jmeppley's bioinformatics [49 articles] Export

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	ShotgunFunctionalizeR: an R-package for functional comparison of metagenomes [My Copy] Bioinformatics, Vol. 25, No. 20. (15 October 2009), pp. 2737-2738. by Erik Kristiansson, Philip Hugenholtz, Daniel Dalevi posted to statistics software r hot-aloha community-genomics bioinformatics by jmeppley on 2009-10-22 20:36:27 as along with 4 people and 1 group operon dswan skembel djkt iSEEM
	The Need for Centralization of Computational Biology Resources [My Copy] PLoS Comput Biol, Vol. 5, No. 6. (26 June 2009), e1000372. by Fran Lewitter, Michael Rebhan, Brent Richter, David Sexton posted to bioinformatics information-techonology by jmeppley on 2009-06-30 16:07:11 as along with 18 people and 4 groups fgibson Fournier34 pekrau flbarroso natstreet jago kongl FabienneGranier druvus nuin VGreiff operon aprasad chrisamiller dswan reyez kshameer dullhunk CBD Convention on Biological Diversity Poverty Alleviation from Access to Knowledge Convention on Knowledge Commons Bioinformatics
	Managing and analyzing next-generation sequence data. [My Copy] PLoS computational biology, Vol. 5, No. 6. (26 June 2009), e1000369. by Brent G. Richter, David P. Sexton posted to bioinformatics compute-clusters information-techonology second-generation-sequencing by jmeppley on 2009-06-30 16:01:16 as along with 36 people and 3 groups hpaces gdv GeeSharpMinor idonaldson darian daveGerrard tharris Yanno inesdesantiago jcaddy agbiotec humburg Zephyrus daforerog stubrown GustavoLacerda torfinnnome natstreet polivares orzenil kongl guhjy druvus n00c leemond31 nuin operon jasontsai rdiaz michaelbarton dswan reyez kshameer TRHvidsten djkt ppgardne BergmanLab Bioinformatics Journal picks
	SOAP2: an improved ultrafast tool for short read alignment [My Copy] Bioinformatics, Vol. 25, No. 15. (1 August 2009), pp. 1966-1967. by Ruiqiang Li, Chang Yu, Yingrui Li, et al.Tak-Wah Lam, Siu-Ming Yiu, Karsten Kristiansen, Jun Wang posted to alignment bioinformatics software by jmeppley on 2009-06-09 13:46:13 as along with 25 people and 6 groups agbiotec torfinnnome natstreet cthachuk jforment GustavoLacerda adijr bozdagd stubrown polivares guhjy ollieredfernwork operon cassj adamjamesreid Stew jamselem dswan idonaldson TRHvidsten humburg djkt farhat n00c druvus Bioinformatics Core Service BergmanLab Orengo Group Journal Picks Bioinformatics - CRUK Bioinformatics Journal picks
	Cloud computing [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), 1475. by Alex Bateman, Matt Wood posted to bioinformatics cloud-computing parallel-processing by jmeppley on 2009-05-20 15:30:45 as along with 22 people and 4 groups rdiaz fgibson walshtp Jingbo aan pekrau tnhh niallhaslam bertelsen apaydin barry kiekyon reyez sobolevnrm cymacs druvus acesforum thegoose mikel_egana dullhunk dswan bmajoros structural_bioinformatics McCammon baker-group Bioinformatics
	KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 11. (1 June 2009), pp. 1470-1471. by Jitao David D. Zhang, Stefan Wiemann posted to annotation bioinformatics genomics kegg software software-library visualization by jmeppley on 2009-03-31 21:40:31 as along with 15 people Thaverkamp daforerog Vincent_Rouilly kiara coela guhjy dolchan neils VGreiff nuin chrisamiller renatomilani natstreet phoenixzxl druvus
	Biopython: freely available Python tools for computational molecular biology and bioinformatics [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1422-1423. by Peter J. A. Cock, Tiago Antao, Jeffrey T. Chang, et al.Brad A. Chapman, Cymon J. Cox, Andrew Dalke, Iddo Friedberg, Thomas Hamelryck, Frank Kauff, Bartek Wilczynski, Michiel J. L. de Hoon posted to bioinformatics python software software-library by jmeppley on 2009-03-31 21:32:56 as along with 31 people and 7 groups applebyb klexa rdiaz FabienneGranier thegoose oteri cmzmasek jwm guhjy AlexBateman daforerog ltitodem Thaverkamp sobolevnrm psique dswan neils dullhunk bertelsen Vincent_Rouilly gwallau brianb jorisslob svenrahmann VGreiff sjcockell druvus jago kshameer operon svozil Structural Biology Group TorVergata Journal picks baker-group Bioinformatics Software-Architecture OER_Open_Educational_Resources Method_Engineering_Services
