biomcgary's library 368 articles Export

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	The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships [My Copy] Bioinformatics, Vol. 21, No. 17. (30 June 2005), pp. bti564-3489. by Tetsuya Sato, Yoshihiro Yamanishi, Minoru Kanehisa, Hiroyuki Toh posted to distance_matrix evolution mirror_tree phylogenetics protein-protein_interaction by biomcgary on 2009-07-09 22:06:48 as along with 2 people jperkins cjeans
	Assessing protein co-evolution in the context of the tree of life assists in the prediction of the interactome. [My Copy] Journal of molecular biology, Vol. 352, No. 4. (30 September 2005), pp. 1002-1015. by Florencio Pazos, Juan A. Ranea, David Juan, Michael J. Sternberg posted to co-evolution phylogenetics phylogenomics protein-protein_interaction by biomcgary on 2009-07-09 21:44:18 as along with 5 people jperkins chica Robinder balajis cjeans
	An End to Endless Forms: Epistasis, Phenotype Distribution Bias, and Nonuniform Evolution [My Copy] PLoS Comput Biol, Vol. 4, No. 10. (24 October 2008), e1000202. by Elhanan Borenstein, David C. Krakauer posted to development epistasis evolution morphology phenotype variation by biomcgary on 2008-11-02 19:59:57 as along with 12 people and 2 groups qwermish bpcusack joseph_x_zhou bayesian davfre jago Zephyrus mjoach grahamc alhufton dlobo djkt R.E.A.D GEB
	Broad network-based predictability of Saccharomyces cerevisiae gene loss-of-function phenotypes. [My Copy] Genome biology, Vol. 8, No. 12. (2007) by Kriston L. McGary, Insuk Lee, Edward M. Marcotte posted to functional_network network phenotype predictive_biology by biomcgary on 2007-12-18 17:10:54 as along with 6 people benjaminsb jiny raiyar cjeans barriot entropy
	The correlated evolution of Runx2 tandem repeats, transcriptional activity, and facial length in Carnivora [My Copy] Evolution & Development, Vol. 9, No. 6. (December 2007), pp. 555-565. by Sears, K. E., Goswami, et al. A., Flynn, J. J., Niswander, L. A. posted to correlated_evolution development evolution morphology nucleotide_repeats tandem_repeats by biomcgary on 2007-11-06 23:16:50 as along with 1 person robfsouza
	Natural history and evolutionary principles of gene duplication in fungi [My Copy] Nature, Vol. 449, No. 7158. (06 September 2007), pp. 54-61. by Ilan Wapinski, Avi Pfeffer, Nir Friedman, Aviv Regev posted to adaptation evolution fungi gene_duplication orthogroup ortholog paralog stress_genes by biomcgary on 2007-10-26 23:30:09 as along with 20 people and 4 groups Jporci bcondon GustavoLacerda gdb schwartzjmc keb45 gjuggler aheilbut dpollard tny dchughes djkt stajich zwang lp2 tzhughes maximilianh pkm bpcusack dandaman EisenLab G4ID Genetics-of-Gambling Mycology
	Gene duplication and the adaptive evolution of a classic genetic switch [My Copy] Nature, Vol. 449, No. 7163. (11 October 2007), pp. 677-681. by Chris T. Hittinger, Sean B. Carroll posted to adaptation ddc evolution galactose gene_duplication gene_expression yeast by biomcgary on 2007-10-10 20:23:27 as along with 16 people and 2 groups gjuggler sameersoi gipsoma wangbo dakelley druvus treangen mcphee dpollard dchughes djkt blobbybirdman kjlipin skumagai clearbluespring bpcusack EisenLab cis-regulatory-evolution
