n00c's library 365 articles Export

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	inGAP: an integrated next-generation genome analysis pipeline [My Copy] Bioinformatics (30 October 2009), btp615. by Ji Qi, Fangqing Zhao, Anne Buboltz, Stephan C. Schuster posted to snp-discovery snp sequencing pipeline ingap coverage 454 by n00c on 2009-11-02 21:10:08 as along with 4 people jasontsai natstreet heliopais druvus
	Recurring mutations found by sequencing an acute myeloid leukemia genome. [My Copy] The New England journal of medicine, Vol. 361, No. 11. (10 September 2009), pp. 1058-1066. by Elaine R. Mardis, Li Ding, David J. Dooling, et al.David E. Larson, Michael D. McLellan, Ken Chen, Daniel C. Koboldt, Robert S. Fulton, Kim D. Delehaunty, Sean D. McGrath, Lucinda A. Fulton, Devin P. Locke, Vincent J. Magrini, Rachel M. Abbott, Tammi L. Vickery, Jerry S. Reed, Jody S. Robinson, Todd Wylie, Scott M. Smith, Lynn Carmichael, James M. Eldred, Christopher C. Harris, Jason Walker, Joshua B. Peck, Feiyu Du, Adam F. Dukes, Gabriel E. Sanderson, Anthony M. Brummett, Eric Clark, Joshua F. McMichael, Rick J. Meyer, Jonathan K. Schindler, Craig S. Pohl, John W. Wallis, Xiaoqi Shi, Ling Lin, Heather Schmidt, Yuzhu Tang, Carrie Haipek, Madeline E. Wiechert, Jolynda V. Ivy, Joelle Kalicki, Glendoria Elliott, Rhonda E. Ries, Jacqueline E. Payton, Peter Westervelt, Michael H. Tomasson, Mark A. Watson, Jack Baty, Sharon Heath, William D. Shannon, Rakesh Nagarajan, Daniel C. Link, Matthew J. Walter, Timothy A. Graubert, John F. DiPersio, Richard K. Wilson, Timothy J. Ley posted to tpgp mutation leukemia individual-human-genome genome aml by n00c on 2009-10-28 22:54:37 as along with 8 people and 2 groups absterga woodson8 fenghezi ericsuh polivares prensner frohike jbhiatt JLab BergmanLab
	DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome [My Copy] Nature, Vol. 456, No. 7218. (06 November 2008), pp. 66-72. by Timothy J. Ley, Elaine R. Mardis, Li Ding, et al.Bob Fulton, Michael D. McLellan, Ken Chen, David Dooling, Brian H. Dunford-Shore, Sean McGrath, Matthew Hickenbotham, Lisa Cook, Rachel Abbott, David E. Larson, Dan C. Koboldt, Craig Pohl, Scott Smith, Amy Hawkins, Scott Abbott, Devin Locke, LaDeana W. Hillier, Tracie Miner, Lucinda Fulton, Vincent Magrini, Todd Wylie, Jarret Glasscock, Joshua Conyers, Nathan Sander, Xiaoqi Shi, John R. Osborne, Patrick Minx, David Gordon, Asif Chinwalla, Yu Zhao, Rhonda E. Ries, Jacqueline E. Payton, Peter Westervelt, Michael H. Tomasson, Mark Watson, Jack Baty, Jennifer Ivanovich, Sharon Heath, William D. Shannon, Rakesh Nagarajan, Matthew J. Walter, Daniel C. Link, Timothy A. Graubert, John F. DiPersio, Richard K. Wilson posted to tpgp sequence leukemia individual-human-genome genome aml by n00c on 2009-10-28 22:52:15 as along with 16 people tommcdonagh jonilaserson jessopher frohike jfr vmsr yupu kentsis suteedee lewista reyez caseybrown pkonings rodney davfre djkt
