David Robelin's Top Recommendations

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	A practical algorithm for finding maximal exact matches in large sequence datasets using sparse suffix arrays [My Copy] Bioinformatics, Vol. 25, No. 13. (1 July 2009), pp. 1609-1616. by Zia Khan, Joshua S. Bloom, Leonid Kruglyak, Mona Singh posted by 3 people n00c guhjy djkt
	A space-efficient construction of the Burrows-Wheeler transform for genomic data. [My Copy] J Comput Biol, Vol. 12, No. 7. (September 2005), pp. 943-951. by R. A. Lippert, C. M. Mobarry, B. P. Walenz posted by 5 people lianping n00c antonkratz nedwards dleinhaeuser
	MICROBIOLOGY:Enhanced: Mice Are Not Furry Petri Dishes [My Copy] Science, Vol. 287, No. 5457. (25 February 2000), pp. 1409-1410. by James Bull, Bruce Levin posted by 1 person pszw
	Epigenetic inheritance based evolution of antibiotic resistance in bacteria [My Copy] BMC Evolutionary Biology, Vol. 8 (18 February 2008), 52. by Mike Adam, Bhuvana Murali, Nicole O. Glenn, Steven S. Potter posted by 1 person pszw
	Searching for SNPs with cloud computing [My Copy] Genome Biology, Vol. 10, No. 11. (2009), R134. by Ben Langmead, Michael Schatz, Jimmy Lin, Mihai Pop, Steven Salzberg posted by 2 people neils n00c
	BFAST: An Alignment Tool for Large Scale Genome Resequencing [My Copy] PLoS ONE, Vol. 4, No. 11. (11 November 2009), e7767. by Nils Homer, Barry Merriman, Stanley F. Nelson posted by 6 people n00c friendpine zwang druvus torfinnnome idonaldson
	Predicting Human Minisatellite Polymorphism [My Copy] Genome Research, Vol. 13, No. 5. (1 May 2003), pp. 856-867. by France Denoeud, Gilles Vergnaud, Gary Benson posted by 1 person n00c
	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 by 5 people jasontsai natstreet n00c heliopais druvus
	Estimating population haplotype frequencies from pooled SNP data using incomplete database information. [My Copy] Bioinformatics (Oxford, England) (27 October 2009) by Matti Pirinen posted by 1 person n00c
	Sense from sequence reads: methods for alignment and assembly [My Copy] Nat Meth, Vol. 6, No. 11s. (15 November 2009), pp. S6-S12. by Paul Flicek, Ewan Birney posted by 15 people pst owenlancaster Orengo Group Journal Picks robertrentzsch oannes74 Thaverkamp jasontsai natstreet seb1 druvus chvlyl GeeSharpMinor n00c venancio desany
	Computational methods for discovering structural variation with next-generation sequencing [My Copy] Nature Methods, Vol. 6, No. 11s. (15 October 2009), pp. S13-S20. by Paul Medvedev, Monica Stanciu, Michael Brudno posted by 20 people seb1 pst owenlancaster Orengo Group Journal Picks robertrentzsch oannes74 toszko kiekyon michaelbarton jasontsai sameersoi heliopais druvus GeeSharpMinor Peiyong n00c gdv desany Journal picks qayub
	The GNUMAP Algorithm: Unbiased Probabilistic Mapping of Oligonucleotides from Next-Generation Sequencing [My Copy] Bioinformatics (27 October 2009), btp614. by Nathan L. Clement, Quinn Snell, Mark J. Clement, et al.Peter C. Hollenhorst, Jahnvi Purwar, Barbara J. Graves, Bradley R. Cairns, W. Evan Johnson posted by 5 people darian operon heliopais n00c druvus
	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 by 4 people operon heliopais n00c druvus
	The theory of discovering rare variants via DNA sequencing [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 485. by Michael Wendl, Richard Wilson posted by 5 people jasontsai jsatkosk merpublic n00c druvus