	Probabilistic Cross-Species Inference of Orthologous Genomic Regions Created by Whole-Genome Duplication in Yeast [My Copy] Genetics, Vol. 179, No. 3. (1 July 2008), pp. 1681-1692. by Gavin C. Conant, Kenneth H. Wolfe posted to yeast purifying_selection paralog ortholog orthogroup genome_duplication gene_loss gene_duplication gene_deletion fitness dosage_effect by biomcgary on 2009-11-13 21:36:36 as
	Genome evolution and adaptation in a long-term experiment with Escherichia coli. [My Copy] Nature, Vol. 461, No. 7268. (29 October 2009), pp. 1243-1247. by Jeffrey E. Barrick, Dong Su S. Yu, Sung Ho H. Yoon, et al.Haeyoung Jeong, Tae Kwang K. Oh, Dominique Schneider, Richard E. Lenski, Jihyun F. Kim posted to neutral_mutation mutation_rate mutation_accumulation genome evolution_rate e_coli adaptation by biomcgary on 2009-11-13 21:22:52 as along with 30 people and 5 groups pmalkus dokky samubernard ilyashl kintoki zwang jasontsai aaltenburger sawasthi nurban josepe tjandra venancio maren qayub Garamonfok yyfwuhan Asclepius dbikard nzm jjray djkt treangen lp2 operon diamantis michaelbarton druvus DrRichardBadge richardfranzese ronbun_2009au Pedro Martinez EvoDevo lab Barcelona iSEEM Journal picks BergmanLab
	Climbing Mount Probable: Mutation as a Cause of Nonrandomness in Evolution [My Copy] J Hered, Vol. 100, No. 5. (1 September 2009), pp. 637-647. by Arlin Stoltzfus, Lev Y. Yampolsky posted to evolution codon_bias biased_mutation amino_acid_substitution by biomcgary on 2009-11-13 21:13:06 as
	Comparative genomics of protoploid Saccharomycetaceae [My Copy] Genome Research, Vol. 19, No. 10. (12 October 2009), pp. 1696-1709. by Jean-Luc Souciet, Bernard Dujon, Claude Gaillardin, et al.Mark Johnston, Philippe V. Baret, Paul Cliften, David J. Sherman, Jean Weissenbach, Eric Westhof, Patrick Wincker, Claire Jubin, Julie Poulain, ValÃ©rie Barbe, BÃ©atrice SÃ©gurens, FranÃ§ois Artiguenave, VÃ©ronique Anthouard, Benoit Vacherie, Marie-Eve Val, Robert S. Fulton, Patrick Minx, Richard Wilson, Pascal Durrens, GÃ©raldine Jean, Christian Marck, Tiphaine Martin, Macha Nikolski, Thomas Rolland, Marie-Line Seret, Serge CasarÃ©gola, Laurence Despons, CÃ©cile Fairhead, Gilles Fischer, Ingrid Lafontaine, VÃ©ronique Leh, Marc Lemaire, Jacky de Montigny, CÃ©cile NeuvÃ©glise, AgnÃ¨s Thierry, Isabelle Blanc-Lenfle, Claudine Bleykasten, Julie Diffels, Emilie Fritsch, Lionel Frangeul, Adrien GoÃ«ffon, Nicolas Jauniaux, Rym Kachouri-Lafond, CÃ©lia Payen, Serge Potier, Lenka Pribylova, Christophe Ozanne, Guy-Franck Richard, Christine Sacerdot, Marie-Laure Straub, Emmanuel Talla posted to yeast synteny paralog ortholog genome fungi by biomcgary on 2009-11-12 19:44:00 as along with 5 people and 3 groups tapioka kiekyon druvus ppgardne stajich ronbun_2009au Journal picks Mycology
	Neutral evolution on mammalian protein surfaces [My Copy] Trends in Genetics, Vol. 25, No. 9. (26 September 2009), pp. 377-381. by Gavin C. Conant posted to selection review protein_structure protein-protein_interaction population_size neutral_network neutral_mutation neutral_drift by biomcgary on 2009-11-12 19:17:42 as along with 1 person dfdong
	Functional Partitioning of Yeast Co-Expression Networks after Genome Duplication [My Copy] PLoS Biol, Vol. 4, No. 4. (4 April 2006), e109. by Gavin C. Conant, Kenneth H. Wolfe posted to yeast redundancy network_evolution module_rewiring modularity genome_duplication gene_network gene_duplication gene_coexpression by biomcgary on 2009-11-12 19:13:00 as along with 3 people and 1 group dpollard nirfriedman bpcusack EisenLab