	A highly annotated whole-genome sequence of a Korean individual [My Copy] Nature, Vol. advance online publication, No. 7258. (08 July 2009), pp. 1011-1015. by Jong-Il Kim, Young S. Ju, Hansoo Park, et al.Sheehyun Kim, Seonwook Lee, Jae-Hyuk Yi, Joann Mudge, Neil A. Miller, Dongwan Hong, Callum J. Bell, Hye-Sun Kim, In-Soon Chung, Woo-Chung Lee, Ji-Sun Lee, Seung-Hyun Seo, Ji-Young Yun, Hyun N. Woo, Heewook Lee, Dongwhan Suh, Seungbok Lee, Hyun-Jin Kim, Maryam Yavartanoo, Minhye Kwak, Ying Zheng, Mi K. Lee, Hyunjun Park, Jeong Y. Kim, Omer Gokcumen, Ryan E. Mills, Alexander W. Zaranek, Joseph Thakuria, Xiaodi Wu, Ryan W. Kim, Jim J. Huntley, Shujun Luo, Gary P. Schroth, Thomas D. Wu, HyeRan Kim, Kap-Seok Yang, Woong-Yang Park, Hyungtae Kim, George M. Church, Charles Lee, Stephen F. Kingsmore, Jeong-Sun Seo posted to tpgp sequence individual-human-genome genome by n00c on 2009-10-28 22:49:41 as along with 8 people and 1 group fenghezi nicolesoranzo mtagaya reyez pkonings psique djkt jbhiatt Journal picks
	The first Korean genome sequence and analysis: Full genome sequencing for a socio-ethnic group [My Copy] Genome Research, Vol. 19, No. 9. (24 September 2009), pp. 1622-1629. by Sung-Min Ahn, Tae-Hyung Kim, Sunghoon Lee, et al.Deokhoon Kim, Ho Ghang, Dae-Soo Kim, Byoung-Chul Kim, Sang-Yoon Kim, Woo-Yeon Kim, Chulhong Kim, Daeui Park, Yong S. Lee, Sangsoo Kim, Rohit Reja, Sungwoong Jho, Chang G. Kim, Ji-Young Cha, Kyung-Hee Kim, Bonghee Lee, Jong Bhak, Seong-Jin Kim posted to tpgp sequence individual-human-genome genome by n00c on 2009-10-28 22:46:48 as along with 5 people and 1 group ppgardne djkt fenghezi jessopher daforerog Journal picks
	The diploid genome sequence of an Asian individual. [My Copy] Nature, Vol. 456, No. 7218. (6 November 2008), pp. 60-65. by Jun Wang, Wei Wang, Ruiqiang Li, et al.Yingrui Li, Geng Tian, Laurie Goodman, Wei Fan, Junqing Zhang, Jun Li, Juanbin Zhang, Yiran Guo, Binxiao Feng, Heng Li, Yao Lu, Xiaodong Fang, Huiqing Liang, Zhenglin Du, Dong Li, Yiqing Zhao, Yujie Hu, Zhenzhen Yang, Hancheng Zheng, Ines Hellmann, Michael Inouye, John Pool, Xin Yi, Jing Zhao, Jinjie Duan, Yan Zhou, Junjie Qin, Lijia Ma, Guoqing Li, Zhentao Yang, Guojie Zhang, Bin Yang, Chang Yu, Fang Liang, Wenjie Li, Shaochuan Li, Dawei Li, Peixiang Ni, Jue Ruan, Qibin Li, Hongmei Zhu, Dongyuan Liu, Zhike Lu, Ning Li, Guangwu Guo, Jianguo Zhang, Jia Ye, Lin Fang, Qin Hao, Quan Chen, Yu Liang, Yeyang Su, A. San, Cuo Ping, Shuang Yang, Fang Chen, Li Li, Ke Zhou, Hongkun Zheng, Yuanyuan Ren, Ling Yang, Yang Gao, Guohua Yang, Zhuo Li, Xiaoli Feng, Karsten Kristiansen, Gane K. Wong, Rasmus Nielsen, Richard Durbin, Lars Bolund, Xiuqing Zhang, Songgang Li, Huanming Yang, Jian Wang posted to tpgp sequence individual-human-genome genome asian by n00c on 2009-10-28 20:16:15 as along with 15 people rshe fenghezi jonilaserson kmdaily daforerog jessopher dakelley vmsr psique GustavoLacerda reyez guhjy caseybrown pkonings djkt
	The Diploid Genome Sequence of an Individual Human [My Copy] PLoS Biol, Vol. 5, No. 10. (4 September 2007), e254. by Samuel Levy, Granger Sutton, Pauline C. Ng, et al.Lars Feuk, Aaron L. Halpern, Brian P. Walenz, Nelson Axelrod, Jiaqi Huang, Ewen F. Kirkness, Gennady Denisov, Yuan Lin, Jeffrey R. MacDonald, Andy W. Pang, Mary Shago, Timothy B. Stockwell, Alexia Tsiamouri, Vineet Bafna, Vikas Bansal, Saul A. Kravitz, Dana A. Busam, Karen Y. Beeson, Tina C. McIntosh, Karin A. Remington, Josep F. Abril, John Gill, Jon Borman, Yu-Hui Rogers, Marvin E. Frazier, Stephen W. Scherer, Robert L. Strausberg, J. Craig Venter posted to venter tpgp sequence individual-human-genome genome by n00c on 2009-10-28 20:14:44 as along with 30 people and 1 group jgill pachorip Scis0000002 daforerog jessopher psique dakelley noushin jo_davies frohike adijr Neeperando operon carlblesius bpb balicea skhadar dullhunk djkt jackjackjjj ramensky massivemayhem jasonbobe PredictER lp2 cabbagezs xingxu hpaces maburkitt nhp Bioinformatics
