Tag phyloinformatics [39 articles] Export

Recent papers classified by the tag phyloinformatics.

	HyPhy: hypothesis testing using phylogenies [My Copy] Bioinformatics, Vol. 21, No. 5. (1 March 2005), pp. 676-679. by Sergei L. Pond, Simon D. W. Frost, Spencer V. Muse posted to substitution-models statistics software reconstruction ratio-test programming phyloinformatics models methods likelihood inference estimation data-mining alignment algorithms by rvosa to the group FAB-lab on 2009-12-02 16:28:42 as along with 6 people BioNica druvus operon radek Natasha Garamonfok
	A quick guide to organizing computational biology projects. [My Copy] PLoS computational biology, Vol. 5, No. 7. (31 July 2009), e1000424. by William Stafford S. Noble posted to programming phyloinformatics methods data-mining by rvosa to the group FAB-lab on 2009-12-02 14:50:03 as along with 66 people and 7 groups leliavski dgront paulymer installe burak annakcroft brianb nuin skembel pekrau Sergey_gerbek mordiano remoteFuture Yanno aaltenburger marekrud guhjy dolchan frohike operon CorinYeats artaban421 antonkratz tomhebbron maren bayesian daveGerrard JoeBanks jcaddy somak bertelsen ptrobajo nperoni daforerog mmwoodman charris5 GustavoLacerda pmendes fgibson rdiaz Zephyrus heliopais franklu310 lmichan silberbauer leemond31 jlangdon robfsouza Stew pmung reyez kshameer djkt pawelsobko jjray dswan apaydin renatomilani VGreiff cabbagesofdoom wei_tang fenghezi cisevol barry sdaehne druvus Pedro Martinez EvoDevo lab Barcelona Orengo Group Journal Picks Bioinformatics - CRUK ccsbs BergmanLab structural_bioinformatics McCammon
	The COG database: new developments in phylogenetic classification of proteins from complete genomes [My Copy] Nucl. Acids Res., Vol. 29, No. 1. (1 January 2001), pp. 22-28. by Roman L. Tatusov, Darren A. Natale, Igor V. Garkavtsev, et al.Tatiana A. Tatusova, Uma T. Shankavaram, Bachoti S. Rao, Boris Kiryutin, Michael Y. Galperin, Natalie D. Fedorova, Eugene V. Koonin posted to protein phyloinformatics phylogeny phylogenomics homology genome fungi databases data-mining classification bacteria amino-acid by rvosa to the group FAB-lab on 2009-12-02 12:21:16 as along with 5 people and 1 group aceol thegoose2 operon tharris treangen C. elegans / WormBase
	PhyloPattern: regular expressions to identify complex patterns in phylogenetic trees [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (19 September 2009), 298. by Philippe Gouret, Julie Thompson, Pierre Pontarotti posted to software sequence-evolution protein phyloinformatics phylogeny genome evolution by rvosa to the group FAB-lab on 2009-11-11 03:43:20 as along with 5 people and 1 group nuin stajich scmelton druvus rschulz Mycology
	A semantic web approach applied to integrative bioinformatics experimentation: a biological use case with genomics data [My Copy] Bioinformatics, Vol. 23, No. 22. (15 November 2007), pp. 3080-3087. by Lennart J. G. Post, Marco Roos, M. Scott Marshall, Roel van Driel, Timo M. Breit posted to xml software programming phyloinformatics ontology nexml dbhack1 databases data-mining by rvosa to the group FAB-lab on 2009-09-07 13:51:13 as along with 11 people allysonlister neilswainston fgibson cmzmasek thegoose2 druvus guhjy epigenetics Simplicity tharris dansullivanblk
	A Semantic Web for bioinformatics: goals, tools, systems, applications [My Copy] BMC Bioinformatics, Vol. 9, No. Suppl 4. (2008), S1. by Nicola Cannata, Michael Schroder, Roberto Marangoni, Paolo Romano posted to xml software programming phyloinformatics ontology nexml dbhack1 by rvosa to the group FAB-lab on 2009-09-07 13:49:14 as along with 7 people artaban421 cmzmasek druvus guhjy mariakmejia bootsy dansullivanblk