	NOBLAST and JAMBLAST: New Options for BLAST and a Java Application Manager for BLAST results [My Copy] Bioinformatics, Vol. 25, No. 6. (15 March 2009), pp. 824-826. by Jacques Lagnel, Costas S. Tsigenopoulos, Ioannis Iliopoulos posted to bioinformatics blast sequence-alignment visualization by jmeppley on 2009-02-10 21:07:29 as along with 5 people Thaverkamp druvus nuin guhjy agbiotec
	GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists [My Copy] BMC Bioinformatics, Vol. 10 (03 February 2009), 48. by Eran, Zohar Yakhini posted to bioinformatics software by jmeppley on 2009-02-04 12:45:00 as along with 8 people and 1 group Effie guhjy RamuAnandakrishnan kshameer renatomilani grahamc cmzmasek paszkows NaCTeM
	Bringing Web 2.0 to bioinformatics [My Copy] Brief Bioinform, Vol. 10, No. 1. (1 January 2009), pp. 1-10. by Zhang Zhang, Kei-Hoi Cheung, Jeffrey P. Townsend posted to bioinformatics internet by jmeppley on 2009-01-31 19:15:59 as along with 17 people and 1 group fgibson agbiotec agomez cassj VGreiff nuin reyez Gaetan allysonlister guhjy A_Olympia allancho nlapalu renatomilani paszkows druvus dullhunk logics of knowledge
	AssociationViewer: a scalable and integrated software tool for visualization of large-scale variation data in genomic context. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 5. (1 March 2009), pp. 662-663. by Olivier Martin, Armand Valsesia, Amalio Telenti, Ioannis Xenarios, Brian J. Stevenson posted to bioinformatics genomics software visualization by jmeppley on 2009-01-27 19:46:41 as along with 6 people rdiaz nuin ilyashl guhjy pkonings daforerog
	AutoFACT: An Automatic Functional Annotation and Classification Tool [My Copy] BMC Bioinformatics, Vol. 6, No. 1. (2005) by Liisa Koski, Michael Gray, Franz B. Lang, Gertraud Burger posted to annotation bioinformatics blast perl software by jmeppley on 2009-01-23 15:31:42 as along with 1 person sgoetz
	IslandViewer: an integrated interface for computational identification and visualization of genomic islands. [My Copy] Bioinformatics (Oxford, England) (16 January 2009) by Morgan G I G. Langille, Fiona S L S. Brinkman posted to bioinformatics genomic-islands recombination-detection software visualization by jmeppley on 2009-01-22 15:08:17 as along with 2 people beatrizfernandez druvus
	Jalview Version 2--a multiple sequence alignment editor and analysis workbench [My Copy] Bioinformatics, Vol. 25, No. 9. (1 May 2009), pp. 1189-1191. by Andrew M. Waterhouse, James B. Procter, David M. A. Martin, Michele Clamp, Geoffrey J. Barton posted to bioinformatics sequence-alignment software by jmeppley on 2009-01-22 15:07:06 as along with 7 people tomjad calderonv dimka Thaverkamp jamselem timflutre nuin
	An innovative approach for testing bioinformatics programs using metamorphic testing [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009) by Tsong Y. Chen, Joshua Ho, Huai Liu, Xiaoyuan Xie posted to bioinformatics software by jmeppley on 2009-01-21 02:39:52 as along with 10 people and 1 group rdiaz lptolik oteri guhjy nuin druvus pkonings kshameer barriot agbiotec Structural Biology Group TorVergata
	SCARF: Maximizing next-generation EST assemblies for evolutionary and population genomic analyses [My Copy] Bioinformatics (6 January 2009), btp011. by Michael S. Barker, Katrina M. Dlugosch, Reddy, Sarah N. Amyotte, Loren H. Rieseberg posted to 454-sequencing assembly bioinformatics population-genetics software by jmeppley on 2009-01-12 15:42:57 as along with 5 people semrich druvus felsani jasontsai djkt
	Experience using web services for biological sequence analysis. [My Copy] Briefings in bioinformatics, Vol. 9, No. 6. (11 November 2008), pp. 493-505. by Heinz Stockinger, Teresa Attwood, Shahid Nadeem N. Chohan, et al.Richard Côté, Philippe Cudré-Mauroux, Laurent Falquet, Pedro Fernandes, Robert D. Finn, Taavi Hupponen, Eija Korpelainen, Alberto Labarga, Aurelie Laugraud, Tania Lima, Evangelos Pafilis, Marco Pagni, Steve Pettifer, Isabelle Phan, Nazim Rahman posted to bioinformatics software by jmeppley on 2008-12-30 12:19:15 as along with 13 people and 1 group daforerog pekrau svozil behindtherabbit dswan allysonlister alaninmcr Cortel kshameer guhjy druvus dullhunk nuin Bioinformatics
