Neeperando's library 174 articles Export

	Harnessing parallelism in multicore clusters with the all-pairs and wavefront abstractions [My Copy] In HPDC '09: Proceedings of the 18th ACM international symposium on High performance distributed computing (2009), pp. 1-10. by Li Yi, Christopher Moretti, Scott Emrich, Kenneth Judd, Douglas Thain posted to workqueue thesis parallel distributed by Neeperando on 2009-10-23 22:43:32 as along with 1 person and 1 group bbjwerner Software-Architecture
	Patterns of somatic mutation in human cancer genomes [My Copy] Nature, Vol. 446, No. 7132. (08 March 2007), pp. 153-158. by Christopher Greenman, Philip Stephens, Raffaella Smith, et al.Gillian L. Dalgliesh, Christopher Hunter, Graham Bignell, Helen Davies, Jon Teague, Adam Butler, Claire Stevens, Sarah Edkins, Sarah O/'Meara, Imre Vastrik, Esther E. Schmidt, Tim Avis, Syd Barthorpe, Gurpreet Bhamra, Gemma Buck, Bhudipa Choudhury, Jody Clements, Jennifer Cole, Ed Dicks, Simon Forbes, Kris Gray, Kelly Halliday, Rachel Harrison, Katy Hills, Jon Hinton, Andy Jenkinson, David Jones, Andy Menzies, Tatiana Mironenko, Janet Perry, Keiran Raine, Dave Richardson, Rebecca Shepherd, Alexandra Small, Calli Tofts, Jennifer Varian, Tony Webb, Sofie West, Sara Widaa, Andy Yates, Daniel P. Cahill, David N. Louis, Peter Goldstraw, Andrew G. Nicholson, Francis Brasseur, Leendert Looijenga, Barbara L. Weber, Yoke-Eng Chiew, Anna deFazio, Mel F. Greaves, Anthony R. Green, Peter Campbell, Ewan Birney, Douglas F. Easton, Georgia Chenevix-Trench, Min-Han Tan, Sok K. Khoo, Bin T. Teh, Siu T. Yuen, Suet Y. Leung, Richard Wooster, P. Andrew Futreal, Michael R. Stratton posted to thesis by Neeperando on 2009-10-14 02:22:24 as along with 15 people xingxu ssgong dbensasson koller kentsis jfr massivemayhem efge Garamonfok daed Petersarkies ramensky frohike cerami srp33
	Why greed works for shortest common superstring problem [My Copy] Theoretical Computer Science (15 September 2009) by Bin Ma posted to thesis assembly by Neeperando on 2009-10-14 01:45:14 as along with 2 people seb1 n00c
	Mosaik - The Marth Lab [My Copy] posted to assembly comparative thesis by Neeperando on 2009-08-04 16:36:39 as
	Condor and the Grid [My Copy] by Douglas Thain, Todd Tannenbaum, Miron Livny posted to condor distributed grid thesis by Neeperando on 2009-07-30 20:02:53 as
	Chirp: a practical global filesystem for cluster and Grid computing [My Copy] Journal of Grid Computing, Vol. 7, No. 1. (1 March 2009), pp. 51-72. by Douglas Thain, Christopher Moretti, Jeffrey Hemmes posted to chirp distributed filesystem grid thesis by Neeperando on 2009-07-30 19:42:26 as along with 3 people and 1 group thiagomanel aespinosa schamm TELEPAT-ES
	Basic local alignment search tool. [My Copy] Journal of molecular biology, Vol. 215, No. 3. (5 October 1990), pp. 403-410. by S. F. Altschul, W. Gish, W. Miller, E. W. Myers, D. J. Lipman posted to alignment thesis by Neeperando on 2009-06-02 18:35:02 as along with 72 people and 6 groups mtaschuk sjcockell niallhaslam djohnson thegoose humburg timhubbard pachorip n00c maria_hauser rpetrenko parnell yylin esyoun APRegier idoerg robert85 thegoose2 daforerog mcbla coela alessandroparini bertelsen Blackbeard florisbuijzen laurabailey treangen pwais mmartin tharris dmp camster davidng evaf dragonrez jwm jmeppley Ayest RMGraze ea yas balajis alexg indigoviolet moborg arcticrasta dullhunk dgront caporaso michC myui BioNica CitoJam rabio timflutre lusk cjeans incovoma beatrizfernandez wenhan jtomasch GustavoLacerda sgoetz siebertm ichbins81 jofiel Thaverkamp shung marti ashaytan benwei granujilla C. elegans / WormBase dbk-lab EisenLab T_lab biomedical-nlp Microbial-Ecology