	Characterizing natural variation using next-generation sequencing technologies [My Copy] Trends in Genetics, Vol. 25, No. 10. (02 October 2009), pp. 463-471. by Yoav Gilad, Jonathan K. Pritchard, Kevin Thornton posted by 7 people operon jwfoley skembel iSEEM djkt n00c natstreet
	Basic Bayesian Methods [My Copy] Topics in Biostatistics (2007), pp. 319-338. by Mark E. Glickman, David A. Dyk posted by 3 people n00c Borelli guhjy
	ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads [My Copy] Genome Biology, Vol. 10, No. 10. (1 October 2009), R103. by Iain MacCallum, Dariusz Przybylski, Sante Gnerre, et al.Joshua Burton, Ilya Shlyakhter, Andreas Gnirke, Joel Malek, Kevin McKernan, Swati Ranade, Terrance Shea, Louise Williams, Sarah Young, Chad Nusbaum, David Jaffe posted by 12 people djkt n00c azazello dakelley jgill GustavoLacerda ramonvidal justinhjohnson Mycology stajich druvus neils
	Is sequencing enlightenment ending the dark age of the transcriptome? [My Copy] Nature Methods, Vol. 6, No. 10. (01 October 2009), pp. 711-713. by Piero Carninci posted by 6 people inesdesantiago heliopais n00c druvus megraw maren
	Single-Nucleotide Polymorphisms in Soybean [My Copy] Genetics, Vol. 163, No. 3. (1 March 2003), pp. 1123-1134. by Y. L. Zhu, Q. J. Song, D. L. Hyten, et al.C. P. Van Tassell, L. K. Matukumalli, D. R. Grimm, S. M. Hyatt, E. W. Fickus, N. D. Young, P. B. Cregan posted by 1 person n00c
	galign: A Tool for Rapid Genome Polymorphism Discovery [My Copy] PLoS ONE, Vol. 4, No. 9. (25 September 2009), e7188. by Shai Shaham posted by 9 people maren scmelton natstreet Benedikt_Zimmermann n00c torfinnnome druvus Mycology stajich
	ssahaSNP A Polymorphism Detection Tool on a Whole Genome Scale [My Copy] 2005 IEEE Computational Systems Bioinformatics Conference - Workshops, Vol. 0 (2005), pp. 251-254. by Zemin Ning, Mario Caccamo, James C. Mullikin posted by 1 person n00c
	SNP Databases [My Copy] Single Nucleotide Polymorphisms (2009), pp. 43-71. by Christopher Phillips posted by 1 person n00c
	Pyrosequencing for SNP Genotyping [My Copy] Single Nucleotide Polymorphisms (2009), pp. 123-133. by Jose L. Royo, Jose J. Galán posted by 1 person n00c
	Mining SNPs from DNA Sequence Data; Computational Approaches to SNP Discovery and Analysis [My Copy] Single Nucleotide Polymorphisms, Vol. 578 (2009), pp. 73-91. by Jan Oeveren, Antoine Janssen posted by 3 people darian sandfire n00c
	Next-Generation Sequencing Methods: Impact of Sequencing Accuracy on SNP Discovery [My Copy] Single Nucleotide Polymorphisms (2009), pp. 95-111. by Eugene Y. Chan posted by 1 person n00c
	A report on the 2009 SIG on short read sequencing and algorithms (Short-SIG) [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2863-2864. by Michael Brudno, Paul Medvedev, Jens Stoye, Francisco M. De La Vega posted by 4 people seb1 idonaldson n00c druvus
	q-Gram Matching Using Tree Models [My Copy] IEEE Transactions on Knowledge and Data Engineering, Vol. 18, No. 4. (2006), pp. 433-447. by Prahlad Fogla, Wenke Lee posted by 1 person n00c
	Direct RNA sequencing. [My Copy] Nature, Vol. 461, No. 7265. (8 October 2009), pp. 814-818. by Fatih Ozsolak, Adam R. Platt, Dan R. Jones, et al.Jeffrey G. Reifenberger, Lauryn E. Sass, Peter McInerney, John F. Thompson, Jayson Bowers, Mirna Jarosz, Patrice M. Milos posted by 23 people pmalkus hzoltan manduca gotgenes jwfoley GeeSharpMinor mlc39 colinveal reyez TRHvidsten djkt ppgardne dchughes heliopais vingron nzm n00c lp2 toni_marco dswan Journal picks kinestetika Bioinformatics - CRUK