	WGCNA: an R package for weighted correlation network analysis. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008) by P. Langfelder, S. Horvath posted to bioinformatics gene-expression r software by jmeppley on 2008-12-30 12:11:38 as along with 14 people and 2 groups daforerog sficklin lwaldron jfr ekotelnikova slv23 rdiaz guhjy natstreet druvus cswinburne lptolik irinamohorianu pengchy Bioinformatics Bioinformatics - CRUK
	ProfileGrids as a new visual representation of large multiple sequence alignments: a case study of the RecA protein family [My Copy] BMC Bioinformatics, Vol. 9 (22 December 2008), 554. by Alberto, Aaron C. Abajian posted to bioinformatics sequence-alignment software visualization by jmeppley on 2008-12-24 15:24:10 as along with 1 person nuin
	MINOMICS: visualizing prokaryote transcriptomics and proteomics data in a genomic context [My Copy] Bioinformatics, Vol. 25, No. 1. (1 January 2009), pp. 139-140. by Rutger W. Brouwer, Sacha A. van Hijum, Oscar P. Kuipers posted to bioinformatics proteomics software transcriptomics visualization by jmeppley on 2008-12-24 00:29:21 as along with 1 person druvus
	Metagenome Annotation Using a Distributed Grid of Undergraduate Students [My Copy] PLoS Biol, Vol. 6, No. 11. (25 November 2008), e296. by Pascal Hingamp, Céline Brochier, Emmanuel Talla, Daniel Gautheret, Denis Thieffry, Carl Herrmann posted to annotation bioinformatics distributed-computing by jmeppley on 2008-12-19 01:28:41 as along with 17 people and 3 groups daforerog operon azazello Stew JustinCrocker nuin xingxu guhjy nitiniitk dbikard dchughes druvus neils djkt ptrobajo dullhunk treangen Bioinformatics - CRUK Centre de Recherches Interdisciplinaires iSEEM
	Better Bioinformatics Through Usability Analysis. [My Copy] Bioinformatics (Oxford, England) (9 December 2008) by Davide Bolchini, Anthony Finkelstein, Vito Perrone, Sylvia Nagl posted to bioinformatics software visualization by jmeppley on 2008-12-18 15:52:50 as along with 20 people and 1 group FabienneGranier guhjy svozil pkonings dbk rmhirsk niallhaslam renatomilani chrisamiller Yanno fgibson zimbo1 druvus allysonlister dswan behindtherabbit neils dullhunk sjcockell nuin Bioinformatics
	Extended Newick: it is time for a standard representation of phylogenetic networks [My Copy] BMC Bioinformatics, Vol. 9 (15 December 2008), 532. by Gabriel, Gabriel Valiente posted to bioinformatics file-format software by jmeppley on 2008-12-18 13:23:29 as along with 4 people nuin tny druvus barriot
	An experimental metagenome data management and analysis system [My Copy] Bioinformatics, Vol. 22, No. 14. (15 July 2006), pp. e359-367. by Victor M. Markowitz, Natalia Ivanova, Krishna Palaniappan, et al.Ernest Szeto, Frank Korzeniewski, Athanasios Lykidis, Iain Anderson, Konstantinos Mavrommatis, Victor Kunin, Garcia, Inna Dubchak, Phil Hugenholtz, Nikos C. Kyrpides posted to bioinformatics community-genomics by jmeppley on 2008-12-05 18:40:26 as along with 1 person azazello
	A bioinformatician's guide to metagenomics. [My Copy] Microbiology and molecular biology reviews : MMBR, Vol. 72, No. 4. (1 December 2008), pp. 557-578. by Victor Kunin, Alex Copeland, Alla Lapidus, Konstantinos Mavromatis, Philip Hugenholtz posted to bioinformatics community-genomics by jmeppley on 2008-12-05 18:23:53 as along with 37 people and 7 groups jasontsai halinat hwright michaelbarton taylor73 esyoun bluto idoerg hpaces skembel inquil EKotlarska anphony stajich sharpton vrich vaulot adgrativol jakechen balicea dbk GustavoLacerda guhjy hessec fhalbrit Zephyrus anazhu dswan sjcockell Borelli druvus azazello kinestetika neils Katje allysonlister skato_toyaku Shared Literature Resource of the Microbial Fitness Group - MPI Bremen iSEEM Papers recommended by the Roscoff Plankton Group Microbial-Ecology Translational Bioinformatics Roswell Cancer Crosstalk microbiology_nijmegen
	Sircah: a tool for the detection and visualization of alternative transcripts [My Copy] Bioinformatics, Vol. 24, No. 17. (1 September 2008), pp. 1959-1960. by Eoghan D. Harrington, Peer Bork posted to bioinformatics software visualization by jmeppley on 2008-12-05 17:50:45 as along with 1 person cthachuk