	Malaria Fact Sheet [My Copy] (January 2009) posted to malaria thesis by Neeperando on 2009-06-01 16:55:27 as
	Proposal for the Eight Genomes Cluster for Genus Anopheles [My Copy] (July 2004) by Nora J. Besansky posted to gambiae thesis by Neeperando on 2009-06-01 16:44:13 as
	Speciation Within Anopheles gambiae-- the Glass Is Half Full [My Copy] Science, Vol. 298, No. 5591. (4 October 2002), pp. 115-117. by Della A. Torre, C. Costantini, N. J. Besansky, et al.A. Caccone, V. Petrarca, J. R. Powell, M. Coluzzi posted to gambiae thesis by Neeperando on 2009-06-01 16:06:26 as
	PipMaker---A Web Server for Aligning Two Genomic DNA Sequences [My Copy] Genome Res., Vol. 10, No. 4. (1 April 2000), pp. 577-586. by Scott Schwartz, Zheng Zhang, Kelly A. Frazer, et al.Arian Smit, Cathy Riemer, John Bouck, Richard Gibbs, Ross Hardison, Webb Miller posted to alignment thesis by Neeperando on 2009-05-19 00:03:34 as along with 4 people aprasad michC adijr wenhan
	AVID: A Global Alignment Program [My Copy] Genome Research, Vol. 13, No. 1. (1 January 2003), pp. 97-102. by Nick Bray, Inna Dubchak, Lior Pachter posted to alignment thesis by Neeperando on 2009-05-18 23:41:47 as along with 5 people and 1 group n00c mhiromi indigoviolet adijr yoanjacquemin EisenLab
	Structural variation in the human genome [My Copy] Nature Reviews Genetics, Vol. 7, No. 2. (01 February 2006), pp. 85-97. by Lars Feuk, Andrew R. Carson, Stephen W. Scherer posted to structural thesis variation by Neeperando on 2009-05-14 20:26:58 as along with 25 people and 11 groups ajbattle bertelsen baizhang APRegier xingxu daforerog psique Zephyrus dlobo jandot cgreal balajis bala balicea dchughes tabu darcyduke adepace AaronDarling rdiaz massivemayhem cat_worth jmrivort ccr Lip GEB CGREL structural_bioinformatics Bioinformatics EisenLab SFX-Verde-team-MITLibraries G4ID G-quadruplex Supramolecular DictyosteliumGroup Genetics-of-Gambling
	PEMer: a computational framework with simulation-based error models for inferring genomic structural variants from massive paired-end sequencing data [My Copy] Genome Biology, Vol. 10, No. 2. (23 February 2009), R23. by Jan O. Korbel, Alexej Abyzov, Xinmeng J. Mu, et al.Nicholas Carriero, Philip Cayting, Zhengdong Zhang, Michael Snyder, Mark B. Gerstein posted to end paired structural thesis variation by Neeperando on 2009-05-14 20:25:01 as along with 11 people orzenil adthrasher jessopher jrvalcourt dakelley APRegier smiddha natstreet djkt poschm druvus
	Figaro: a novel statistical method for vector sequence removal [My Copy] Bioinformatics, Vol. 24, No. 4. (15 February 2008), pp. 462-467. by James R. White, Michael Roberts, James A. Yorke, Mihai Pop posted to assembly thesis by Neeperando on 2009-05-13 22:03:48 as along with 7 people and 1 group APRegier thegoose2 operon druvus guhjy GustavoLacerda tharris LabDros