	Computation of Rank and Select Functions on Hierarchical Binary String and Its Application to Genome Mapping Problems for Short-Read DNA Sequences [My Copy] Journal of Computational Biology (22 September 2009), 090922085727012. by Kouichi Kimura, Yutaka Suzuki, Sumio Sugano, Asako Koike posted by 4 people seb1 justinhjohnson n00c druvus
	Analyzing salt-marsh fungal diversity: comparing ARISA fingerprinting with clone sequencing and pyrosequencing [My Copy] Fungal Ecology, Vol. 2, No. 4. (November 2009), pp. 160-167. by Patrick M. Gillevet, Masoumeh Sikaroodi, Albert P. Torzilli posted by 1 person n00c
	Genomic Diversity and Evolution of Mycobacterium ulcerans Revealed by Next-Generation Sequencing [My Copy] PLoS Pathog, Vol. 5, No. 9. (11 September 2009), e1000580. by Weihong Qi, Michael Käser, Katharina Röltgen, Dorothy Yeboah-Manu, Gerd Pluschke posted by 3 people druvus maren n00c
	Disruption of LANA in Rhesus Rhadinovirus Generates a Highly Lytic Recombinant Virus [My Copy] J. Virol., Vol. 83, No. 19. (1 October 2009), pp. 9786-9802. by Kwun W. Wen, Dirk P. Dittmer, Blossom Damania posted by 1 person n00c
	Bayesian statistical methods for genetic association studies. [My Copy] Nature reviews. Genetics, Vol. 10, No. 10. (01 October 2009), pp. 681-690. by Matthew Stephens, David J. Balding posted by 26 people welliegirl Geknitics shikin heliopais Zephyrus nuin matjes pkonings fastjoe23 guhjy maren gregdavisfromnj natstreet TRHvidsten zufar n00c lwaldron megraw rdiaz kimorley leliavski misonneh Journal picks qayub daforerog druvus
	Why greed works for shortest common superstring problem [My Copy] Theoretical Computer Science (15 September 2009) by Bin Ma posted by 3 people seb1 n00c Neeperando
	SEQMAN [My Copy] Sequence Data Analysis Guidebook (1997), pp. 75-89. by Simon R. Swindell, Thomas N. Plasterer posted by 1 person n00c
	An extension of the Burrows–Wheeler Transform☆ [My Copy] Theoretical Computer Science (27 July 2007) by S. Mantaci, A. Restivo, G. Rosone, M. Sciortino posted by 2 people lianping n00c
	Fast BWT in small space by blockwise suffix sorting [My Copy] Theoretical Computer Science (27 July 2007) by J. Karkkainen posted by 1 person n00c
	Efficient Construction of FM-index Using Overlapping Block Processing for Large Scale Texts [My Copy] Advances in Information Retrieval (2007), pp. 113-123. by Di Zhang, Yunquan Zhang, Jing Chen posted by 1 person n00c
	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 by 24 people cthachuk hzoltan darian nuin fenghezi behindtherabbit jandot walshtp torfinnnome stubrown Bioinformatics dswan BergmanLab polivares orzenil natstreet iSEEM djkt jmcq n00c heliopais ppgardne Journal picks druvus
	Parametric complexity of sequence assembly: theory and applications to next generation sequencing. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 16, No. 7. (July 2009), pp. 897-908. by Niranjan Nagarajan, Mihai Pop posted by 4 people n00c dakelley sitalange nuin
	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 by 9 people ethanmj ptrobajo n00c orzenil torfinnnome inesdesantiago Journal picks qayub rmk
