pp. 165-176. by Stephanie C. Bannister, Mark L. V. Tizard, Timothy J. Doran, Andrew H. Sinclair, Craig A. Smith posted to chicken_microrna deep_sequencing microrna microrna_microarray by heliopais to the group microRNA on 2009-07-29 10:09:18 as
	MOM: maximum oligonucleotide mapping [My Copy] Bioinformatics, Vol. 25, No. 7. (1 April 2009), pp. 969-970. by Hugh L. Eaves, Yuan Gao posted to alignment deep_sequencing software by jfr on 2009-07-22 16:26:50 as along with 9 people Julien_Fayolle heliopais seb1 n00c cassj rschulz mmartin guhjy druvus
	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 deep_sequencing genomics by jfr on 2009-07-22 12:57:26 as along with 8 people and 1 group hzoltan fstrozzi GustavoLacerda stubrown stajich GeeSharpMinor jmcq provero Mycology
	QSRA: a quality-value guided de novo short read assembler. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009) by D. W. Bryant, W. K. Wong, T. C. Mockler posted to deep_sequencing software by jfr to the group Bioinformatics on 2009-07-09 13:04:14 as along with 10 people and 1 group hzoltan GustavoLacerda GeeSharpMinor n00c dakelley pengchy natstreet stajich idoerg druvus Mycology
	miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments [My Copy] Nucl. Acids Res., Vol. 37, No. suppl_2. (1 July 2009), pp. W68-76. by Michael Hackenberg, Martin Sturm, David Langenberger, Juan M. Falcon-Perez, Ana M. Aransay posted to bioinfo deep_sequencing mirna web_server by tonamswish to the group microRNA on 2009-07-01 01:42:58 as along with 13 people and 1 group Peiyong hzoltan druvus heliopais orzenil fishtank dswan natstreet guhjy fenghezi pengchy ealloza daforerog Bioinformatics
	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 comment deep_sequencing genomics integration by jfr on 2009-06-11 11:26:31 as along with 19 people n00c hzoltan seb1 inesdesantiago heliopais stubrown installe Annab Borelli jbhiatt Pascalichouchou bertelsen frohike natstreet druvus reyez alexknight psique GeeSharpMinor
	Next-generation DNA sequencing [My Copy] Nature Biotechnology In Nat Biotech, Vol. 26, No. 10. (09 October 2008), pp. 1135-1145. by Jay Shendure, Hanlee Ji posted to deep_sequencing review by jfr on 2009-06-11 11:20:39 as along with 49 people and 3 groups tux2000 JamesBarger darian burak Jporci daforerog dchughes hzoltan cthachuk giovenko heliopais seb1 installe niallhaslam Vincent_Rouilly rschulz fishtank bluto Annab katholt jmcq michaelbarton n00c dna nzm farhat idoerg mhz mmartin jbhiatt yupu behindtherabbit guhjy Pascalichouchou frohike dakelley ptrobajo zwang Zephyrus psique natstreet druvus nuin alexknight reyez dbk wsjames pengchy GeeSharpMinor Bioinformatics Roswell Cancer Crosstalk Oxford Virology
	The development and impact of 454 sequencing [My Copy] Nat Biotech, Vol. 26, No. 10. (October 2008), pp. 1117-1124. by Jonathan M. Rothberg, John H. Leamon posted to deep_sequencing review by jfr on 2009-06-11 11:19:11 as along with 11 people katholt n00c yupu frohike natstreet druvus nuin alexknight reyez psique GeeSharpMinor
	A large genome center's improvements to the Illumina sequencing system [My Copy] Nature Methods, Vol. 5, No. 12. (25 November 2008), pp. 1005-1010. by Michael A. Quail, Iwanka Kozarewa, Frances Smith, et al.Aylwyn Scally, Philip J. Stephens, Richard Durbin, Harold Swerdlow, Daniel J. Turner posted to deep_sequencing protocol quality_control by jfr on 2009-03-23 15:59:27 as along with 13 people and 1 group seb1 Annab polivares katholt hagechouchin443 sandfire natstreet druvus vmsr azazello clearbluespring jbhiatt caseybrown JLab
	Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing [My Copy] Nature Genetics, Vol. 40, No. 12. (02 November 2008), pp. 1413-1415. by Qun Pan, Ofer Shai, Leo J. Lee, Brendan J. Frey, Benjamin J. Blencowe posted to alternative_splicing deep_sequencing by jfr on 2009-03-12 10:48:29 as along with 21 people ongenetics hzoltan torfinnnome n00c ericrpaquet jonilaserson ThomasDOtto giovanni frohike fenghezi zxmon21 jmcq poschm wimufi xingxu inesdesantiago jbhiatt rschulz djkt dchughes GeeSharpMinor
	Mapping short DNA sequencing reads and calling variants using mapping quality scores. [My Copy] Genome research, Vol. 18, No. 11. (19 November 2008), pp. 1851-1858. by Heng Li, Jue Ruan, Richard Durbin posted to deep_sequencing low_level quality_control by jfr on 2009-02-23 11:34:50 as along with 40 people and 2 groups claire_jubin urgi seninp heliopais hzoltan cthachuk darshan adijr darian bozdagd jmanning2k stubrown APRegier ghattem jbhiatt mmartin michaelbarton polivares jonilaserson humburg n00c jessopher maren GeeSharpMinor vmsr vplagnol natstreet poschm druvus dandaman xingxu rschulz jmcq inesdesantiago Neeperando nmohelli matthewsuderman bpb gdb farhat SIMR bioinformatics BergmanLab
	In-depth characterization of the microRNA transcriptome in a leukemia progression model [My Copy] Genome Research, Vol. 18, No. 11. (November 2008), pp. 1787-1797. by Florian Kuchenbauer, Ryan D. Morin, Bob Argiropoulos, et al.Oleh I. Petriv, Malachi Griffith, Michael Heuser, Eric Yung, Jessica Piper, Allen Delaney, Anna-Liisa Prabhu, Yongjun Zhao, Helen Mcdonald, Thomas Zeng, Martin Hirst, Carl L. Hansen, Marco A. Marra, R. Keith Humphries posted to deep_sequencing leukemia mirna progression by jfr to the group microRNA on 2009-02-23 10:57:42 as along with 3 people heliopais gdb samgj
	Probabilistic base calling of Solexa sequencing data [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 431. by Jacques Rougemont, Arnaud Amzallag, Christian Iseli, Laurent Farinelli, Ioannis Xenarios, Felix Naef posted to deep_sequencing low_level quality_control by jfr on 2009-02-20 16:36:20 as along with 16 people and 1 group heliopais orzenil n00c dakelley usagi-kirin magusina malcook natstreet druvus iris42 abizar caseybrown reyez pengchy waszak nuin SIMR bioinformatics
	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 comparison deep_sequencing inter-laboratory microarray_technology by jfr on 2009-02-20 12:41:03 as along with 26 people zufar manduca hzoltan GustavoLacerda stubrown GeeSharpMinor n00c guhjy hcoller daed poschm stsaft azazello slevy03 felsani usagi-kirin shikin coela cthachuk ojabado caseybrown abizar natstreet druvus rschulz pengchy
	Ultradeep Bisulfite Sequencing Analysis of DNA Methylation Patterns in Multiple Gene Promoters by 454 Sequencing [My Copy] Cancer Res, Vol. 67, No. 18. (15 September 2007), pp. 8511-8518. by Kristen H. Taylor, Robin S. Kramer, Wade J. Davis, et al.Juyuan Guo, Deiter J. Duff, Dong Xu, Charles W. Caldwell, Huidong Shi posted to 454 deep_sequencing lymphoma by oelemento on 2009-01-18 17:49:04 as along with 2 people natstreet epigenetics
	Model-based Analysis of ChIP-Seq (MACS) [My Copy] Genome Biology, Vol. 9, No. 9. (2008), R137. by Yong Zhang, Tao Liu, Clifford Meyer, et al.Jerome Eeckhoute, David Johnson, Bradley Bernstein, Chad Nussbaum, Richard Myers, Myles Brown, Wei Li, X. Shirley Liu posted to chip-seq deep_sequencing software by jfr on 2009-01-10 11:01:19 as along with 24 people and 2 groups hzoltan Vincent_Rouilly darian stubrown mkiyer humburg cassj floatingpoint WanderingAengus bryankr rschulz mcm polivares gdb ghattem yadadi djkt stajich mdperry fpattyn bcondon idonaldson caseybrown kengg SIMR bioinformatics Mycology