	Minimus: a fast, lightweight genome assembler. [My Copy] BMC bioinformatics, Vol. 8 (26 February 2007), 64. by Daniel D. Sommer, Arthur L. Delcher, Steven L. Salzberg, Mihai Pop posted to amos assembly thesis by Neeperando on 2009-05-13 21:40:47 as along with 3 people azazello Thaverkamp eckart_bindewald
	AMOS - A Modular Open-Source Assembler [My Copy] posted to thesis by Neeperando on 2009-05-13 21:35:53 as along with 1 person n00c
	Assembling genomes on large-scale parallel computers [My Copy] Journal of Parallel and Distributed Computing, Vol. In Press, Corrected Proof by A. Kalyanaraman, S. J. Emrich, P. S. Schnable, S. Aluru posted to assembly parallel thesis by Neeperando on 2009-05-12 17:12:34 as along with 1 person GustavoLacerda
	Short read fragment assembly of bacterial genomes [My Copy] Genome Research, Vol. 18, No. 2. (1 February 2008), pp. 324-330. by Mark J. Chaisson, Pavel A. Pevzner posted to assembly read short thesis by Neeperando on 2009-05-11 21:39:01 as along with 17 people n00c pachorip APRegier thegoose2 dakelley hpaces idoerg druvus jasontsai acn orzenil azazello GustavoLacerda dandaman caseybrown iris42 tharris
	Separation of nearly identical repeats in shotgun assemblies using defined nucleotide positions, DNPs [My Copy] Bioinformatics, Vol. 18, No. 3. (1 March 2002), pp. 379-388. by Martti T. Tammi, Erik Arner, Tom Britton, Bjorn Andersson posted to assembly thesis validation by Neeperando on 2009-05-08 20:28:00 as along with 1 person dakelley
	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 assembly thesis by Neeperando on 2009-05-07 21:49:57 as along with 14 people and 2 groups aheilbut jengeldk n00c robsyme idoerg dakelley brl A_Olympia briann jmeppley AaronDarling nedwards azazello jwhitney Philosophy_of_Information Blog_and_Wiki_Research
	Pash: Efficient Genome-Scale Sequence Anchoring by Positional Hashing [My Copy] Genome Res., Vol. 14, No. 4. (1 April 2004), pp. 672-678. by Ken J. Kalafus, Andrew R. Jackson, Aleksandar Milosavljevic posted to assembly comparative thesis by Neeperando on 2009-05-06 20:11:38 as along with 1 person yoanjacquemin
	Algorithms on strings, trees, and sequences : computer science and computational biology [My Copy] (15 January 2007) by Dan Gusfield posted to assembly string thesis tree by Neeperando on 2009-05-05 22:07:31 as along with 20 people and 2 groups abergeron n00c stharward enricos Scis0000002 mircea renewang timflutre ujh creswick tijl grzegorz luispedro emranmohdtamil hoangmit thonnardo pool007 nedwards ep161302 reyez Centre de Recherches Interdisciplinaires Pattern-Analysis
	Many-core algorithms for statistical phylogenetics [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1370-1376. by Marc A. Suchard, Andrew Rambaut posted to parallel phylogenetic tree by Neeperando on 2009-04-16 17:43:54 as along with 9 people and 1 group mlangill druvus nuin AlexBateman bmajoros djkt jmeppley svenrahmann rdiaz iSEEM
	Advances to Bayesian network inference for generating causal networks from observational biological data [My Copy] Bioinformatics, Vol. 20, No. 18. (12 December 2004), pp. 3594-3603. by Jing Yu, V. Anne Smith, Paul P. Wang, Alexander J. Hartemink, Erich D. Jarvis posted to inference network by Neeperando on 2009-04-15 21:59:42 as along with 5 people arsyed Borelli ggallone heliopais roys
	Triggers and tricks of Plasmodium sexual development. [My Copy] Curr Opin Microbiol, Vol. 10, No. 6. (December 2007), pp. 547-553. by T. W. Kooij, K. Matuschewski posted to network plasmodium by Neeperando on 2009-04-15 20:10:17 as