	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 by 21 people hzoltan chvlyl operon kshameer djkt rtogawa seb1 idonaldson nuin debasis jgill GeeSharpMinor Journal picks sotacam torfinnnome walshtp heliopais jandot n00c rschulz druvus
	Updates to the RMAP short-read mapping software [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2841-2842. by Andrew D. Smith, Wen-Yu Chung, Emily Hodges, et al.Jude Kendall, Greg Hannon, James Hicks, Zhenyu Xuan, Michael Q. Zhang posted by 10 people seb1 darian natstreet djkt rtogawa idonaldson heliopais Journal picks n00c druvus
	Streaming Algorithms for Biological Sequence Alignment on GPUs [My Copy] Parallel and Distributed Systems, IEEE Transactions on In Parallel and Distributed Systems, IEEE Transactions on, Vol. 18, No. 9. (2007), pp. 1270-1281. by Liu Weiguo, B. Schmidt, G. Voss, W. Muller-Wittig posted by 1 person n00c
	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 by 32 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 Journal picks jandot pkonings danmaclean daforerog frohike rschulz gangcai
	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 by 6 people n00c dswan Journal picks jandot sitalange darian
	Mobyle: a new full web bioinformatics framework. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 22. (15 November 2009), pp. 3005-3011. by Bertrand Néron, Hervé Ménager, Corinne Maufrais, et al.Nicolas Joly, Julien Maupetit, Sébastien Letort, Sébastien Carrere, Pierre Tuffery, Catherine Letondal posted by 12 people reyez inesdesantiago daforerog gwallau guhjy sebastien_vigneau dullhunk n00c rdiaz nuin pekrau druvus
	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 by 25 people seb1 hzoltan liqbbi chvlyl ongenetics psique fenghezi n00c dswan jmanning2k torfinnnome GeeSharpMinor pkonings neils djkt daforerog PabloMarin stubrown danmaclean xingxu vplagnol druvus Journal picks jandot frohike
	A method for finding single-nucleotide polymorphisms with allele frequencies in sequences of deep coverage [My Copy] BMC Bioinformatics, Vol. 6, No. 1. (2005), 220. by Jianmin Wang, Xiaoqiu Huang posted by 2 people n00c orzenil
	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 by 9 people seb1 djkt reyez fpattyn danmaclean Journal picks ppgardne n00c druvus
	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 by 30 people hzoltan darian dakelley tonamswish inesdesantiago Thaverkamp BergmanLab idonaldson heliopais owhitney GustavoLacerda ngehlenborg sandfire fpattyn xianjun katholt stubrown orzenil operon guhjy kongl Mycology stajich n00c torfinnnome nuin kshameer neils druvus natstreet
	T-REKS: identification of Tandem REpeats in sequences with a K-meanS based algorithm [My Copy] Bioinformatics, Vol. 25, No. 20. (15 October 2009), pp. 2632-2638. by Julien Jorda, Andrey V. Kajava posted by 6 people Bioinformatics Core Service jforment reyez natstreet n00c robfsouza
	PerM: efficient mapping of short sequencing reads with periodic full sensitive spaced seeds [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2514-2521. by Yangho Chen, Tade Souaiaia, Ting Chen posted by 10 people darian dswan operon fishtank BergmanLab polivares n00c torfinnnome druvus natstreet
	Single-molecule sequencing of an individual human genome [My Copy] Nature Biotechnology, Vol. 27, No. 9. (10 August 2009), pp. 847-850. by Dmitry Pushkarev, Norma F. Neff, Stephen R. Quake posted by 29 people JamesBarger n00c ethanmj MurphysLab leliavski inesdesantiago fenghezi megraw kintoki neils daforerog gangcai mqbphcw3 jmanning2k jonilaserson druvus alexknight Journal picks qayub natstreet mtagaya Shared Literature Resource of the Microbial Fitness Group - MPI Bremen kinestetika guhjy installe psique SeaBird Bioinformatics danmaclean