	BLogo: A tool for visualization of bias in biological sequences [My Copy] Bioinformatics (4 August 2008), btn407. by Wencheng Li, Bo Yang, Shaoguang Liang, et al.Yonghua Wang, Chris Whiteley, Yicheng Cao, Xiaoning Wang posted to bioinformatics software visualization by jmeppley on 2008-11-20 19:21:41 as along with 3 people treangen grahamc GustavoLacerda
	e-Science: relieving bottlenecks in large-scale genome analyses [My Copy] Nat Rev Micro, Vol. 6, No. 12. (December 2008), pp. 948-954. by Tracy Craddock, Colin R. Harwood, Jennifer Hallinan, Anil Wipat posted to bioinformatics comparative-genomics comparative-metagenomics software by jmeppley on 2008-11-14 16:39:30 as along with 9 people n00c fisherp fgibson druvus dullhunk guhjy richardbickerton treangen shuzhens
	Human genomes as email attachments [My Copy] Bioinformatics, Vol. 25, No. 2. (15 January 2009), pp. 274-275. by Scott Christley, Yiming Lu, Chen Li, Xiaohui Xie posted to bioinformatics software by jmeppley on 2008-11-13 12:14:56 as along with 24 people and 3 groups idonaldson kshameer operon guhjy druvus n00c dnewburger djkt mmartin sobolevnrm jfr psique cisevol GeeSharpMinor neils dswan dullhunk siebert hpiwowar nuin cthachuk rschulz treangen renatomilani baker-group BergmanLab Bioinformatics
	MEGAN analysis of metagenomic data. [My Copy] Genome research, Vol. 17, No. 3. (March 2007), pp. 377-386. by Daniel H. Huson, Alexander F. Auch, Ji Qi, Stephan C. Schuster posted to bioinformatics classification community-genomics comparative-genomics phylogenetics software visualization by jmeppley on 2008-11-08 17:49:20 as along with 14 people and 2 groups taylor73 esyoun dakelley Thaverkamp druvus idoerg guhjy treangen azazello wenhan carpi alexl mjetten hpaces anammox microbiology_nijmegen
	Slider--maximum use of probability information for alignment of short sequence reads and SNP detection [My Copy] Bioinformatics, Vol. 25, No. 1. (1 January 2009), pp. 6-13. by Nawar Malhis, Yaron S. N. Butterfield, Martin Ester, Steven J. M. Jones posted to bioinformatics sequence-alignment software by jmeppley on 2008-11-07 02:34:02 as along with 7 people seb1 torfinnnome orzenil jsatkosk n00c mdimon druvus
	Should software hold data hostage? [My Copy] Nat Biotechnol, Vol. 22, No. 8. (August 2004), pp. 1037-1038. by H. S. Wiley, G. S. Michaels posted to bioinformatics software by jmeppley on 2008-09-05 13:31:37 as along with 2 people and 1 group irenas hpiwowar dbk-lab
	A Standard MIGS/MIMS Compliant XML Schema: Toward the Development of the Genomic Contextual Data Markup Language (GCDML) [My Copy] OMICS: A Journal of Integrative Biology, Vol. 12, No. 2. (2008), pp. 115-121. by Renzo Kottmann, Tanya Gray, Sean Murphy, et al.Leonid Kagan, Saul Kravitz, Thierry Lombardot, Dawn Field, Frank O. Glockner posted to bioinformatics genomics software by jmeppley on 2008-09-05 13:30:24 as along with 2 people idoerg sconlan
	MEGU: pathway mapping web-service based on KEGG and SVG. [My Copy] In silico biology, Vol. 6, No. 6. (2006), pp. 621-625. by N. Kono, K. Arakawa, M. Tomita posted to bioinformatics visualization by jmeppley on 2008-09-02 03:15:00 as
	Toward an Online Repository of Standard Operating Procedures (SOPs) for (Meta)genomic Annotation. [My Copy] Omics : a journal of integrative biology (16 April 2008) by Samuel V V. Angiuoli, Aaron Gussman, William Klimke, et al.Guy Cochrane, Dawn Field, George Garrity, Chinnappa D D. Kodira, Nikos Kyrpides, Ramana Madupu, Victor Markowitz, Tatiana Tatusova, Nick Thomson, Owen White posted to annotation bioinformatics metagenomics software by jmeppley on 2008-09-02 02:51:37 as along with 2 people and 1 group Thaverkamp mjetten microbiology_nijmegen
	Habitat-Lite: a GSC case study based on free text terms for environmental metadata. [My Copy] Omics : a journal of integrative biology, Vol. 12, No. 2. (June 2008), pp. 129-136. by L. Hirschman, C. Clark, K. B. Cohen, et al.S. Mardis, J. Luciano, R. Kottmann, J. Cole, V. Markowitz, N. Kyrpides, N. Morrison, L. M. Schriml, D. Field, posted to bioinformatics environment by jmeppley on 2008-09-02 02:48:19 as