	Genotyping of James Watson from Low-coverage Sequencing Data [My Copy] by Sanjiv Dinakar, Yözen Hernández posted to watson snp-discovery snp-calling snp resequencing presentation genotyping coverage bayesian by n00c on 2009-10-05 16:44:36 as
	Accurate whole human genome sequencing using reversible terminator chemistry. [My Copy] Nature, Vol. 456, No. 7218. (6 November 2008), pp. 53-59. by David R. Bentley, Shankar Balasubramanian, Harold P. Swerdlow, et al.Geoffrey P. Smith, John Milton, Clive G. Brown, Kevin P. Hall, Dirk J. Evers, Colin L. Barnes, Helen R. Bignell, Jonathan M. Boutell, Jason Bryant, Richard J. Carter, R. Keira Cheetham, Anthony J. Cox, Darren J. Ellis, Michael R. Flatbush, Niall A. Gormley, Sean J. Humphray, Leslie J. Irving, Mirian S. Karbelashvili, Scott M. Kirk, Heng Li, Xiaohai Liu, Klaus S. Maisinger, Lisa J. Murray, Bojan Obradovic, Tobias Ost, Michael L. Parkinson, Mark R. Pratt, Isabelle M. J. Rasolonjatovo, Mark T. Reed, Roberto Rigatti, Chiara Rodighiero, Mark T. Ross, Andrea Sabot, Subramanian V. Sankar, Aylwyn Scally, Gary P. Schroth, Mark E. Smith, Vincent P. Smith, Anastassia Spiridou, Peta E. Torrance, Svilen S. Tzonev, Eric H. Vermaas, Klaudia Walter, Xiaolin Wu, Lu Zhang, Mohammed D. Alam, Carole Anastasi, Ify C. Aniebo, David M. D. Bailey, Iain R. Bancarz, Saibal Banerjee, Selena G. Barbour, Primo A. Baybayan, Vincent A. Benoit, Kevin F. Benson, Claire Bevis, Phillip J. Black, Asha Boodhun, Joe S. Brennan, John A. Bridgham, Rob C. Brown, Andrew A. Brown, Dale H. Buermann, Abass A. Bundu, James C. Burrows, Nigel P. Carter, Nestor Castillo, Maria Chiara, Simon Chang, R. Neil Cooley, Natasha R. Crake, Olubunmi O. Dada, Konstantinos D. Diakoumakos, Belen Dominguez-Fernandez, David J. Earnshaw, Ugonna C. Egbujor, David W. Elmore, Sergey S. Etchin, Mark R. Ewan, Milan Fedurco, Louise J. Fraser, Karin V. Fuentes Fajardo, W. Scott Furey, David George, Kimberley J. Gietzen, Colin P. Goddard, George S. Golda, Philip A. Granieri, David E. Green, David L. Gustafson, Nancy F. Hansen, Kevin Harnish, Christian D. Haudenschild, Narinder I. Heyer, Matthew M. Hims, Johnny T. Ho, Adrian M. Horgan, Katya Hoschler, Steve Hurwitz, Denis V. Ivanov, Maria Q. Johnson, Terena James, T. A. Huw Jones, Gyoung-Dong Kang, Tzvetana H. Kerelska, Alan D. Kersey, Irina Khrebtukova, Alex P. Kindwall, Zoya Kingsbury, Paula I. Kokko-Gonzales, Anil Kumar, Marc A. Laurent, Cynthia T. Lawley, Sarah E. Lee, Xavier Lee, Arnold K. Liao, Jennifer A. Loch, Mitch Lok, Shujun Luo, Radhika M. Mammen, John W. Martin, Patrick G. McCauley, Paul McNitt, Parul Mehta, Keith W. Moon, Joe W. Mullens, Taksina Newington, Zemin Ning, Bee L. Ng, Sonia M. Novo, Michael J. O'Neill, Mark A. Osborne, Andrew Osnowski, Omead Ostadan, Lambros L. Paraschos, Lea Pickering, Andrew C. Pike, Alger C. Pike, D. Chris Pinkard, Daniel P. Pliskin, Joe Podhasky, Victor J. Quijano, Come Raczy, Vicki H. Rae, Stephen R. Rawlings, Ana C. Rodriguez, Phyllida M. Roe, John Rogers, Maria C. Rogert Bacigalupo, Nikolai Romanov, Anthony Romieu, Rithy K. Roth, Natalie J. Rourke, Silke T. Ruediger, Eli Rusman, Raquel M. Sanches-Kuiper, Martin R. Schenker, Josefina M. Seoane, Richard J. Shaw, Mitch K. Shiver, Steven W. Short, Ning L. Sizto, Johannes P. Sluis, Melanie A. Smith, Jean Ernest Sohna Sohna, Eric J. Spence, Kim Stevens, Neil Sutton, Lukasz Szajkowski, Carolyn