	PineSAP--sequence alignment and SNP identification pipeline [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2609-2610. by Jill L. Wegrzyn, Jennifer M. Lee, John Liechty, David B. Neale posted by 8 people jasontsai jsatkosk daforerog djkt operon nuin n00c druvus
	Sensitive and accurate detection of copy number variants using read depth of coverage [My Copy] Genome Research, Vol. 19, No. 9. (5 September 2009), pp. 1586-1592. by Seungtai Yoon, Zhenyu Xuan, Vladimir Makarov, Kenny Ye, Jonathan Sebat posted by 8 people woodson8 scmelton torfinnnome dakelley n00c rdiaz jbhiatt pkonings
	BayesCall: A model-based base-calling algorithm for high-throughput short-read sequencing [My Copy] Genome Research, Vol. 19, No. 10. (6 October 2009), pp. 1884-1895. by Wei-Chun Kao, Kristian Stevens, Yun S. Song posted by 16 people heliopais dakelley lp2 megraw rdiaz torfinnnome djkt n00c farhat druvus BergmanLab polivares Mycology stajich fpattyn jbhiatt
	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 by 11 people absterga n00c woodson8 fenghezi ericsuh JLab BergmanLab polivares prensner frohike jbhiatt
	Repeats in genomic DNA: mining and meaning. [My Copy] Current opinion in structural biology, Vol. 8, No. 3. (June 1998), pp. 333-337. by J. Jurka posted by 2 people n00c orzenil
	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 by 15 people darian Bioinformatics Core Service jforment fstrozzi rschulz djkt jmeppley dswan torfinnnome walshtp jamesmorris joaocarrico natstreet n00c druvus
	Comprehensive resequence analysis of a 97 kb region of chromosome 10q11.2 containing the MSMB gene associated with prostate cancer [My Copy] Human Genetics (31 July 2009) by Meredith Yeager, Zuoming Deng, Joseph Boland, et al.Casey Matthews, Jennifer Bacior, Victor Lonsberry, Amy Hutchinson, Laura Burdett, Liqun Qi, Kevin Jacobs, Jesus Gonzalez-Bosquet, Sonja Berndt, Richard Hayes, Robert Hoover, Gilles Thomas, David Hunter, Michael Dean, Stephen Chanock posted by 2 people n00c xingxu
	Comparison of next generation sequencing technologies for transcriptome characterization. [My Copy] BMC genomics, Vol. 10, No. 1. (1 August 2009), 347. by P. Kerr Wall, Jim Leebens-Mack, André S. Chanderbali, et al.Abdelali Barakat, Erik Wolcott, Haiying Liang, Lena Landherr, Lynn P. Tomsho, Yi Hu, John E. Carlson, Hong Ma, Stephan C. Schuster, Douglas E. Soltis, Pamela S. Soltis, Naomi Altman, Claude W. dePamphilis posted by 24 people hzoltan daveGerrard daforerog feeldead n00c debasis jgill mqbphcw3 sotacam GustavoLacerda Journal picks adamjamesreid Bioinformatics dswan mlog LabDros gwallau ewilban1 ThomasDOtto jasontsai BergmanLab polivares natstreet druvus
	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 by 8 people dakelley nuin walshtp djkt n00c natstreet druvus operon
	RNA-MATE: a recursive mapping strategy for high-throughput RNA-sequencing data [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2615-2616. by Nicole Cloonan, Qinying Xu, Geoffrey J. Faulkner, et al.Darrin F. Taylor, Dave T. P. Tang, Gabriel Kolle, Sean M. Grimmond posted by 16 people hzoltan idonaldson cthachuk ethanmj cassj GeeSharpMinor Journal picks sbmontgomery shyamsg natstreet dswan druvus samgj n00c guhjy GustavoLacerda