	MBGD: a platform for microbial comparative genomics based on the automated construction of orthologous groups. [My Copy] Nucleic acids research, Vol. 35, No. Database issue. (January 2007) by I. Uchiyama posted to bioinformatics comparative-genomics microbial-genomics software by jmeppley on 2008-09-02 02:47:15 as
	The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (January 2008) by K. Liolios, K. Mavromatis, N. Tavernarakis, N. C. Kyrpides posted to bioinformatics metagenomics by jmeppley on 2008-09-02 02:45:50 as along with 7 people Thaverkamp coela AaronDarling semin diamantis guhjy stsaft
	Toward a standards-compliant genomic and metagenomic publication record. [My Copy] Omics : a journal of integrative biology, Vol. 12, No. 2. (June 2008), pp. 157-160. by G. M. Garrity, D. Field, N. Kyrpides, et al.L. Hirschman, S. A. Sansone, S. Angiuoli, J. R. Cole, F. O. Glöckner, E. Kolker, G. Kowalchuk, M. A. Moran, D. Ussery, O. White posted to genomics bioinformatics by jmeppley on 2008-09-02 02:37:23 as
	The minimum information about a genome sequence (MIGS) specification [My Copy] Nature Biotechnology, Vol. 26, No. 5. (08 May 2008), pp. 541-547. by Dawn Field, George Garrity, Tanya Gray, et al.Norman Morrison, Jeremy Selengut, Peter Sterk, Tatiana Tatusova, Nicholas Thomson, Michael J. Allen, Samuel V. Angiuoli, Michael Ashburner, Nelson Axelrod, Sandra Baldauf, Stuart Ballard, Jeffrey Boore, Guy Cochrane, James Cole, Peter Dawyndt, Paul De Vos, Claude dePamphilis, Robert Edwards, Nadeem Faruque, Robert Feldman, Jack Gilbert, Paul Gilna, Frank O. Glockner, Philip Goldstein, Robert Guralnick, Dan Haft, David Hancock, Henning Hermjakob, Christiane Hertz-Fowler, Phil Hugenholtz, Ian Joint, Leonid Kagan, Matthew Kane, Jessie Kennedy, George Kowalchuk, Renzo Kottmann, Eugene Kolker, Saul Kravitz, Nikos Kyrpides, Jim Leebens-Mack, Suzanna E. Lewis, Kelvin Li, Allyson L. Lister, Phillip Lord, Natalia Maltsev, Victor Markowitz, Jennifer Martiny, Barbara Methe, Ilene Mizrachi, Richard Moxon, Karen Nelson, Julian Parkhill, Lita Proctor, Owen White, Susanna-Assunta Sansone, Andrew Spiers, Robert Stevens, Paul Swift, Chris Taylor, Yoshio Tateno, Adrian Tett, Sarah Turner, David Ussery, Bob Vaughan, Naomi Ward, Trish Whetzel, Ingio San Gil, Gareth Wilson, Anil Wipat posted to genomics software bioinformatics by jmeppley on 2008-09-02 02:36:44 as along with 13 people and 1 group balajis thegoose2 idoerg Thaverkamp sconlan Katje allysonlister dullhunk guhjy tharris jamselem neils jfr microbiology_nijmegen
	Automated genome annotation and pathway identification using the KEGG Orthology (KO) as a controlled vocabulary [My Copy] Bioinformatics, Vol. 21, No. 19. (1 October 2005), pp. 3787-3793. by Xizeng Mao, Tao Cai, Liping Wei posted to annotation bioinformatics genomics software by jmeppley on 2008-04-30 19:26:05 as along with 1 person dullhunk
	CAMERA: A Community Resource for Metagenomics [My Copy] PLoS Biology, Vol. 5, No. 3. (1 March 2007), e75. by Rekha Seshadri, Saul A. Kravitz, Larry Smarr, Paul Gilna, Marvin Frazier posted to bioinformatics community-genomics by jmeppley on 2008-04-04 13:45:50 as along with 3 people and 1 group hwright Thaverkamp mariakmejia Microbial-Ecology
	Bioinformatics challenges of new sequencing technology [My Copy] Trends in Genetics, Vol. 24, No. 3. (11 February 2008), pp. 142-149. by M. Pop, S. Salzberg posted to annotation assembly bioinformatics community-genomics software by jmeppley on 2008-04-04 13:31:45 as along with 33 people hpaces heliopais imaginatio operon daforerog n00c ptrobajo orzenil APRegier katholt michaelbarton kiekyon thegoose2 xingxu floatingpoint polivares yupu treangen jmcq delenickphd giovenko dchughes djkt GustavoLacerda niallhaslam urgi Neeperando jfr tharris mariakmejia caseybrown yoonk druvus
	An analysis of the Sargasso Sea resource and the consequences for database composition. [My Copy] BMC Bioinformatics, Vol. 7 (2006) by M. L. Tress, D. Cozzetto, A. Tramontano, A. Valencia posted to bioinformatics community-genomics by jmeppley on 2008-04-04 13:27:15 as along with 4 people and 3 groups operon ana eoghanharr Thaverkamp structural_bioinformatics Bioinformatics Microbial-Ecology