	Evolution of genes and genomes on the Drosophila phylogeny [My Copy] Nature, Vol. 450, No. 7167. (08 November 2007), pp. 203-218. posted to phylogeny genome evolution drosophila comparative_genomics by biomcgary on 2009-11-12 17:20:51 as along with 37 people and 5 groups aaltenburger nuttpo daveGerrard Anachff GustavoLacerda mqbphcw3 rpetrenko gwallau chica jlncdr aprasad gjuggler lizbiogen jbsaltz druvus pradiptaray pengchy operon tmmurali indigoviolet djkt timflutre stajich zwang Garamonfok lp2 CharlesM hpaces caseybrown emptyhb urgi noor PetrovLab isimpson balicea cisevol hdopazo Bioinformatics EisenLab Mycology BergmanLab Drosophila-Genetics-Genomics-2008
	Turning a hobby into a job: How duplicated genes find new functions [My Copy] Nat Rev Genet, Vol. 9, No. 12. (01 December 2008), pp. 938-950. by Gavin C. Conant, Kenneth H. Wolfe posted to yeast subfunctionalization review protein_function neo-functionalization genome_duplication gene_duplication gene_deletion evolution_rate evolution dosage_effect arabidopsis by biomcgary on 2009-11-12 17:13:55 as along with 12 people and 3 groups Annab clearbluespring ajaymalik ilyashl azazello pinney gderwin Zephyrus bootsy strands dchughes pkonings Bioinformatics Roswell Cancer Crosstalk R.E.A.D
	Spider Web Glue: Two Proteins Expressed from Opposite Strands of the Same DNA Sequence [My Copy] Biomacromolecules, Vol. 10, No. 10. (12 October 2009), pp. 2852-2856. by Omer Choresh, Battuya Bayarmagnai, Randolph V. Lewis posted to ultraconserved_sequence spider protein orf evolutionary_constraint evolution bi-directional_orf by biomcgary on 2009-11-10 15:44:47 as
	Evolution of biomolecular networks \|[mdash]\| lessons from metabolic and protein interactions [My Copy] Nat Rev Mol Cell Biol, Vol. 10, No. 11. (01 November 2009), pp. 791-803. by Takuji Yamada, Peer Bork posted to review protein-protein_interaction network_evolution evolutionary_constraint evolution by biomcgary on 2009-10-28 18:52:23 as along with 6 people venancio colmryan pinney nzm pedrobeltrao tmmurali
	Phylogenetic analysis of modularity in protein interaction networks. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (14 October 2009), 333. by Sinan Erten, Xin Li, Gurkan Bebek, Jing Li, Mehmet Koyutürk posted to systems_biology protein_interaction protein-protein_interaction phylogenomics phylogenetics network_evolution module_rewiring module by biomcgary on 2009-10-28 18:46:31 as along with 7 people and 2 groups sillitoe ppgardne grahamc zwang druvus barriot phoenixzxl Orengo Group Journal Picks Journal picks
	Evolution of Eukaryotic Transcription Circuits [My Copy] Science, Vol. 319, No. 5871. (28 March 2008), pp. 1797-1799. by Brian B. Tuch, Hao Li, Alexander D. Johnson posted to yeast transcription selection rewiring review evolution by biomcgary on 2009-10-26 20:27:59 as along with 6 people roys balabu emptyhb AbnerCYH djkt bpcusack
	The Modular Organization of Protein Interactions in Escherichia coli [My Copy] PLoS Comput Biol, Vol. 5, No. 10. (2 October 2009), e1000523. by José M. Peregrín-Alvarez, Xuejian Xiong, Chong Su, John Parkinson posted to protein_complex protein-protein_interaction network_evolution module modularity e_coli by biomcgary on 2009-10-13 22:47:39 as along with 6 people and 2 groups venancio CorinYeats grahamc kiekyon poirel dswan Orengo Group Journal Picks Bioinformatics