	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 by 20 people torfinnnome hzoltan darian debasis mqbphcw3 stubrown Thaverkamp PabloMarin jasontsai Journal picks ThomasDOtto heliopais guhjy JLab BergmanLab cisevol n00c natstreet druvus jbhiatt
	RePS: a sequence assembler that masks exact repeats identified from the shotgun data. [My Copy] Genome research, Vol. 12, No. 5. (1 May 2002), pp. 824-831. by Jun Wang, Gane Ka-Shu K. Wong, Peixiang Ni, et al.Yujun Han, Xiangang Huang, Jianguo Zhang, Chen Ye, Yong Zhang, Jianfei Hu, Kunlin Zhang, Xin Xu, Lijuan Cong, Hong Lu, Xide Ren, Xiaoyu Ren, Jun He, Lin Tao, Douglas A. Passey, Jian Wang, Huanming Yang, Jun Yu, Songgang Li posted by 4 people natstreet seb1 n00c orzenil
	Factor Oracle: A New Structure for Pattern Matching [My Copy] SOFSEM’99: Theory and Practice of Informatics (2009), pp. 758-758. by Cyril Allauzen, Maxime Crochemore, Mathieu Raffinot posted by 1 person n00c
	Converting suffix trees into factor/suffix oracles [My Copy] Journal of Discrete Algorithms, Vol. 6, No. 2. (June 2008), pp. 324-340. by I. Rusu posted by 1 person n00c
	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 by 1 person n00c
	Adjust quality scores from alignment and improve sequencing accuracy. [My Copy] Nucleic acids research, Vol. 32, No. 17. (2004), pp. 5183-5191. by M. Li, M. Nordborg, L. M. Li posted by 1 person n00c
	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 by 1 person n00c
	Fast Semi-Local Alignment for DN Sequence Database Search [My Copy] Pattern Recognition, International Conference on, Vol. 3 (2002), 31019. by Yong S. Chen, Yi P. Hung, Chiou S. Fuh posted by 1 person n00c
	Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2865-2871. by Kai Ye, Marcel H. Schulz, Quan Long, Rolf Apweiler, Zemin Ning posted by 6 people torfinnnome dakelley n00c natstreet druvus vplagnol
	Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding [My Copy] Genome Research, Vol. 19, No. 9. (22 September 2009), pp. 1527-1541. by Kevin J. McKernan, Heather E. Peckham, Gina L. Costa, et al.Stephen F. McLaughlin, Yutao Fu, Eric F. Tsung, Christopher R. Clouser, Cisyla Duncan, Jeffrey K. Ichikawa, Clarence C. Lee, Zheng Zhang, Swati S. Ranade, Eileen T. Dimalanta, Fiona C. Hyland, Tanya D. Sokolsky, Lei Zhang, Andrew Sheridan, Haoning Fu, Cynthia L. Hendrickson, Bin Li, Lev Kotler, Jeremy R. Stuart, Joel A. Malek, Jonathan M. Manning, Alena A. Antipova, Damon S. Perez, Michael P. Moore, Kathleen C. Hayashibara, Michael R. Lyons, Robert E. Beaudoin, Brittany E. Coleman, Michael W. Laptewicz, Adam E. Sannicandro, Michael D. Rhodes, Rajesh K. Gottimukkala, Shan Yang, Vineet Bafna, Ali Bashir, Andrew MacBride, Can Alkan, Jeffrey M. Kidd, Evan E. Eichler, Martin G. Reese, Francisco M. De La Vega, Alan P. Blanchard posted by 18 people hzoltan gbenson adijr chrisamiller heliopais daforerog druvus djkt psique sameersoi APRegier fenghezi jmanning2k xingxu pkonings n00c jandot natstreet
	PIQA: pipeline for Illumina G1 genome analyzer data quality assessment [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2438-2439. by A. Martinez-Alcantara, E. Ballesteros, C. Feng, et al.M. Rojas, H. Koshinsky, V. Y. Fofanov, P. Havlak, Y. Fofanov posted by 3 people djkt guhjy n00c