	MAVID: Constrained Ancestral Alignment of Multiple Sequences [My Copy] Genome Research, Vol. 14, No. 4. (1 April 2004), pp. 693-699. by Nicolas Bray, Lior Pachter posted to bioinformatics sequence-alignment software by jmeppley on 2008-03-15 20:24:40 as along with 5 people nuin pradiptaray treangen operon Neeperando
	Genetic exchange across a species boundary in the archaeal genus ferroplasma. [My Copy] Genetics, Vol. 177, No. 1. (September 2007), pp. 407-416. by J. M. Eppley, G. W. Tyson, W. M. Getz, J. F. Banfield posted to bioinformatics community-genomics evolution ferroplasma ferroplasma-acidarmanus microbial-ecology microbial-species software by jmeppley on 2007-10-12 02:59:50 as along with 3 people AaronDarling azazello sharpton
	Bioinformatics for whole-genome shotgun sequencing of microbial communities. [My Copy] PLoS Comput Biol, Vol. 1, No. 2. (July 2005) by K. Chen, L. Pachter posted to bioinformatics community-genomics software by jmeppley on 2007-03-12 19:01:32 as along with 9 people and 3 groups dakelley azazello knaseanka ana dullhunk bluto wenhan djkt druvus structural_bioinformatics Bioinformatics iSEEM
	The New Bioinformatics: Integrating Ecological Data from the Gene to the Biosphere [My Copy] Vol. 37, No. 1. (2006), pp. 519-544. by Matthew B. Jones, Mark P. Schildhauer, O. J. Reichman, Shawn Bowers posted to bioinformatics ecology genetics scale by jmeppley on 2006-12-10 19:02:35 as along with 2 people heavner maburkitt
	Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. [My Copy] Nucleic acids research, Vol. 25, No. 17. (1 September 1997), pp. 3389-3402. by S. F. Altschul, T. L. Madden, A. A. Schäffer, et al.J. Zhang, Z. Zhang, W. Miller, D. J. Lipman posted to assembly bioinformatics software z-paper-strainer by jmeppley on 2006-08-08 06:24:13 as along with 67 people and 5 groups niallhaslam ucbcjbm timhubbard parnell tfuji maria_hauser jbhiatt yylin mgomes BioNica idoerg pjcite swp09 kgutwin mcbla cpwardell johanviklund daforerog nlapalu sebk tjimenez shung pwais dakelley knaseanka setar iakes miguel kaarsinogen bjorns bicko chad_davis balajis nuke2005 eweaver david_parsons indigoviolet dullhunk robert dgront happy_manatee caporaso treangen kengg manzanita CitoJam jdelcampo aengisch rabio massivemayhem mirzazadeh azazello sujaikumar beatrizfernandez GustavoLacerda siebertm adijr viktor21614 mijam grottenolm bandrewfox edvin newton1234 mariakmejia granujilla marti CharlesM References for 3DSim paper EisenLab biomedical-nlp Microbial-Ecology Plantandetc

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refworks-import	173
community-genomics	133
ecology	124
model	120
evolution	117
software	95
horizontal-gene-transfer	91
diversity	83
microbial-ecology	72
bacteria	59
stability	57
genomics	51
bioinformatics	49
biofilm	48
food-web	48
microbial-diversity	48
ecosystem	47
z-paper-background	44
microbial-species	42
phylogenetics	42
statistics	40
genetics	39
population-genetics	39
community-structure	36
z-paper-fer1-fer2-species	35
acid-mine-drainage	34
marine-microbiology	34
recombination	34
comparative-genomics	32
microbial-community	31
iron-oxidation	30
community-ecology	29
hgt-detection	28
proteomics	28
archaea	26
kinetics	26
thiobacillus-ferrooxidans	26
visualization	26
ecological-interaction	25
population-dynamics	25
trophic-level	25
16s-rrna	24
microorganism	24
predator-prey	24
complexity	23
biodiversity	22
microbiology	22
thiobacillus	22
biooxidation	21
escherichia-coli	21
gene-expression	21
iron	21
microcosm	21
network	21
scale	21
simulation	21
community	19
human-microbiology	19
microarray	18
population-structure	18
competition	17
pyrite	17
selection	17
tree-of-life	17
acidophile	16
coexistence	16
ecoclassics	16
metabolism	16
redox	16
x-models	16
annotation	15
leptospirillum	15
productivity	15
speciation	15
assembly	14
classification	14
microbial-genomics	14
adaptation	13
clustering	13
diversity-stability	13
ecological-statistics	13
leptospirillum-ferrooxidans	13
regulation	13
comparative-metagenomics	12
x-amd-model-params	12
biogeochemistry	11
delong-lab	11
marine-ecosystem	11
mutualism	11
principal-components-analysis	11
sequence-alignment	11
sulfur	11
x-bioinf-software	11
z-paper-quals-modelling-proposal	11
bayesian	10
parameters	10
rrna	10
systems-biology	10
454-sequencing	9
coevolution	9
connectance	9
environment	9