	Genome-scale approaches to resolving incongruence in molecular phylogenies [My Copy] Nature, Vol. 425, No. 6960. (23 October 2003), pp. 798-804. by Antonis Rokas, Barry L. Williams, Nicole King, Sean B. Carroll posted to rokas phylogenomics phylogenetics incongruence by biomcgary on 2009-10-13 20:43:52 as along with 7 people and 1 group skembel nlapalu druvus knaseanka aprasad AaronDarling srfairclough iSEEM
	Animal evolution and the molecular signature of radiations compressed in time. [My Copy] Science (New York, N.Y.), Vol. 310, No. 5756. (23 December 2005), pp. 1933-1938. by Antonis Rokas, Dirk Krüger, Sean B. Carroll posted to speciation rokas polytomy phylogenomics phylogenetics metazoan_phylogeny by biomcgary on 2009-10-13 20:39:43 as along with 4 people soberhaensli operon bayesian tny
	Transcriptional rewiring: the proof is in the eating. [My Copy] Current biology : CB, Vol. 17, No. 16. (21 August 2007) by Antonis Rokas, Chris Todd T. Hittinger posted to transcription rewiring gene_regulation by biomcgary on 2009-10-13 20:36:40 as
	The origins of multicellularity and the early history of the genetic toolkit for animal development. [My Copy] Annual review of genetics, Vol. 42, No. 1. (2008), pp. 235-251. by Antonis Rokas posted to toolkit rokas multicellularity metazoan evolution by biomcgary on 2009-10-13 20:35:24 as along with 1 person gjuggler
	The effect of domestication on the fungal proteome. [My Copy] Trends in genetics : TIG, Vol. 25, No. 2. (February 2009), pp. 60-63. by Antonis Rokas posted to synonymous_site selection rokas fungi domestication artificial_selection by biomcgary on 2009-10-13 20:34:05 as along with 5 people and 2 groups GustavoLacerda dbensasson bcondon djkt stajich Turgeon Lab Mycology
	Harnessing genomics for evolutionary insights. [My Copy] Trends in ecology & evolution (Personal edition), Vol. 24, No. 4. (6 April 2009), pp. 192-200. by Antonis Rokas, Patrick Abbot posted to rokas genomics evolution by biomcgary on 2009-10-13 20:32:52 as along with 7 people GustavoLacerda jlin robsyme druvus dchughes semrich inquil
	Benchmarking Next-Generation Transcriptome Sequencing for Functional and Evolutionary Genomics [My Copy] Mol Biol Evol, Vol. 26, No. 12. (1 December 2009), pp. 2731-2744. by John G. Gibbons, Eric M. Janson, Chris T. Hittinger, Mark Johnston, Patrick Abbot, Antonis Rokas posted to sequencing rokas genomics by biomcgary on 2009-10-13 20:32:20 as along with 7 people and 1 group djkt mlog kiekyon GustavoLacerda stajich natstreet druvus Mycology
	Conflicting phylogenetic signals at the base of the metazoan tree. [My Copy] Evolution & development, Vol. 5, No. 4. (g 2003), pp. 346-359. by Antonis Rokas, Nicole King, John Finnerty, Sean B. Carroll posted to rokas phylogenetic_conflict metazoan_phylogeny by biomcgary on 2009-10-13 20:26:16 as
	A Single Determinant Dominates the Rate of Yeast Protein Evolution [My Copy] Mol Biol Evol, Vol. 23, No. 2. (1 February 2006), pp. 327-337. by D. Allan Drummond, Alpan Raval, Claus O. Wilke posted to yeast protein_translation protein evolution_rate by biomcgary on 2009-10-12 21:49:18 as along with 6 people and 1 group mgomes azazello bjorns penka jpoyatos bicko Nie