	Applying Semantic Web Services to Bioinformatics: Experiences Gained, Lessons Learnt [My Copy] The Semantic Web – ISWC 2004 (2004), pp. 350-364. by Phillip Lord, Sean Bechhofer, Mark D. Wilkinson, et al.Gary Schiltz, Damian Gessler, Duncan Hull, Carole Goble, Lincoln Stein posted to xml software programming phyloinformatics ontology nexml dbhack1 data-mining by rvosa to the group FAB-lab on 2009-09-07 13:46:55 as along with 3 people mjbell cmzmasek alanrw
	Life sciences on the Semantic Web: the Neurocommons and beyond. [My Copy] Briefings in bioinformatics, Vol. 10, No. 2. (1 March 2009), pp. 193-204. by Alan Ruttenberg, Jonathan A. Rees, Matthias Samwald, M. Scott Marshall posted to data-mining databases dbhack1 methods nexml ontology phyloinformatics programming software xml by rvosa to the group FAB-lab on 2009-07-30 21:06:03 as along with 10 people and 1 group jfr Effie guhjy druvus mikel_egana ehealthgr cassj dullhunk allysonlister fgibson NaCTeM
	The ontology of biological taxa [My Copy] Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i313-321. by Stefan Schulz, Holger Stenzhorn, Martin Boeker posted to classification data-mining databases dbhack1 nexml phyloinformatics programming software taxonomy xml by rvosa to the group FAB-lab on 2009-07-25 01:53:20 as along with 4 people and 1 group martingerner orovellotti guhjy dullhunk Eco informatics
	PhyloExplorer: a web server to validate, explore and query phylogenetic trees [My Copy] BMC Evolutionary Biology, Vol. 9, No. 1. (18 May 2009), 108. by Vincent Ranwez, Nicolas Clairon, Frederic Delsuc, et al.Saeed Pourali, Nicolas Auberval, Sorel Diser, Vincent Berry posted to algorithms biodiversity classification data-mining databases graph graphics methods phyloinformatics programming software taxonomy by rvosa to the group FAB-lab on 2009-06-27 09:11:43 as along with 1 person djkt
	BEAST: Bayesian evolutionary analysis by sampling trees [My Copy] BMC Evolutionary Biology, Vol. 7, No. 1. (08 November 2007), 214. by Alexei Drummond, Andrew Rambaut posted to algorithms bayesian markov-chains methods phylogeny phyloinformatics software xml by rvosa to the group FAB-lab on 2009-05-22 07:02:11 as along with 6 people codonusage usagi-kirin lizbiogen operon druvus treangen
	A Linear-Time Majority Tree Algorithm [My Copy] Algorithms in Bioinformatics (2003), pp. 216-227. by Nina Amenta, Frederick Clarke, Katherine St. John posted to algorithms graph methods phylogeny phyloinformatics software topology by rvosa to the group FAB-lab on 2008-12-18 02:35:27 as
	Abstract A Randomized Linear-time Majority Tree Algorithm [My Copy] by Nina Amenta, Frederick Clarke, Katherine St. John posted to algorithms data-mining methods phylogeny phyloinformatics software by rvosa to the group FAB-lab on 2008-12-18 02:26:43 as
	Pandit: a database of protein and associated nucleotide domains with inferred trees. [My Copy] Bioinformatics (Oxford, England), Vol. 19, No. 12. (12 August 2003), pp. 1556-1563. by S. Whelan, P. I. de Bakker, N. Goldman posted to alignment amino-acid databases dna evolution homology likelihood methods models phylogenomics phylogeny phyloinformatics protein proteins sequence by rvosa to the group FAB-lab on 2008-12-18 02:07:34 as along with 1 person mcox
	Predicting Functional Gene Links from Phylogenetic-Statistical Analyses of Whole Genomes [My Copy] PLoS Comput Biol, Vol. 1, No. 1. (24 June 2005), pp. e3-e3. by D. Barker, M. Pagel posted to genome networks ontology phylogenomics phylogeny phyloinformatics protein proteomics statistics by rvosa on 2008-08-09 09:29:23 as along with 10 people and 1 group jperkins biomcgary skembel Robinder rw294 balajis maryee arunyan bartleby pradiptaray iSEEM