L. Tregidgo, Gerardo Turcatti, Stephanie vandeVondele, Yuli Verhovsky, Selene M. Virk, Suzanne Wakelin, Gregory C. Walcott, Jingwen Wang, Graham J. Worsley, Juying Yan, Ling Yau, Mike Zuerlein, Jane Rogers, James C. Mullikin, Matthew E. Hurles, Nick J. McCooke, John S. West, Frank L. Oaks, Peter L. Lundberg, David Klenerman, Richard Durbin, Anthony J. Smith posted to yoruba tpgp solexa resequencing maq individual-human-genome illumina genome eland by n00c on 2009-09-28 15:30:03 as along with 29 people and 1 group hzoltan rshe pst gbenson giovenko clearbluespring xingxu dna austin jessopher daforerog vmsr jfr azazello nuin usagi-kirin Archaeogenetics malcook psique tsherig jbhiatt pengchy reyez jmcq inesdesantiago ojabado caseybrown pkonings djkt SIMR bioinformatics
	Model-Based Quality Assessment and Base-Calling For Second-Generation Sequencing [My Copy] by Rafael Irizarry posted to solexa snp-calling resequencing quality illumina genotyping error-model error base-calling by n00c on 2009-09-18 16:42:02 as
	Algorithms on strings, trees, and sequences : computer science and computational biology [My Copy] (15 January 2007) by Dan Gusfield posted to string-matching sequence book algorithm by n00c on 2009-09-14 16:30:39 as along with 20 people and 2 groups abergeron stharward enricos Scis0000002 Neeperando mircea renewang timflutre ujh creswick tijl grzegorz luispedro emranmohdtamil hoangmit thonnardo pool007 nedwards ep161302 reyez Centre de Recherches Interdisciplinaires Pattern-Analysis
	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 tool software short-read segemehl map alignment by n00c on 2009-09-11 15:38:04 as along with 19 people and 4 groups cthachuk hzoltan darian nuin fenghezi behindtherabbit jandot walshtp torfinnnome stubrown dswan polivares orzenil natstreet djkt jmcq heliopais ppgardne druvus Bioinformatics BergmanLab iSEEM 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 resequencing mrfast map illumina copy-number cnv 454 by n00c on 2009-09-02 16:25:14 as along with 30 people and 1 group ongenetics chvlyl leemachado daed gbenson bozdagd dakelley sbmontgomery eshirdel merpublic shyamsg scmelton qayub natstreet fenghezi Annab djkt nuin xingxu jamesmorris rdiaz brant torfinnnome jandot pkonings danmaclean daforerog frohike rschulz gangcai Journal picks
	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 algorithm map razers short-read software tool by n00c on 2009-07-31 13:56:26 as along with 6 people and 1 group torfinnnome heliopais jandot reyez druvus natstreet Journal picks
	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 software short-read rna-seq gene-expression error comparison clc 454 by n00c on 2009-07-30 17:37:35 as along with 16 people and 3 groups torfinnnome hzoltan darian debasis mqbphcw3 stubrown Thaverkamp PabloMarin jasontsai ThomasDOtto heliopais guhjy cisevol natstreet druvus jbhiatt Journal picks JLab BergmanLab
	The complete genome of an individual by massively parallel DNA sequencing. [My Copy] Nature, Vol. 452, No. 7189. (17 April 2008), pp. 872-876. by David A. Wheeler, Maithreyan Srinivasan, Michael Egholm, et al.Yufeng Shen, Lei Chen, Amy McGuire, Wen He, Yi-Ju Chen, Vinod Makhijani, G. Thomas Roth, Xavier Gomes, Karrie Tartaro, Faheem Niazi, Cynthia L. Turcotte, Gerard P. Irzyk, James R. Lupski, Craig Chinault, Xing-zhi Song, Yue Liu, Ye Yuan, Lynne Nazareth, Xiang Qin, Donna M. Muzny, Marcel Margulies, George M. Weinstock, Richard A. Gibbs, Jonathan M. Rothberg posted to watson tpgp snp resequencing pyrosequencing individual-human-genome genome 454 by n00c on 2009-07-28 18:47:35 as along with 23 people and 2 groups rshe jonilaserson jessopher daforerog behindtherabbit frohike reyez pengchy adijr jo_davies jfr orzenil dullhunk djkt ramensky psique caseybrown melting dbensasson bpb Neeperando Huub_odc guhjy parkinson's disease references microbiology_nijmegen