	PAML 4: phylogenetic analysis by maximum likelihood. [My Copy] Molecular biology and evolution, Vol. 24, No. 8. (1 August 2007), pp. 1586-1591. by Ziheng Yang posted to phylogenetics phylogenetic_methods by biomcgary on 2009-10-08 22:00:16 as along with 13 people and 1 group ckenaley michaelbarton dquest druvus operon akifumi hdopazo BioNica stajich ryanraaum RamuAnandakrishnan CharlesM Ema Mycology
	RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees [My Copy] Bioinformatics, Vol. 21, No. 4. (15 February 2005), pp. 456-463. by A. Stamatakis, T. Ludwig, H. Meier posted to phylogenetics phylogenetic_methods maximum_likelihood by biomcgary on 2009-10-08 21:56:22 as along with 3 people operon marck polpotak
	Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. [My Copy] Molecular biology and evolution, Vol. 17, No. 4. (1 April 2000), pp. 540-552. by J. Castresana posted to sequence_alignment by biomcgary on 2009-10-08 21:49:50 as along with 9 people and 1 group ramonvidal operon druvus dmp aprasad treangen stajich ArtemPankin cmzmasek Mycology
	MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. [My Copy] Nucleic acids research, Vol. 30, No. 14. (15 July 2002), pp. 3059-3066. by Kazutaka Katoh, Kazuharu Misawa, Kei-ichi Kuma, Takashi Miyata posted to sequence_alignment by biomcgary on 2009-10-08 21:40:10 as along with 8 people calderonv natstreet druvus treangen rabio timflutre marti urgi
	CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. [My Copy] Nucleic acids research, Vol. 22, No. 22. (11 November 1994), pp. 4673-4680. by J. D. Thompson, D. G. Higgins, T. J. Gibson posted to sequence_alignment by biomcgary on 2009-10-08 21:36:53 as along with 34 people and 1 group vprieto tomjad oceanwind Blackbeard db344 udivi daforerog Md_2007 sebk cen4ik usagi-kirin jmw greger_halltorp jshapiro mercaptan evaf caldavis miguel onlyrey bjorns aprasad RMGraze moborg arcticrasta dullhunk caporaso ahanora Haggan BioNica timflutre adijr xingxu newton1234 Lombardo_7 biomedical-nlp
	OrthoMCL: identification of ortholog groups for eukaryotic genomes. [My Copy] Genome research, Vol. 13, No. 9. (September 2003), pp. 2178-2189. by Li Li, Christian J. Stoeckert, David S. Roos posted to ortholog orthogroup by biomcgary on 2009-10-08 21:29:38 as along with 15 people and 2 groups GustavoLacerda sjcockell thegoose2 nlapalu dullhunk natstreet druvus tharris mdimmic operon indigoviolet AaronDarling bluto maximilianh ninch C. elegans / WormBase EisenLab
	Recent de novo origin of human protein-coding genes. [My Copy] Genome research, Vol. 19, No. 10. (2 October 2009), pp. 1752-1759. by David G. Knowles, Aoife McLysaght posted to protein primate orphan_gene novel_gene human evolution by biomcgary on 2009-10-08 21:02:57 as along with 9 people and 2 groups rshe psique xianjun gjuggler megraw fenghezi avilella bpcusack djkt Journal picks Ensembl Compara citations
	Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. [My Copy] Journal of molecular biology, Vol. 314, No. 5. (14 December 2001), pp. 1041-1052. by M. Remm, C. E. Storm, E. L. Sonnhammer posted to ortholog orthogroup inparanoid inparalog by biomcgary on 2009-10-08 20:56:08 as along with 15 people and 3 groups isimpson thegoose2 operon cgaugain tharris tmmurali indigoviolet Sharpshoot jhc gurkanbebek bluto incovoma ninch cerca wiedehopf C. elegans / WormBase EisenLab BioinfoCIPF