	Detecting putative orthologs. [My Copy] Bioinformatics, Vol. 19, No. 13. (1 September 2003), pp. 1710-1711. by D. P. Wall, H. B. Fraser, A. E. Hirsh posted to algorithms alignment databases data-mining genome likelihood methods phylogenomics phyloinformatics by rvosa on 2008-08-08 07:27:51 as along with 7 people and 3 groups cgaugain operon ana indigoviolet dquest ninch cerca structural_bioinformatics Bioinformatics EisenLab
	Tree pattern matching in phylogenetic trees: automatic search for orthologs or paralogs in homologous gene sequence databases [My Copy] Bioinformatics, Vol. 21, No. 11. (1 June 2005), pp. 2596-2603. by Jean-Francois Dufayard, Laurent Duret, Simon Penel, Manolo Gouy, Francois Rechenmann, Guy Perriere posted to algorithms alignment databases data-mining genome methods phylogenomics phyloinformatics by rvosa on 2008-08-08 07:21:45 as along with 2 people and 2 groups ana stajich structural_bioinformatics Bioinformatics
	Improving the specificity of high-throughput ortholog prediction. [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (28 May 2006) by Debra L. Fulton, Yvonne Y. Li, Matthew R. Laird, Benjamin G. Horsman, Fiona M. Roche, Fiona S. Brinkman posted to algorithms alignment data-mining genome homology methods phylogenomics phyloinformatics by rvosa on 2008-08-08 07:17:36 as along with 4 people and 2 groups operon indigoviolet kaspermunch cerca Bioinformatics EisenLab
	BranchClust: a phylogenetic algorithm for selecting gene families [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (10 April 2007), 120. by Maria Poptsova, J. Peter Gogarten posted to algorithms alignment data-mining genome homology methods phylogenomics phyloinformatics programming by rvosa to the group FAB-lab on 2008-08-08 07:02:46 as along with 5 people and 1 group robfsouza GustavoLacerda cgaugain dandaman stajich Mycology
	Integrating biological databases [My Copy] Nat Rev Genet, Vol. 4, No. 5. (May 2003), pp. 337-345. by Lincoln D. Stein posted to data-mining databases dbhack1 phyloinformatics programming software xml by rvosa on 2008-05-13 01:24:04 as along with 10 people ptrobajo neils neilernst eweaver vaija laszlo8 hpiwowar fisherp lei cjeans
	Creating a bioinformatics nation. [My Copy] Nature, Vol. 417, No. 6885. (9 May 2002), pp. 119-120. by Lincoln Stein posted to data-mining databases dbhack1 phyloinformatics programming software xml by rvosa on 2008-05-13 01:24:01 as along with 13 people and 1 group pekrau druvus irenas andytseng balicea moborg wnpx dullhunk fisherp cjeans sentausa pablomendes fgibson dbk-lab
	XML: a lingua franca for science? [My Copy] Trends in Biotechnology, Vol. 18, No. 8. (1 August 2000), pp. 331-333. by Emmanuel Barillot, Frederic Achard posted to data-mining databases dbhack1 nexml phyloinformatics programming software xml by rvosa on 2008-05-13 01:23:44 as along with 1 person cjeans
	XML, bioinformatics and data integration. [My Copy] Bioinformatics, Vol. 17, No. 2. (February 2001), pp. 115-125. by F. Achard, G. Vaysseix, E. Barillot posted to data-mining dbhack1 nexml phyloinformatics programming software xml by rvosa on 2008-05-13 00:39:04 as along with 7 people and 2 groups irenas ingo andytseng yas dullhunk myui cjeans dbk-lab T_lab
	Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation. [My Copy] Bioinformatics (Oxford, England), Vol. 23, No. 1. (1 January 2007), pp. 127-128. by Ivica Letunic, Peer Bork posted to phyloinformatics by skhadar on 2008-02-27 07:00:20 as along with 6 people and 2 groups pablocarb aramata guhjy marcius hpaces gjuggler BioinfoCIPF SGU-CIPF