	Evaluation of next generation sequencing platforms for population targeted sequencing studies [My Copy] Genome Biology, Vol. 10, No. 3. (2009), R32. by Olivier Harismendy, Pauline Ng, Robert Strausberg, et al.Xiaoyun Wang, Timothy Stockwell, Karen Beeson, Nicholas Schork, Sarah Murray, Eric Topol, Samuel Levy, Kelly Frazer posted to comparison error-model repeats sequencing short-read venn-diagram by n00c on 2009-07-26 19:44:00 as along with 25 people and 2 groups heliopais jfr hzoltan dbensasson GustavoLacerda adijr agbiotec jgill darian jandot jonilaserson maren inesdesantiago mlog ppgardne kiekyon michaelbarton idoerg stajich skembel giovanni druvus lwaldron djkt natstreet Journal picks Mycology
	Evidence for human microRNA-offset RNAs in small RNA sequencing data [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2298-2301. by David Langenberger, Clara Bermudez-Santana, Jana Hertel, Steve Hoffmann, Philipp Khaitovich, Peter F. Stadler posted to rna-seq segemehl short-read by n00c on 2009-07-23 23:41:11 as along with 8 people and 1 group hzoltan microRNA heliopais dswan natstreet fishtank kutter01 samgj microRNA
	Local alignment of two-base encoded DNA sequence [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (09 June 2009), 175. by Nils Homer, Barry Merriman, Stanley Nelson posted to abi algorithm alignment color-space solid by n00c on 2009-07-23 21:39:49 as along with 2 people lianping jmanning2k
	Locating alignments with k differences for nucleotide and amino acid sequences. [My Copy] Computer applications in the biosciences : CABIOS, Vol. 4, No. 1. (March 1988), pp. 19-24. by G. M. Landau, U. Vishkin, R. Nussinov posted to algorithm alignment error-bound landau nussinov vishkin by n00c on 2009-07-21 16:55:06 as
	Quality scores and SNP detection in sequencing-by-synthesis systems. [My Copy] Genome research, Vol. 18, No. 5. (22 May 2008), pp. 763-770. by William Brockman, Pablo Alvarez, Sarah Young, et al.Manuel Garber, Georgia Giannoukos, William L. Lee, Carsten Russ, Eric S. Lander, Chad Nusbaum, David B. Jaffe posted to snp-calling snp resequencing quality nqs 454 by n00c on 2009-07-20 18:18:21 as along with 12 people jonilaserson jsatkosk maren natstreet druvus cap1 caseybrown dbensasson bpb Neeperando sharpton GustavoLacerda
	An efficient string matching algorithm with k differences for nucleotide and amino acid sequences. [My Copy] Nucleic acids research, Vol. 14, No. 1. (10 January 1986), pp. 31-46. by G. M. Landau, U. Vishkin, R. Nussinov posted to algorithm alignment error-bound landau nussinov vishkin by n00c on 2009-07-20 17:19:36 as
	A Subquadratic Sequence Alignment Algorithm for Unrestricted Scoring Matrices [My Copy] SIAM Journal on Computing, Vol. 32, No. 6. (2003), pp. 1654-1673. by Maxime Crochemore, Gad M. Landau, Michal Z. Ukelson posted to algorithm alignment lcs subquadratic by n00c on 2009-07-12 21:24:26 as