	The Arabidopsis Information Resource (TAIR): a comprehensive database and web-based information retrieval, analysis, and visualization system for a model plant. [My Copy] Nucleic acids research, Vol. 29, No. 1. (1 January 2001), pp. 102-105. by E. Huala, A. W. Dickerman, M. Garcia-Hernandez, et al.D. Weems, L. Reiser, F. LaFond, D. Hanley, D. Kiphart, M. Zhuang, W. Huang, L. A. Mueller, D. Bhattacharyya, D. Bhaya, B. W. Sobral, W. Beavis, D. W. Meinke, C. D. Town, C. Somerville, S. Y. Rhee posted to data by biomcgary on 2009-10-08 20:31:03 as along with 3 people schwartzjmc natstreet RamuAnandakrishnan
	WormBase: a comprehensive data resource for Caenorhabditis biology and genomics. [My Copy] Nucleic acids research, Vol. 33, No. Database issue. (1 January 2005) by Nansheng Chen, Todd W. Harris, Igor Antoshechkin, et al.Carol Bastiani, Tamberlyn Bieri, Darin Blasiar, Keith Bradnam, Payan Canaran, Juancarlos Chan, Chao-Kung K. Chen, Wen J. Chen, Fiona Cunningham, Paul Davis, Eimear Kenny, Ranjana Kishore, Daniel Lawson, Raymond Lee, Hans-Michael M. Muller, Cecilia Nakamura, Shraddha Pai, Philip Ozersky, Andrei Petcherski, Anthony Rogers, Aniko Sabo, Erich M. Schwarz, Kimberly Van Auken, Qinghua Wang, Richard Durbin, John Spieth, Paul W. Sternberg, Lincoln D. Stein posted to worm database by biomcgary on 2009-10-08 20:21:57 as along with 8 people rshe thegoose2 paszkows rklancer nuke2005 maryee GustavoLacerda tharris
	The Mouse Genome Database (MGD): from genes to mice--a community resource for mouse biology. [My Copy] Nucleic acids research, Vol. 33, No. Database issue. (1 January 2005), D471. by Janan T. Eppig, Carol J. Bult, James A. Kadin, et al.Joel E. Richardson, Judith A. Blake, A. Anagnostopoulos, R. M. Baldarelli, M. Baya, J. S. Beal, S. M. Bello, W. J. Boddy, D. W. Bradt, D. L. Burkart, N. E. Butler, J. Campbell, M. A. Cassell, L. E. Corbani, S. L. Cousins, D. J. Dahmen, H. Dene, A. D. Diehl, H. J. Drabkin, K. S. Frazer, P. Frost, L. H. Glass, C. W. Goldsmith, P. L. Grant, M. Lennon-Pierce, J. Lewis, I. Lu, L. J. Maltais, M. McAndrews-Hill, L. McClellan, D. B. Miers, L. A. Miller, L. Ni, J. E. Ormsby, D. Qi, T. B. Reddy, D. J. Reed, B. Richards-Smith, D. R. Shaw, R. Sinclair, C. L. Smith, P. Szauter, M. B. Walker, D. O. Walton, L. L. Washburn, I. T. Witham, Y. Zhu, Mouse Genome Database Group posted to mouse database by biomcgary on 2009-10-08 20:19:11 as
	Parallel inactivation of multiple GAL pathway genes and ecological diversification in yeasts. [My Copy] Proceedings of the National Academy of Sciences of the United States of America. , Vol. 101, No. 39. (28 September 2004), pp. 14144-14149. by Chris Todd T. Hittinger, Antonis Rokas, Sean B. Carroll posted to yeast parallel_evolution module gene_deletion galactose convergent_evolution by biomcgary on 2009-10-07 20:59:20 as along with 1 person i41m
	Robust discrimination between self and non-self neurites requires thousands of Dscam1 isoforms [My Copy] Nature, Vol. 461, No. 7264. (01 October 2009), pp. 644-648. by Daisuke Hattori, Yi Chen, Benjamin J. Matthews, et al.Lukasz Salwinski, Chiara Sabatti, Wesley B. Grueber, S. Lawrence Zipursky posted to splicing_alternative neuron isoform dscam by biomcgary on 2009-10-05 23:30:31 as along with 1 person fenghezi
	GENE CO-OPTION IN PHYSIOLOGICAL AND MORPHOLOGICAL EVOLUTION [My Copy] Annual Review of Cell and Developmental Biology, Vol. 18, No. 1. (2002), pp. 53-80. by John R. True, Sean B. Carroll posted to rewiring module development co-option by biomcgary on 2009-09-30 22:08:07 as