	Detecting coevolution in and among protein domains. [My Copy] PLoS computational biology, Vol. 3, No. 11. (1 November 2007), e211. by Chen-Hsiang H. Yeang, David Haussler posted to bioinformatics phyloinformatics sequence_analysis by skhadar on 2008-02-27 06:58:55 as along with 13 people and 1 group dfdong martainn balicea zwang sobolevnrm niallhaslam hpaces mingzhi Ema phoenixzxl penpen926 friendpine pradiptaray baker-group
	Predicting Protein Function with Hierarchical Phylogenetic Profiles: The Gene3D Phylo-Tuner Method Applied to Eukaryotic Genomes [My Copy] PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e237. by Juan A. Ranea, Corin Yeats, Alastair Grant, Christine A. Orengo posted to algorithm analysis bioinformatics phyloinformatics by skhadar on 2008-02-27 06:57:51 as along with 5 people and 1 group marti eckart_bindewald zwang asddd hpaces Orengo Group functional genomics watchlist
	Cophenetic correlation analysis as a strategy to select phylogenetically informative proteins: an example from the fungal kingdom [My Copy] BMC Evolutionary Biology, Vol. 7 (09 August 2007), 134. by Eiko E. Kuramae, Vincent Robert, Carlos Echavarri-Erasun, Teun Boekhout posted to algorithms amino-acid data-mining fungi methods phylogenomics phylogeny phyloinformatics proteins by rvosa to the group FAB-lab on 2008-02-01 11:30:06 as along with 2 people and 1 group echinotrix stajich Mycology
	Profiling Phylogenetic Informativeness [My Copy] Systematic Biology, Vol. 56, No. 2. (2007), pp. 222-231. by Jeffrey P. Townsend posted to algorithms animals characters data-mining mammal mammals methods mice phylogeny phyloinformatics rodents vertebrates by rvosa to the group FAB-lab on 2008-02-01 11:18:23 as along with 4 people and 1 group gjuggler aprasad stajich Jporci Mycology
	Improved Consensus Network Techniques for Genome-Scale Phylogeny [My Copy] Molecular Biology and Evolution, Vol. 23, No. 5. (15 May 2006), pp. 848-855. by Barbara R. Holland, Lars S. Jermiin, Vincent Moulton posted to algorithms genome graph methods networks phylogenomics phylogeny phyloinformatics by rvosa to the group FAB-lab on 2008-02-01 11:14:28 as along with 1 person stajich
	Detecting and overcoming systematic errors in genome-scale phylogenies. [My Copy] Syst Biol, Vol. 56, No. 3. (June 2007), pp. 389-399. by N. Rodríguez-Ezpeleta, H. Brinkmann, B. Roure, N. Lartillot, B. F. Lang, H. Philippe posted to algorithms databases data-mining genome methods phylogenomics phylogeny phyloinformatics by rvosa to the group FAB-lab on 2008-02-01 11:12:39 as along with 3 people and 1 group aprasad stajich dandaman Mycology
	Heads or Tails: A Simple Reliability Check for Multiple Sequence Alignments [My Copy] Mol Biol Evol, Vol. 24, No. 6. (1 June 2007), pp. 1380-1383. by Giddy Landan, Dan Graur posted to algorithms alignment amino-acid data-mining dna methods phylogeny phyloinformatics sequence by rvosa to the group FAB-lab on 2008-02-01 11:01:06 as along with 9 people treangen druvus aprasad BioNica stajich cjeans zwang lilou mailund
	Assessing performance of orthology detection strategies applied to eukaryotic genomes. [My Copy] PLoS ONE, Vol. 2 (2007) by F. Chen, A. J. Mackey, J. K. Vermunt, D. S. Roos posted to algorithms databases data-mining genome methods phylogenomics phylogeny phyloinformatics by rvosa to the group FAB-lab on 2008-02-01 10:57:03 as along with 15 people and 2 groups dfdong richardbickerton treangen dquest cgaugain druvus icases operon indigoviolet stajich cjeans winterschlaefer bpcusack cerca natstreet EisenLab TNT