	Oxford Journals \| Life Sciences \| Bioinformatics \| Next Generation Sequencing [My Copy] posted to links sequencing short-read by n00c on 2009-07-05 18:12:00 as along with 4 people and 1 group humburg renatomilani idoerg polivares BergmanLab
	Quantification of rare allelic variants from pooled genomic DNA [My Copy] Nat Meth, Vol. 6, No. 4. (01 April 2009), pp. 263-265. by Todd E. Druley, Francesco L. M. Vallania, Daniel J. Wegner, et al.Katherine E. Varley, Olivia L. Knowles, Jacqueline A. Bonds, Sarah W. Robison, Scott W. Doniger, Aaron Hamvas, F. Sessions Cole, Justin C. Fay, Robi D. Mitra posted to multiplex pooled short-read by n00c on 2009-06-19 18:29:12 as along with 9 people jonilaserson austin_mcdonald natstreet guhjy fenghezi giovanni psique absterga jbhiatt
	DNA Sudoku--harnessing high-throughput sequencing for multiplexed specimen analysis. [My Copy] Genome research, Vol. 19, No. 7. (15 July 2009), pp. 1243-1253. by Yaniv Erlich, Kenneth Chang, Assaf Gordon, et al.Roy Ronen, Oron Navon, Michelle Rooks, Gregory J. Hannon posted to sudoku short-read resequencing pool-design multiplexing by n00c on 2009-06-19 17:18:22 as along with 19 people and 1 group hzoltan orzenil heliopais qayub jandot pkonings jcbarret nlapalu guhjy fenghezi dandaman xingxu djkt ppgardne daforerog rpatward jbhiatt natstreet samgj Journal picks
	ERANGE - Mapping and Quantifying Mammalian Transcriptomes by RNA-Seq [My Copy] by Ali Mortazavi, Brian Williams, Kenneth Mccue, Lorian Schaeffer, Barbara Wold posted to erange rna-seq software by n00c on 2009-06-15 18:38:40 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. Williams, Kenneth McCue, Lorian Schaeffer, Barbara Wold posted to erange jennifer-beane map nature rna-seq short-read transcriptome by n00c on 2009-06-10 17:14:31 as along with 42 people and 2 groups manduca cthachuk hzoltan jwfoley heliopais juokcho aktas debasis bertelsen idonaldson darian stubrown dswan ewilban1 mtagaya woodson8 burak jonilaserson inesdesantiago ThomasDOtto 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
	An experimental study of an opportunistic index [My Copy] In SODA '01: Proceedings of the twelfth annual ACM-SIAM symposium on Discrete algorithms (2001), pp. 269-278. by Paolo Ferragina, Giovanni Manzini posted to algorithm burrows-wheeler data-structure indexing by n00c on 2009-06-05 14:31:30 as
	Engineering a Compressed Suffix Tree Implementation [My Copy] Experimental Algorithms (2007), pp. 217-228. by Niko Välimäki, Wolfgang Gerlach, Kashyap Dixit, Veli Mäkinen posted to algorithm data-structure enhanced-suffix-array suffix-array suffix-tree by n00c on 2009-06-04 23:09:26 as
	Opportunistic data structures with applications [My Copy] (2000) by Paolo Ferragina, Giovanni Manzini posted to algorithm burrows-wheeler data-structure map suffix-array by n00c on 2009-06-04 22:59:31 as
	A fast bit-vector algorithm for approximate string matching based on dynamic programming [My Copy] J. ACM, Vol. 46, No. 3. (May 1999), pp. 395-415. by Gene Myers posted to algorithm dynamic-programming string-matching by n00c on 2009-06-04 22:25:27 as
	Compressed indexing and local alignment of DNA [My Copy] Bioinformatics, Vol. 24, No. 6. (15 March 2008), pp. 791-797. by T. W. Lam, W. K. Sung, S. L. Tam, C. K. Wong, S. M. Yiu posted to software map indexing dna bwt-sw alignment by n00c on 2009-06-03 21:29:05 as along with 6 people gbenson druvus xwbcn antonkratz cap1 lp2