	From molecular to modular cell biology. [My Copy] Nature, Vol. 402, No. 6761 Suppl. (2 December 1999), pp. C47-C52. by L. H. Hartwell, J. J. Hopfield, S. Leibler, A. W. Murray posted to review module_rewiring module modularity evolutionary_constraint evolution by biomcgary on 2009-09-30 21:57:46 as along with 27 people and 8 groups antonkratz dagmar poirel bertelsen Scis0000002 daforerog jporternj chihchun_chen babakap AurelienMazurie rhem1224 balajis nuke2005 rubendrr wnpx i41m adepace javierFellow mmt mirzazadeh carmaus dejori carlk awooga tvdbulck vsausg dragonrez EisenLab TCR_Signaling cytoskeleton-and-afm SysbioMPI-TCells dIEMoSIRIS ic4 generif_paper MoSi-Rostock
	The origins and evolution of functional modules: lessons from protein complexes. [My Copy] Philosophical transactions of the Royal Society of London. Series B, Biological sciences, Vol. 361, No. 1467. (29 March 2006), pp. 507-517. by Jose B. Pereira-Leal, Emmanuel D. Levy, Sarah A. Teichmann posted to robustness protein-protein_interaction network_evolution network module_rewiring module modularity essentiality by biomcgary on 2009-09-30 21:50:29 as along with 6 people saket agustinarce bicko choonpeng cjeans cmzmasek
	Co-translational mRNA decay in Saccharomyces cerevisiae. [My Copy] Nature, Vol. 461, No. 7261. (10 September 2009), pp. 225-229. by Wenqian Hu, Thomas J. Sweet, Sangpen Chamnongpol, Kristian E. Baker, Jeff Coller posted to ribosome protein_translation mrna_decay mrna gratuitous_reference by biomcgary on 2009-09-23 19:10:39 as along with 4 people and 1 group nzm jjray TRHvidsten bpcusack Journal picks
	Molecular networks as sensors and drivers of common human diseases [My Copy] Nature, Vol. 461, No. 7261. (09 September 2009), pp. 218-223. by Eric E. Schadt posted to variation systems_biology review probabilistic_model phenotype_prediction phenotype network_reconstruction network disease by biomcgary on 2009-09-16 22:25:14 as along with 14 people robfree apocapoc ptrobajo MurphysLab greg inesdesantiago pablocarb brianb abhishek_tiwari zufar pkonings rdiaz daforerog megraw
	Redefining Cancer Research [My Copy] Science, Vol. 325, No. 5946. (11 September 2009), 1319. by Bruce Alberts posted to review model_organism editorial cancer by biomcgary on 2009-09-14 19:54:37 as along with 2 people and 1 group jago rdiaz Integrative Expertise for Global Health
	Rapid Evolution of Functional Complexity in a Domain Family [My Copy] Sci. Signal., Vol. 2, No. 87. (8 September 2009), ra50. by Andreas Ernst, Stephen L. Sazinsky, Shirley Hui, et al.Bridget Currell, Moyez Dharsee, Somasekar Seshagiri, Gary D. Bader, Sachdev S. Sidhu posted to random_mutagenesis protein_domain protein-protein_interaction network evolvability by biomcgary on 2009-09-14 19:10:49 as
	Protein sectors: evolutionary units of three-dimensional structure. [My Copy] Cell, Vol. 138, No. 4. (21 August 2009), pp. 774-786. by Najeeb Halabi, Olivier Rivoire, Stanislas Leibler, Rama Ranganathan posted to selection protein_structure evolutionary_constraint correlated_evolution by biomcgary on 2009-09-10 21:52:53 as along with 10 people and 1 group yyfwuhan cmzmasek dgront robfsouza pansapiens pablocarb vvoorr dayjm jwm jbhiatt Marcotte_Lab

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evolution	91
network	43
protein-protein_interaction	42
gene_expression	35