	Automated ortholog inference from phylogenetic trees and calculation of orthology reliability. [My Copy] Bioinformatics, Vol. 18, No. 1. (January 2002), pp. 92-99. by C. E. Storm, E. L. Sonnhammer posted to algorithms genetics genome methods phylogenomics phylogeny phyloinformatics by rvosa on 2008-02-01 00:03:38 as along with 6 people and 1 group cgaugain mdimmic operon dlr indigoviolet ninch EisenLab
	NEXUS: An Extensible File Format for Systematic Information [My Copy] Systematic Biology, Vol. 46, No. 4. (1997), pp. 590-621. by David R. Maddison, David L. Swofford, Wayne P. Maddison posted to data-mining phyloinformatics software by rvosa to the group FAB-lab on 2007-11-29 08:27:27 as
	An XML-based system for synthesis of data from disparate databases. [My Copy] J Am Med Inform Assoc, Vol. 13, No. 3. (n 2006), pp. 289-301. by T. Kurc, D. A. Janies, A. D. Johnson, et al.S. Langella, S. Oster, S. Hastings, F. Habib, T. Camerlengo, D. Ervin, U. V. Catalyurek, J. H. Saltz posted to comparative data-mining phyloinformatics reconstruction software by rvosa to the group FAB-lab on 2007-11-27 23:34:47 as
	The delayed rise of present-day mammals [My Copy] Nature, Vol. 446, No. 7135. (2007), pp. 507-512. by Olaf R. P. Bininda-Emonds, Marcel Cardillo, Kate E. Jones, et al.Ross D. E. Macphee, Robin M. D. Beck, Richard Grenyer, Samantha A. Price, Rutger A. Vos, John L. Gittleman, Andy Purvis posted to biodiversity clock-like divergence diversification fossils phylogeny phyloinformatics primates ratio-test reconstruction substitution-models supertree by rvosa on 2007-10-13 22:04:44 as along with 5 people and 2 groups bpcusack gjuggler dchughes nurban dwildman G4ID Genetics-of-Gambling
	A composite estimate of primate phylogeny. [My Copy] Philos Trans R Soc Lond B Biol Sci, Vol. 348, No. 1326. (29 June 1995), pp. 405-421. by A. Purvis posted to algorithms animals biodiversity clock-like diversification fossils mammals mrp phylogeny phyloinformatics primates substitution-models supertree vertebrates by rvosa on 2007-10-13 21:47:21 as along with 2 people memerman kieran101
	Prospects for building the tree of life from large sequence databases. [My Copy] Science, Vol. 306, No. 5699. (12 November 2004), pp. 1172-1174. by A. C. Driskell, C. Ané, J. G. Burleigh, M. M. McMahon, B. C. O'meara, M. J. Sanderson posted to data-mining dbhack1 inference phylogeny phyloinformatics by rvosa on 2005-10-13 12:57:20 as along with 1 group FAB-lab
	The small-world dynamics of tree networks and data mining in phyloinformatics. [My Copy] Bioinformatics, Vol. 19, No. 9. (12 June 2003), pp. 1162-1168. by W. H. Piel, M. J. Sanderson, M. J. Donoghue posted to data-mining networks phylogeny phyloinformatics by rvosa to the group FAB-lab on 2005-10-13 12:56:43 as

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data-mining	45
methods	34
phylogeny	32
software	30
algorithms	29
programming	22
databases	21
dbhack1	19
phylogenomics	19
genome	17
xml	16
nexml	14
alignment	11
ontology	9
amino-acid	8
protein	8
homology	7
classification	6
graph	6
likelihood	5
networks	5
reconstruction	5
biodiversity	4
dna	4
evolution	4
fungi	4
inference	4
models	4
sequence	4
substitution-models	4
taxonomy	4
animals	3
mammals	3
ratio-test	3
statistics	3
vertebrates	3
bacteria	2
bayesian	2
bioinformatics	2
characters	2
clock-like	2
comparative	2
diversification	2
estimation	2
evolutionary_biology	2
fossils	2
graphics	2
markov-chains	2
mice	2
phylogenetics	2
primates	2
proteins	2
rodents	2
sequence-evolution	2
supertree	2
topology	2
tree_comparison	2
algorithm	1
analysis	1
divergence	1
genetics	1
mammal	1
mrp	1
proteomics	1
sequence_analysis	1

Tag phyloinformatics [39 articles] Export

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