	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 chip-seq deep_sequencing software by jfr on 2008-12-09 16:04:20 as along with 18 people and 2 groups hzoltan n00c darian idonaldson michaelbarton inesdesantiago gdb ewilban1 tonamswish guhjy kmdaily cassj fhalbrit rschulz polivares cthachuk zhouyu aprasad JLab BergmanLab
	Analysis of large-scale sequencing of small RNAs. [My Copy] Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2008), pp. 126-136. by A. J. Olson, J. Brennecke, A. A. Aravin, G. J. Hannon, R. Sachidanandam posted to deep_sequencing non-coding by jfr on 2008-11-28 14:27:01 as along with 2 people tonamswish lp2
	Using quality scores and longer reads improves accuracy of Solexa read mapping [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (28 February 2008), 128. by Andrew Smith, Zhenyu Xuan, Michael Zhang posted to deep_sequencing quality_control by jfr on 2008-11-18 15:50:15 as along with 19 people humburg hzoltan seb1 heliopais bozdagd katholt inesdesantiago n00c maren floatingpoint lukaswindhager natstreet druvus pengchy farhat ghattem mdimon kmdaily caseybrown
	Rapid whole-genome mutational profiling using next-generation sequencing technologies [My Copy] Genome research In Genome Research, Vol. 18, No. 10. (4 October 2008), pp. 1638-1642. by Douglas R. Smith, Aaron R. Quinlan, Heather E. Peckham, et al.Kathryn Makowsky, Wei Tao, Betty Woolf, Lei Shen, William F. Donahue, Nadeem Tusneem, Michael P. Stromberg, Donald A. Stewart, Lu Zhang, Swati S. Ranade, Jason B. Warner, Clarence C. Lee, Brittney E. Coleman, Zheng Zhang, Stephen F. McLaughlin, Joel A. Malek, Jon M. Sorenson, Alan P. Blanchard, Jarrod Chapman, David Hillman, Feng Chen, Daniel S. Rokhsar, Kevin J. McKernan, Thomas W. Jeffries, Gabor T. Marth, Paul M. Richardson posted to deep_sequencing mutation by jfr on 2008-11-17 14:28:18 as along with 7 people n00c robsyme druvus skoddet yupu jmcq GeeSharpMinor
	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 brain_cancer deep_sequencing by jfr on 2008-11-07 09:39:29 as along with 15 people and 2 groups VGreiff stubrown Zephyrus zufar dolchan frohike caseybrown wimufi srp33 renatomilani brianb shikin aheilbut songpku giovenko GeneGo Roswell Cancer Crosstalk
	Core Signaling Pathways in Human Pancreatic Cancers Revealed by Global Genomic Analyses [My Copy] Science (4 September 2008), 1164368. by Sian Jones, Xiaosong Zhang, D. Williams Parsons, et al.Jimmy C. Lin, Rebecca J. Leary, Philipp Angenendt, Parminder Mankoo, Hannah Carter, Hirohiko Kamiyama, Antonio Jimeno, Seung-Mo Hong, Baojin Fu, Ming-Tseh Lin, Eric S. Calhoun, Mihoko Kamiyama, Kimberly Walter, Tatiana Nikolskaya, Yuri Nikolsky, James Hartigan, Douglas R. Smith, Manuel Hidalgo, Steven D. Leach, Alison P. Klein, Elizabeth M. Jaffee, Michael Goggins, Anirban Maitra, Christine Iacobuzio-Donahue, James R. Eshleman, Scott E. Kern, Ralph H. Hruban, Rachel Karchin, Nickolas Papadopoulos, Giovanni Parmigiani, Bert Vogelstein, Victor E. Velculescu, Kenneth W. Kinzler posted to deep_sequencing pancreatic_cancer by jfr on 2008-11-07 09:36:28 as along with 18 people and 3 groups zufar jbhiatt dolchan wimufi jo_davies srp33 whh98 roys cmzmasek thomaskelder fongkoh AlexanderPico SaraNasser renatomilani brianb shikin songpku giovenko ConklinLab GeneGo Roswell Cancer Crosstalk