	Reverse engineering of regulatory networks in human B cells. [My Copy] Nat Genet (20 March 2005) by Katia Basso, Adam A A. Margolin, Gustavo Stolovitzky, Ulf Klein, Riccardo Dalla-Favera, Andrea Califano posted to inference network by Neeperando on 2009-04-15 18:53:19 as along with 12 people akraemer verdicchio ggallone snuppepuppan kentsis dragonrez jfr wnpx raiyar naegele heliopais lylu
	Cluster analysis and display of genome-wide expression patterns [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 95, No. 25. (8 December 1998), pp. 14863-14868. by Michael B. Eisen, Paul T. Spellman, Patrick O. Brown, David Botstein posted to inference network by Neeperando on 2009-04-15 17:52:21 as along with 34 people and 3 groups antonkratz potatongy drungows colmryan jplatig rsaito baldigroup daforerog karinlag ronglais operon Borelli pengchy macowell ggrot miguel textoris okarsligil pcahan1 lfriedl balajis nuke2005 lyongu maryee wnpx nirfriedman dquest karfunkel dps kintoki jo_davies tvdbulck bozdagd roys kdl Bioinformatics BUiGEM
	ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. [My Copy] BMC Bioinformatics, Vol. 7 Suppl 1 (2006) by A. A. Margolin, I. Nemenman, K. Basso, et al.C. Wiggins, G. Stolovitzky, R. Dalla Favera, A. Califano posted to inference network by Neeperando on 2009-04-15 17:37:39 as along with 17 people dolchan tonamswish akraemer APRegier verdicchio behindtherabbit kaarsinogen mbehbah1 druvus giovenko ptrobajo kentsis tmmurali jfr shigepong natstreet heliopais
	Genome sequence assembly: algorithms and issues [My Copy] Computer In Computer, Vol. 35, No. 7. (2002), pp. 47-54. by M. Pop, S. L. Salzberg, M. Shumway posted to assembly thesis by Neeperando on 2009-04-13 17:32:04 as
	CloudBurst: highly sensitive read mapping with MapReduce [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1363-1369. by Michael C. Schatz posted to mapping mapreduce parallel read by Neeperando on 2009-04-09 14:45:18 as along with 30 people and 2 groups jfr walshtp idonaldson orzenil heliopais dakelley bozdagd agbiotec jandot guhjy n00c cymacs semrich nuin operon AlexBateman fgibson rschulz dswan mitko djkt humburg jmeppley coela vagoskar svenrahmann natstreet brianb druvus neils KCL & UCL Bioinformatics Bioinformatics
	How to infer gene networks from expression profiles [My Copy] Molecular Systems Biology, Vol. 3 (13 February 2007) by Mukesh Bansal, Vincenzo Belcastro, Alberto Ambesi-Impiombato, Diego di Bernardo posted to inference network by Neeperando on 2009-04-07 15:29:37 as along with 35 people and 3 groups zufar nicholasflann icq242500260 guhjy Zephyrus antonkratz phoenixzxl bertelsen isimpson daforerog poirel agonzale roys APRegier rdiaz klo Borelli ggallone ptrobajo druvus cswinburne jfr eckart_bindewald wnpx nickluscombe kengg mikaelhuss jrbanga BIBLIOma RockHI lp2 natstreet heliopais mariakmejia tmmurali Jarman Lab EBI-regulation Plantandetc
	Multiple whole-genome alignments without a reference organism [My Copy] Genome Research, Vol. 19, No. 4. (28 April 2009), pp. 682-689. by Inna Dubchak, Alexander Poliakov, Andrey Kislyuk, Michael Brudno posted to alignment synteny by Neeperando on 2009-04-02 14:04:44 as along with 12 people fstrozzi GustavoLacerda michaelbarton mlangill dakelley xwbcn zwang nyyu djkt semrich azazello mhamada