environmental-public-health	9
ferroplasma	9
growth	9
hgt-mosaic-genome	9
individual-based-model	9
model-discrimination	9
r	9
soil	9
x-biofilm	9
x-diversity-stability	9
x-fer2-strains	9
x-ib-153-papers	9
canonical-correlation-analysis	8
control	8
density-dependence	8
disturbance	8
experimental-design	8
fluorescent-in-situ-hybridization	8
model-fitting	8
second-generation-sequencing	8
sequence-assembly	8
sequencing	8
x-microbial-species	8
x-microcosm	8
x-recomb-frequency	8
x-stability	8
z-paper-strainer	8
climate-change	7
community-composition	7
diversity-heterogeneity	7
gene-flow	7
metabolic-control-analysis	7
recombination-divergence	7
software-library	7
x-exp-design	7
z-class-evoeco	7
chaos	6
confocal-laser-microscopy	6
evolution-experiment	6
gos	6
growth-rate	6
host-parasite	6
hydronephrosis	6
iron-mountain	6
model-validation	6
model-verification	6
niche	6
perturbation	6
phylogenetic-tree	6
population	6
pyrosequencing	6
quasispecies	6
sp-nov	6
sulfate-reducing-bacteria	6
system	6
transcriptomics	6
x-community-structure	6
x-evolutionary-ecology	6
x-individual-based-model	6
x-mca-tca	6
alternative-stable-states	5
dynamics	5
epidemiology	5
gen-nov	5
geomicrobiology	5
gradient	5
heterogeneity	5
metagenomics	5
metapopulation	5
mutation-rate	5
nitrogen	5
parameter-estimation	5
persistence	5
population-growth	5
recombination-detection	5
review	5
significance	5
succession	5
thermodynamics	5
validation	5
x-coalescence-model	5
x-nonequilibrium	5
x-recomb-evidence	5
x-recombination-detection	5
biofilm-ecology	4
bioremediation	4
cladistic-analysis	4
comparative-ecology	4
economics-ecology	4
evolutionary-ecology	4
extremophile	4
ferroplasma-acidarmanus	4
ferroplasma-acidiphilum	4
freshwater-ecology	4
general-equivalence-theorem	4
group-selection	4
habitat	4
hgt-detection-software	4
intercellular-communication	4
invasive-species	4
metabolic-network	4
metaproteomics	4
microbial-genetics	4
model-selection	4
network-structure	4
nitrogen-fixation	4
oxidation	4
phylogeny	4
prochlorococcus	4
quorum-sensing	4
sequence-clusters	4
spatial-scale	4
station-aloha	4
statistical-model	4
sulfate-reduction	4
thermophile	4
t-optimum	4
variability	4
x-biofilm-ecology	4
x-genomics	4
x-multiple-stable-states	4
x-oxidation-models	4
bacillus	3
biofilm-structure	3
cellular-automaton	3
consortia	3
cooperation	3
diffusion	3
diversity-productivity	3
economics	3
extinction	3
hgt-archaea	3
information-techonology	3
interaction-strength	3
metagenomics-binning	3
microbial-interaction	3
microbial-populations	3
mitochondrial-dna	3
multi-variable	3
neural-network	3
neutral-model	3
nutrient-enrichment	3
optimal-design	3
parallel-processing	3
pcr	3
phage	3
primary-production	3
proteins	3
recombination-rrna	3
resource	3
response-surface	3
sampling	3
scaling	3
sexual-reproduction	3
spatial-pattern	3
species-area-relationship	3
stochastic	3
sustainability	3
x-community-gene-expression	3
x-disturbance	3
x-espm	3
x-iron-mountain-mine	3
x-marine-nitrogen	3
x-oscillations	3
abundance	2
biofilm-formation	2
blast	2
canonical-discriminant-analysis	2
cellular-differentiation	2
chemolithoautotroph	2
community-metabolism	2
community-stability	2
communtiy-genomics	2
compute-clusters	2
conservation	2
correlation	2
correlative-coherence	2
differential-equation	2
dispersal	2
diversity-gradient	2
ecosystem-health	2
ecosystem-size	2
electron-transfer	2
envvironmetal-heterogeneity	2
eukaryote	2
exopolysaccharide	2
feedback	2
fisher	2
flux-analysis	2
fosmid-libraries	2
functional-genomics	2
functional-response	2
function-prediction	2
fundamental-concepts-in-genetics	2
fuzzy-logic	2
generalist	2
genomic-islands	2
geochemical-cycles	2
habitat-fragmentation	2
habitat-heterogeneity	2
hgt-mechanism	2
hmm	2
hyperthermophile	2
internet	2
intestinal-fauna	2
iron-reduction	2
marine-ecology	2
maximum-likelihood	2
microbial-biomass	2
mlst	2
nested-clade-analysis	2
neutral-mutation-hypothesis	2
niche-construction	2
nitrogen-uptake	2
noise	2
nonequilibrium-thermodynamics	2
oscillations	2
oxidoreductase	2
perturbation-experiments	2
ph	2
physics	2
population-divergence	2
population-model	2
probiotics	2
public-health	2
python	2
ratio-dependence	2
recombination-mechanism	2
reduction	2
sar11	2
seasonal-variation	2
sequencing-bias	2