	Substantial biases in ultra-short read data sets from high-throughput DNA sequencing [My Copy] Nucl. Acids Res., Vol. 36, No. 16. (1 September 2008), e105. by Juliane C. Dohm, Claudio Lottaz, Tatiana Borodina, Heinz Himmelbauer posted to deep_sequencing quality_control by jfr on 2008-11-05 14:19:17 as along with 21 people and 1 group claire_jubin darian heliopais hzoltan jonilaserson n00c druvus orzenil burak woodson8 sameersoi humburg poschm polivares Huub_odc usagi-kirin inesdesantiago natstreet dakelley caseybrown GustavoLacerda microbiology_nijmegen
	A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. [My Copy] Science (New York, N.Y.), Vol. 321, No. 5891. (15 August 2008), pp. 956-960. by M. Sultan, M. H. Schulz, H. Richard, et al.A. Magen, A. Klingenhoff, M. Scherf, M. Seifert, T. Borodina, A. Soldatov, D. Parkhomchuk, D. Schmidt, S. O'Keeffe, S. Haas, M. Vingron, H. Lehrach, M. L. Yaspo posted to alternative_splicing deep_sequencing by jfr on 2008-10-15 14:51:01 as along with 28 people and 2 groups hzoltan zufar eszczurek n00c dna inesdesantiago ilyashl TRHvidsten poschm bertelsen ivanek guhjy wutongbin raistrick gracio xingxu psique oelemento Ema reyez caseybrown kjglennie dh0000 GeeSharpMinor balicea djkt ArtemPankin zwang BenosLab Khavkin's lab
	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 comparison deep_sequencing microarray_technology by jfr on 2008-10-14 17:54:03 as along with 49 people and 3 groups sotacam AndersI zufar cthachuk hzoltan jwfoley heliopais debasis maren mtagaya mkiyer stubrown woodson8 jonilaserson burak Ayest ThomasDOtto huali n00c natstreet bandrewfox daed dandaman slevy03 pengchy felsani coela shikin fhalbrit inesdesantiago jmcq lp2 caseybrown dakelley Ema balicea vega lusk semrich vmarshal fpattyn stajich giovanni ela503 Stew guhjy kengg shurjo GustavoLacerda CPI UU SIMR bioinformatics Mycology
	Mapping and quantifying mammalian transcriptomes by RNA-Seq [My Copy] Nature Methods In Nat Meth, Vol. 5, No. 7. (30 May 2008), pp. 621-628. by Ali Mortazavi, Brian A. Williams, Kenneth McCue, Lorian Schaeffer, Barbara Wold posted to deep_sequencing genomics by jfr on 2008-09-18 15:52:35 as along with 44 people and 2 groups cajunsushi davidmam manduca cthachuk hzoltan jwfoley heliopais juokcho aktas debasis bertelsen idonaldson darian stubrown dswan ewilban1 mtagaya woodson8 burak jonilaserson inesdesantiago ThomasDOtto n00c GustavoG ghattem vplagnol druvus cfvillalta vmsr poschm dandaman shikin jmcq rschulz lp2 tmcphillips myourshaw megraw GeeSharpMinor caseybrown xingxu guhjy shurjo gdb Bioinformatics SIMR bioinformatics

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software	12
microrna	11
mirna	9
read_mapping	7
review	7
quality_control	5
genomics	4
leukemia	3
technology	3
454	2
alternative_splicing	2
bioinfo	2
chicken_mirnas	2
chip-seq	2
comparison	2
copy-number	2
embryonic_stem_cells	2
low_level	2
microarray_technology	2
microrna_gene_finding	2
mutation	2
progression	2
stem	2
web_server	2
web_viewer	2
alignment	1
bioinformatics	1
brain_cancer	1
breast_cancer	1
chicken_microrna	1
comment	1
complex_networks	1
cow	1
dgcr8	1
dicer	1
dicer-knockout	1
differentiation	1
drosha	1
eponine	1
evolution	1
ffpe	1
fly	1
infectious_diseases	1
integration	1
inter-laboratory	1
lung_cancer	1
lymphoma	1
methodology	1
microrna_microarray	1
microrna_profiling	1
mrna-seq	1
non-coding	1
pancreatic_cancer	1
pig	1
protocol	1
sequencing	1
single_cell	1
stem_cell	1
tf	1
transcription_factor	1
tss	1
worm	1
zebrafish	1

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