	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 validation short-read map error-model error bias by n00c on 2009-06-03 20:30:24 as along with 19 people and 1 group heliopais hzoltan jonilaserson druvus orzenil burak woodson8 sameersoi humburg poschm polivares Huub_odc usagi-kirin inesdesantiago jfr natstreet dakelley caseybrown GustavoLacerda microbiology_nijmegen
	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 abi color-space map short-read shrimp software solid tool by n00c on 2009-06-03 19:48:49 as along with 23 people and 4 groups Julien_Fayolle heliopais jfr cthachuk hzoltan bozdagd ilanc burak guhjy djkt trfield natstreet adijr druvus Stew farhat humburg kshameer operon stajich GeeSharpMinor AlexBateman barry Bioinformatics - CRUK Mycology Journal picks Bioinformatics
	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 durbin li map maq short-read by n00c on 2009-06-03 19:22:03 as along with 39 people and 2 groups Julien_Fayolle seninp heliopais hzoltan cthachuk darshan adijr darian bozdagd jmanning2k stubrown APRegier ghattem jbhiatt mmartin michaelbarton polivares jonilaserson humburg jessopher maren GeeSharpMinor vmsr vplagnol natstreet poschm jfr druvus dandaman xingxu rschulz jmcq inesdesantiago Neeperando nmohelli matthewsuderman bpb gdb farhat SIMR bioinformatics BergmanLab
	Fast and accurate short read alignment with Burrows-Wheeler transform. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 14. (15 July 2009), pp. 1754-1760. by Heng Li, Richard Durbin posted to alignment burrows-wheeler bwa durbin li map short-read software tool by n00c on 2009-06-03 19:05:45 as along with 34 people and 4 groups Julien_Fayolle lianping hzoltan cthachuk maren bozdagd adijr heliopais jmanning2k GustavoLacerda stubrown jessopher guhjy katholt mkiyer jmcq idonaldson michaelbarton polivares darian orzenil cassj inesdesantiago TRHvidsten djkt operon ghattem danmaclean ppgardne nuin rschulz natstreet druvus humburg BergmanLab SIMR bioinformatics Bioinformatics Journal picks
	NGSView: an extensible open source editor for next-generation sequencing data. [My Copy] Bioinformatics (Oxford, England) (24 October 2009), btp611. by Erik Arner, Yoshihide Hayashizaki, Carsten O. Daub posted to viewer tool software sequencing open-source ngsview by n00c on 2009-10-28 12:44:41 as along with 3 people operon heliopais druvus
	An Eulerian path approach to DNA fragment assembly. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 98, No. 17. (14 August 2001), pp. 9748-9753. by P. A. Pevzner, H. Tang, M. S. Waterman posted to eulerian dna assembly algorithm by n00c on 2009-10-01 16:16:53 as along with 14 people and 2 groups aheilbut jengeldk robsyme Neeperando idoerg dakelley brl A_Olympia briann jmeppley AaronDarling nedwards azazello jwhitney Philosophy_of_Information Blog_and_Wiki_Research
	Combinatorics and next-generation sequencing [My Copy] Nature Biotechnology, Vol. 27, No. 9. (01 September 2009), pp. 826-827. by Nick Patterson, Stacey Gabriel posted to sudoku resequencing pool-design pool multiplexing combinatorics by n00c on 2009-10-01 16:10:29 as along with 7 people and 1 group ethanmj ptrobajo orzenil torfinnnome inesdesantiago qayub rmk Journal picks
	Reducing the space requirement of suffix trees [My Copy] Software: Practice and Experience, Vol. 29, No. 13. (November 1999), pp. 1149-1171. by Stefan Kurtz posted to suffix-tree space data-structure algorithm by n00c on 2009-09-14 16:22:15 as along with 3 people dleinhaeuser nedwards ep161302