	An introduction to scripting in Ruby for biologists. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 221. by Jan Aerts, Andy Law posted by 29 people isimpson kshameer n00c Zephyrus nuin sobolevnrm jago lwaldron apaydin natstreet Bioinformatics - CRUK Stew silberbauer mfenner phoenixzxl renatomilani abhishek_tiwari rschulz Journal picks sjcockell dullhunk druvus neils daforerog fgibson leemond31 brianb Bioinformatics dswan
	A probabilistic approach for SNP discovery in high-throughput human resequencing data [My Copy] Genome Research, Vol. 19, No. 9. (15 September 2009), pp. 1542-1552. by Rose Hoberman, Joana Dias, Bing Ge, et al.Eef Harmsen, Michael Mayhew, Dominique J. Verlaan, Tony Kwan, Ken Dewar, Mathieu Blanchette, Tomi Pastinen posted by 8 people druvus sameersoi megraw guhjy n00c fenghezi natstreet djkt
	RazerSâfast read mapping with sensitivity control [My Copy] Genome Research, Vol. 19, No. 9. (10 September 2009), pp. 1646-1654. by David Weese, Anne-Katrin Emde, Tobias Rausch, Andreas DÃ¶ring, Knut Reinert posted by 7 people heliopais Journal picks jandot n00c reyez druvus natstreet
	New Refinement Techniques for Longest Common Subsequence Algorithms [My Copy] String Processing and Information Retrieval (2003), pp. 287-303. by Lasse Bergroth, Harri Hakonen, Juri Väisänen posted by 1 person n00c
	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 by 1 person n00c
	Speeding-up Hirschberg and Hunt-Szymanski LCS Algorithms [My Copy] String Processing and Information Retrieval, International Symposium on, Vol. 0 (2001), 0059. by M. Crochemore, C. Iliopoulos, Y. Pinzon posted by 1 person n00c
	Tree traversal in C without recursion [My Copy] C/C++ Users J., Vol. 18, No. 7. (2000), pp. 56-59. by Valery Creux posted by 2 people n00c hgfernan
	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 by 10 people hzoltan microRNA microRNA heliopais dswan natstreet fishtank n00c kutter01 samgj
	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 by 10 people n00c fenghezi nicolesoranzo mtagaya reyez Journal picks pkonings psique djkt jbhiatt
	Average-Optimal Multiple Approximate String Matching [My Copy] Combinatorial Pattern Matching: 14th Annual Symposium, CPM 2003, Morelia, Michoacán, Mexico, June 25-27, 2003. Proceedings (2003), pp. 1018-1018. by Kimmo Fredriksson, Gonzalo Navarro posted by 1 person n00c
	Escaping RGBland: Selecting colors for statistical graphics [My Copy] Computational Statistics & Data Analysis, Vol. 53, No. 9. (01 July 2009), pp. 3259-3270. by Achim Zeileis, Kurt Hornik, Paul Murrell posted by 1 person n00c
	SNP-o-matic [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2434-2435. by Heinrich M. Manske, Dominic P. Kwiatkowski posted by 13 people hzoltan darian GeeSharpMinor daforerog ThomasDOtto natstreet misonneh druvus guhjy Zephyrus orzenil n00c Journal picks
	Space Efficient Suffix Trees [My Copy] Foundations of Software Technology and Theoretical Computer Science (1998), pp. 1053-1053. by Ian Munro, Venkatesh Raman, Srinivasa S. Rao posted by 2 people n00c dleinhaeuser
	Compressed Compact Suffix Arrays [My Copy] Combinatorial Pattern Matching (2004), pp. 420-433. by Veli Mäkinen, Gonzalo Navarro posted by 2 people n00c dleinhaeuser
	JBrowse: A next-generation genome browser [My Copy] Genome Research, Vol. 19, No. 9. (1 September 2009), pp. 1630-1638. by Mitchell E. Skinner, Andrew V. Uzilov, Lincoln D. Stein, Christopher J. Mungall, Ian H. Holmes posted by 31 people hzoltan darian mkiyer daforerog n00c torfinnnome fenghezi djkt WXuan Zephyrus idonaldson pkonings inesdesantiago jcbarret jamselem aprasad urgi polivares cassj guhjy giovanni druvus natstreet fpattyn BergmanLab cisevol danmaclean Journal picks timhubbard operon neils