	The Sorghum bicolor genome and the diversification of grasses [My Copy] Nature, Vol. 457, No. 7229. (29 January 2009), pp. 551-556. by Andrew H. Paterson, John E. Bowers, Remy Bruggmann, et al.Inna Dubchak, Jane Grimwood, Heidrun Gundlach, Georg Haberer, Uffe Hellsten, Therese Mitros, Alexander Poliakov, Jeremy Schmutz, Manuel Spannagl, Haibao Tang, Xiyin Wang, Thomas Wicker, Arvind K. Bharti, Jarrod Chapman, Alex F. Feltus, Udo Gowik, Igor V. Grigoriev, Eric Lyons, Christopher A. Maher, Mihaela Martis, Apurva Narechania, Robert P. Otillar, Bryan W. Penning, Asaf A. Salamov, Yu Wang, Lifang Zhang, Nicholas C. Carpita, Michael Freeling, Alan R. Gingle, Thomas C. Hash, Beat Keller, Patricia Klein, Stephen Kresovich, Maureen C. Mccann, Ray Ming, Daniel G. Peterson, Mehboob-Ur-Rahman, Doreen Ware, Peter Westhoff, Klaus F. Mayer, Joachim Messing, Daniel S. Rokhsar posted to thesis assembly by Neeperando on 2009-03-30 16:15:18 as along with 3 people natstreet soberhaensli neils
	PASS: a program to align short sequences [My Copy] Bioinformatics, Vol. 25, No. 7. (1 April 2009), pp. 967-968. by Davide Campagna, Alessandro Albiero, Alessandra Bilardi, et al.Elisa Caniato, Claudio Forcato, Svetlin Manavski, Nicola Vitulo, Giorgio Valle posted to alignment read short by Neeperando on 2009-03-27 18:43:47 as along with 17 people and 1 group seb1 bozdagd adijr heliopais darian maren n00c nuin skembel cassj helminth_lab rschulz guhjy natstreet druvus renatomilani WanderingAengus iSEEM
	Accurate Identification of Orthologous Segments among Multiple Genomes [My Copy] Bioinformatics (2 February 2009), btp070. by Tsuyoshi Hachiya, Yasunori Osana, Kris Popendorf, Yasubumi Sakakibara posted to synteny by Neeperando on 2009-03-27 18:43:12 as along with 4 people guhjy dokky djkt druvus
	A Preprocessor for Shotgun Assembly of Large Genomes [My Copy] Journal of Computational Biology, Vol. 11, No. 4. (2004), pp. 734-752. by Michael Roberts, Brian R. Hunt, James A. Yorke, Randall A. Bolanos, Arthur L. Delcher posted to assembly overlap thesis by Neeperando on 2009-03-19 17:35:58 as along with 1 person dakelley
	CAP3: A DNA Sequence Assembly Program [My Copy] Genome Research, Vol. 9, No. 9. (1 September 1999), pp. 868-877. by Xiaoqiu Huang, Anup Madan posted to assembly thesis by Neeperando on 2009-03-17 20:27:17 as along with 5 people nwpuzebra n00c dakelley gpappas dmp
	High-throughput gene mapping in Caenorhabditis elegans. [My Copy] Genome Res, Vol. 12, No. 7. (July 2002), pp. 1100-1105. by K. A. Swan, D. E. Curtis, K. B. McKusick, A. V. Voinov, F. A. Mapa, M. R. Cancilla posted to assembly by Neeperando on 2009-03-17 20:24:13 as along with 4 people and 1 group thegoose2 idoerg tharris sdinka C. elegans / WormBase
	SIMPRO: simple protein homology detection method by using indirect signals [My Copy] Bioinformatics (22 January 2009), btp048. by Inkyung Jung, Dongsup Kim posted to homology synteny by Neeperando on 2009-01-23 15:54:52 as along with 1 person druvus
	The Algorithmic of Gene Teams [My Copy] Algorithms in Bioinformatics (2002), pp. 464-476. by Anne Bergeron, Sylvie Corteel, Mathieu Raffinot posted to gene_order gene_teams synteny thesis by Neeperando on 2009-01-22 15:30:31 as