shotgun-sequencing	2
single-nucleotide-polymorphisms	2
snp	2
specialist-generalist	2
sulfolobus	2
sulfur-oxidation	2
symbiosis	2
synteny	2
synthetic-biology	2
tandem-mass-spectrometry	2
temporal-scale	2
temporal-variation	2
thermoplasma	2
thermoplasma-acidophilum	2
thiobacillus-caldus	2
threshold	2
toxic-metal	2
transcriptome	2
transposons	2
x-community-genomics	2
x-microbial-diversity	2
z-paper-quals-proposal	2
acidiphilium	1
adaptive-surface	1
aerobic-biofilms	1
algorithm	1
aligment	1
alignment	1
allee-effect	1
allelopathy	1
amplification	1
anaerobic-bacteria	1
ants	1
aquatic-ecosystem	1
atpase	1
autocorrelation	1
automated-image-analysis	1
bacteriophage	1
base-calling	1
biocontrol	1
biofuels	1
bioreactors	1
biosphere	1
biplot	1
c	1
cdna	1
chemotaxis	1
chimerism	1
cladogenesis	1
cloud-computing	1
coaggregation	1
codon-usage	1
collaboration	1
community-matrix	1
community-microbiology	1
complex-system-dynamics	1
contact-process	1
convergent-evolgution	1
cosmology	1
covariance-effect	1
covariation	1
crispr	1
culture	1
cytochrom	1
data-sharing	1
developmental-biology	1
directional-selection	1
discrete-time	1
dissolved-oxygen-concentration	1
distance-measures	1
distributed-computing	1
distributed-control	1
dna	1
ecological-communities	1
ecological-systems	1
effective-population-size	1
einstein	1
empirical-evidence	1
endosymbiosis	1
epigenetics	1
eutrophication	1
evolution-and-sex	1
evolutionary-stable-strategy	1
evolution-of-sex	1
evoultion	1
exploratory-experimentation	1
exponential-fitting	1
ferriphilum	1
file-format	1
forecasting	1
game-theory	1
gene-frequency	1
gene-interaction	1
gene-order	1
general-relativity	1
gene-regulation	1
genetic-correlation	1
genetic-diversity	1
genetic-drift	1
gpu	1
gut-microbes	1
habitat-change	1
habitat-destruction	1
halorubrum	1
hermaphrodite	1
hot-aloha	1
hypercycles	1
hypothesis-testing	1
incomplete-data	1
indicator-species	1
indirect-effects	1
in-situ-detection	1
intermediate-disturbance-hypothesis	1
island-biogeography	1
kegg	1
keystone-species	1
kin-selection	1
k-selection	1
laboratory	1
low-oxygen	1
management	1
mass-spectrometry	1
mass-transfer	1
mechanistic-model	1
metabolic-pathways	1
metal-organic-complexes	1
metal-reduction	1
methylation	1
microbes	1
microbial-ecosytems	1
microbially-influenced-corrosion	1
mismatch-repair	1
mitrogen	1
molecular-mechanismms	1
monte-carlo-estimation	1
mrna	1
mutation	1
natural-communities	1
natural-selection	1
neisseria	1
nifh	1
non-coding-dna	1
nonlinear-spline-model	1
novel-gene	1
null-model	1
nutrient-starvation	1
nutrient-uptake	1
omz	1
origin-of-life	1
origin-of-replication	1
overcrowding-effect	1
partial-differential-equations	1
partially-specified-model	1
pathway-analysis	1
perl	1
phenotypic-plasticity	1
phlogenetics	1
phlogenetic-tree	1
phosphorus	1
phylogenies	1
phylogenitics	1
phylogeography	1
phynotypic-plasticity	1
plankton	1
population-ecology	1
prisoners-dilemma	1
punctuation	1
purification	1
qualitative	1
radio-observations	1
reaction-kinetics	1
recruitment	1
regression	1
resampling	1
rescue-effect	1
resilience	1
rhodopsin	1
sability	1
sampling_bias	1
saturation	1
scientific-method	1
seed	1
self-organization	1
semi-mechanistic-model	1
semiparametric-model	1
sensitivity-analysis	1
sequence-visualization	1
sequencing-error	1
shake-flask	1
short-reads	1
signalling	1
signal-transduction	1
single-cell-sequencing	1
small-rna	1
small-world	1
small-world-network	1
sociobiology	1
space-time-continuum	1
spatial-dynamics	1
special-relativity	1
species-distribution	1
spline	1
stabilizing-selection	1
stabillity	1
stable-isotope-tagging	1
staistical-analysis	1
stoichiometry	1
stress-resistance	1
sulfite-reductase	1
sulfolobales	1
sup05	1
superspreader	1
switching-model	1
synechoccus	1
systematic-formulation	1
technology	1
temperature	1
terminology	1
thermotoga	1
thiooxidans	1
topology	1
tree-balance	1
tree-symmetry	1
trpohic-control-analysis	1
uce	1
variable-population	1
vertebrate	1
web-service	1
wright	1
x-evolutionary-ecoloty	1
x-intra-species-diversity	1
x-microarray	1
x-models-generic	1
x-recomb-mechanism	1
x-spatial-scale	1
yield-effort-curve	1
z-talk-mgsem	1

jmeppley's bioinformatics [49 articles] Export

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