	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 by 45 people Geknitics cthachuk hzoltan chvlyl sameersoi hpaces gdv GeeSharpMinor idonaldson darian daveGerrard tharris Yanno inesdesantiago jcaddy agbiotec humburg Zephyrus daforerog stubrown GustavoLacerda torfinnnome natstreet BergmanLab polivares orzenil kongl guhjy druvus n00c leemond31 nuin operon jasontsai jmeppley rdiaz michaelbarton Bioinformatics dswan reyez kshameer TRHvidsten djkt Journal picks ppgardne
	SHREC: a short-read error correction method [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2157-2163. by Jan Schroder, Heiko Schroder, Simon J. Puglisi, Ranjan Sinha, Bertil Schmidt posted by 14 people adthrasher dakelley skembel thegoose katholt sotacam djkt rtogawa torfinnnome Journal picks natstreet druvus n00c jmeppley
	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 by 26 people heliopais hzoltan dakelley sotacam lh49 djkt rtogawa cassj Bioinformatics dswan torfinnnome rschulz BergmanLab natstreet druvus jasontsai jmeppley SIMR bioinformatics ghattem nuin polivares n00c aprasad Journal picks niallhaslam idoerg
	VarScan: variant detection in massively parallel sequencing of individual and pooled samples [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2283-2285. by Daniel C. Koboldt, Ken Chen, Todd Wylie, et al.David E. Larson, Michael D. McLellan, Elaine R. Mardis, George M. Weinstock, Richard K. Wilson, Li Ding posted by 19 people hzoltan Peiyong darian seb1 heliopais mkiyer dakelley djkt Journal picks PabloMarin guhjy n00c orzenil natstreet druvus Mycology stajich SIMR bioinformatics malcook
	A fast hybrid short read fragment assembly algorithm [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2279-2280. by Bertil Schmidt, Ranjan Sinha, Bryan Beresford-Smith, Simon J. Puglisi posted by 18 people hzoltan cthachuk orzenil GustavoLacerda APRegier dakelley katholt GeeSharpMinor dayjm djkt Bioinformatics dswan Journal picks pachorip natstreet druvus n00c jmeppley
	Detection of single nucleotide variations in expressed exons of the human genome using RNA-Seq [My Copy] Nucl. Acids Res., Vol. 37, No. 16. (1 September 2009), e106. by Iouri Chepelev, Gang Wei, Qingsong Tang, Keji Zhao posted by 8 people hzoltan woodson8 n00c guhjy fenghezi SIMR bioinformatics ghattem GeeSharpMinor
	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 by 3 people lianping jmanning2k n00c
	Indexing compressed text [My Copy] J. ACM, Vol. 52, No. 4. (2005), pp. 552-581. by Paolo Ferragina, Giovanni Manzini posted by 1 person n00c
	Comparative profiling of the transcriptional response to infection in two species of Drosophila by short-read cDNA sequencing. [My Copy] BMC genomics, Vol. 10, No. 1. (07 June 2009), 259. by Timothy B. Sackton, Andrew G. Clark posted by 4 people n00c fsm Journal picks avilella
	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 by 30 people cthachuk hzoltan seb1 heliopais urgi idonaldson GustavoLacerda stubrown cassj kshameer ciax BergmanLab polivares carlosjavierna jandot katholt jmcq guhjy orzenil jasontsai operon farhat Journal picks AlexBateman chrisamiller nuin n00c natstreet sandfire druvus