	Computational approaches for the analysis of gene neighbourhoods in prokaryotic genomes [My Copy] Brief Bioinform, Vol. 5, No. 2. (1 January 2004), pp. 131-149. by Igor B. Rogozin, Kira S. Makarova, Yuri I. Wolf, Eugene V. Koonin posted to gene_order synteny by Neeperando on 2009-01-22 15:27:17 as
	Detecting Gene Clusters under Evolutionary Constraint in a Large Number of Genomes [My Copy] Bioinformatics (21 January 2009), btp027. by Xu Ling, Xin He, Dong Xin posted to thesis synteny by Neeperando on 2009-01-22 15:16:54 as along with 6 people nuin idoerg malcook druvus djkt grahamc
	A robust framework for detecting structural variations in a genome [My Copy] Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i59-67. by Seunghak Lee, Elango Cheran, Michael Brudno posted to matepair structural thesis variation by Neeperando on 2009-01-16 16:22:55 as along with 10 people matted darian dakelley jonilaserson rdiaz balicea kittipat matthewsuderman raistrick APRegier
	The MUMmer 3 manual [My Copy] (May 2005) posted to no-tag by Neeperando on 2009-01-14 15:57:24 as
	A whole-genome assembly of Drosophila. [My Copy] Science (New York, N.Y.), Vol. 287, No. 5461. (24 March 2000), pp. 2196-2204. by E. W. Myers, G. G. Sutton, A. L. Delcher, et al.I. M. Dew, D. P. Fasulo, M. J. Flanigan, S. A. Kravitz, C. M. Mobarry, K. H. Reinert, K. A. Remington, E. L. Anson, R. A. Bolanos, H. H. Chou, C. M. Jordan, A. L. Halpern, S. Lonardi, E. M. Beasley, R. C. Brandon, L. Chen, P. J. Dunn, Z. Lai, Y. Liang, D. R. Nusskern, M. Zhan, Q. Zhang, X. Zheng, G. M. Rubin, M. D. Adams, J. C. Venter posted to assembly drosophila thesis by Neeperando on 2008-12-09 17:17:20 as along with 8 people and 3 groups dakelley taroleo bluto azazello wenhan tpreeprem yoanjacquemin cisevol MBLAB gatech-compgenomics Drosophila-Genetics-Genomics-2008
	Genome-wide nucleotide-level mammalian ancestor reconstruction [My Copy] Genome Research, Vol. 18, No. 11. (October 2008), pp. 1829-1843. by Benedict Paten, Javier Herrero, Stephen Fitzgerald, et al.Kathryn Beal, Paul Flicek, Ian Holmes, Ewan Birney posted to reconstruction thesis by Neeperando on 2008-12-05 17:10:03 as
	A fast algorithm for the multiple genome rearrangement problem with weighted reversals and transpositions [My Copy] BMC Bioinformatics, Vol. 9 (04 December 2008), 516. by Martin, Enno Ohlebusch posted to breakpoints rearrangement reconstruction by Neeperando on 2008-12-04 21:08:59 as along with 2 people and 1 group nuin cisevol BergmanLab
	The Burkholderia Genome Database: Facilitating flexible queries and comparative analyses. [My Copy] Bioinformatics (Oxford, England) (7 October 2008) by Geoffrey L L. Winsor, Bhavjinder Khaira, Thea Van V. Rossum, Raymond Lo, Matthew D D. Whiteside, Fiona S L S. Brinkman posted to comparative database by Neeperando on 2008-11-21 14:47:15 as along with 1 person treangen
	High Rate of Recent Transposable Element–Induced Adaptation in Drosophila melanogaster [My Copy] PLoS Biology, Vol. 6, No. 10. (1 October 2008), e251. by Josefa González, Kapa Lenkov, Mikhail Lipatov, Michael J. Macpherson, Dmitri A. Petrov posted to transposon by Neeperando on 2008-11-17 20:54:14 as along with 8 people and 2 groups gwallau operon alweber emptyhb cabbagesofdoom biomcgary stajich djkt LabDros Mycology

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Neeperando's library 174 articles Export

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