	Application of machine learning in SNP discovery [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (2006), 4. by Lakshmi Matukumalli, John Grefenstette, David Hyten, Ik Y. Choi, Perry Cregan, Curtis Van Tassell posted to snp-discovery snp-calling machine-learning algorithm by n00c on 2009-09-13 09:21:42 as along with 1 person and 1 group druvus Visiting Position
	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 transcriptome snp-discovery sequencing polybayes 454 by n00c on 2009-09-13 09:20:20 as along with 5 people stubrown jlin orzenil guhjy natstreet
	Efficient frequency-based de novo short-read clustering for error trimming in next-generation sequencing [My Copy] Genome Research, Vol. 19, No. 7. (4 July 2009), pp. 1309-1315. by Wei Qu, Shin-ichi Hashimoto, Shinichi Morishita posted to algorithm cluster map rna-seq short-read tree by n00c on 2009-08-07 02:30:07 as along with 9 people mpizbioinfo heliopais druvus megraw nlapalu dakelley djkt operon natstreet
	ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 19. (1 October 2009), pp. 2607-2608. by Martin Morgan, Simon Anders, Michael Lawrence, Patrick Aboyoun, Hervé Pagès, Robert Gentleman posted to bioconductor r short-read shortread by n00c on 2009-08-05 17:02:02 as along with 13 people and 1 group darian jforment fstrozzi rschulz djkt jmeppley dswan torfinnnome walshtp jamesmorris joaocarrico natstreet druvus Bioinformatics Core Service
	The many faces of sequence alignment [My Copy] Brief Bioinform, Vol. 6, No. 1. (1 January 2005), pp. 6-22. by Serafim Batzoglou posted to alignment finite-automaton sequence by n00c on 2009-07-31 18:52:02 as along with 11 people and 2 groups nuttpo druvus pimmy timflutre BioNica treangen balajis dpollard sdvillal gjuggler yoanjacquemin Bioinformatics EisenLab
	Gene expression profiling by massively parallel sequencing. [My Copy] Genome research, Vol. 18, No. 1. (21 January 2008), pp. 172-177. by Tatiana Teixeira T. Torres, Muralidhar Metta, Birgit Ottenwälder, Christian Schlötterer posted to 454 bias gene-expression rna-seq by n00c on 2009-07-30 17:39:19 as along with 18 people hzoltan manduca druvus daed floatingpoint inesdesantiago orzenil guhjy jfr dchughes stsaft echinotrix giovanni caseybrown ghattem idonaldson ohara gracio
	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 visualization viewer tview sequence samtools sam li alignment by n00c on 2009-06-10 19:36:04 as along with 27 people and 2 groups cthachuk hzoltan seb1 heliopais urgi idonaldson GustavoLacerda stubrown cassj kshameer ciax polivares carlosjavierna jandot katholt jmcq guhjy orzenil jasontsai operon farhat AlexBateman chrisamiller nuin natstreet sandfire druvus BergmanLab Journal picks
	FM-KZ: An even simpler alphabet-independent FM-index [My Copy] In Proceedings of the Prague Stringology Conference~'06 (2006), pp. 226-241. by Rafa\l Przywarski, Szymon Grabowski, Gonzalo Navarro, Alejandro Salinger edited by Jan Holub, Jan žďárek posted to alphabet fm-kz huffman indexing kautz-zeckendorf by n00c on 2009-06-05 22:25:28 as
	An Alphabet-Friendly FM-Index [My Copy] String Processing and Information Retrieval (2004), pp. 150-160. by Paolo Ferragina, Giovanni Manzini, Veli Mäkinen, Gonzalo Navarro posted to burrows-wheeler indexing string-matching text by n00c on 2009-06-04 23:59:21 as

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eland	1
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