evolution_rate	29
yeast	29
gene_duplication	28
evolutionary_constraint	25
phenotype	24
systems_biology	23
metabolism	22
development	21
variation	21
phylogenetics	19
selection	19
module	18
adaptation	16
convergent_evolution	16
fungi	16
biased_mutation	14
genome	14
modularity	14
mutation	14
mutation_rate	14
phylogenomics	14
predictive_biology	14
evo-devo	13
network_evolution	13
transcription	13
bacteria	12
genome_duplication	12
protein	12
review	12
cancer	11
co-evolution	11
drosophila	11
paralog	11
robustness	11
selection_positive	11
e_coli	10
gene_regulation	10
signalling_cascade	10
disease	9
human	9
transcription_factor	9
aggregation	8
morphology	8
ortholog	8
phenotype_prediction	8
plant	8
population_genetics	8
protein_structure	8
transcription_factor_binding_site	8
artificial_selection	7
functional_network	7
gene_deletion	7
horizontal_gene_transfer	7
noise	7
protein_complex	7
rewiring	7
rokas	7
speciation	7
splicing	7
transposon	7
ageing	6
co-option	6
essentiality	6
evolvability	6
kinase	6
mitochondria	6
module_rewiring	6
ncrna	6
network_genetic	6
neuron	6
neutral_drift	6
retrotransposition	6
rna	6
sequence_alignment	6
sequencing	6
stem_cell	6
stochastic_variation	6
vertebrate	6
biased_mutations	5
biased_recombination	5
cell_cycle	5
chromatin	5
chromosomal_rearrangement	5
correlated_evolution	5
environmental_sensing	5
eukaryote	5
gene_loss	5
gene_network	5
homologous_recombination	5
indel	5
intron	5
mammalian_evolution	5
metazoan_phylogeny	5
mitochondrial_dna	5
orthogroup	5
parallel_evolution	5
plasticity	5
protein_function	5
protein_translation	5
qtl	5
regulatory_network	5
repetitive_sequence	5
sequence_divergence	5
symbiosis	5
virus	5
apoptosis	4
biology	4
c_elegans	4
chaperone	4
codon_bias	4
comparative_genomics	4
dna_repair	4
enzyme	4
evolutionary_stasis	4
expression	4
feedback_negative	4
gene_redundant	4
genetic_variation	4
mating_pathway	4
maximum_likelihood	4
model_organism	4
mrna	4
mutation_hotspot	4
neutral_mutation	4
paleontology	4
phylogenetic_methods	4
protein_engineering	4
redundancy	4
secretion	4
subfunctionalization	4
toolkit	4
aneuploidy	3
antibiotic	3
blood	3
brain	3
buffering	3
centromere	3
chromosome_structure	3
co-adaptation	3
comparative_network	3
compensatory_mutations	3
designed_mutations	3
dna_damage	3
dna-protein_interaction	3
domestication	3
dosage_effect	3
drug	3
dscam	3
ecology	3
endothelium	3
environmental	3
environmental_effects	3
epistasis	3
eqtl	3
feedback_positive	3
flagella	3
frameshift	3
functional_annotation	3
gene_silencing	3
genetic_load	3
genome_phylogeny	3
genotype	3
genotype-phenotype_map	3
germline_cell	3
growth_rate	3
heirarchy	3
heterozygosity	3
hybrid_vigor	3
information	3
junk_dna	3
linkage_disequilibrium	3
mass_spectroscopy	3
morphogenesis	3
mouse	3
natural_selection	3
neo-functionalization	3
neutral_network	3
orphan_gene	3
phylogeny	3
placenta	3
placoderm	3
primate	3
protein_fold	3
protein_folding	3
proteome	3
purifying_selection	3
reductive_evolution	3
ribosome	3
rnai	3
snake	3
somatic_cell	3
splicing_alternative	3
stress_genes	3
synteny	3
systems_engineering	3
telomere	3
testis	3
amyloid	2
angiogenesis	2
animal	2
antisense	2
arabidopsis	2
archea	2
bayesian_methods	2
bilaterian	2
breast_cancer	2
cell_size	2
cellular_reprogramming	2
chemotaxis	2
chromosome	2
chromosome_distribution	2
cichlid	2
complexity	2
conserved_amino_acid_change	2
database	2
disordered_protein	2
dispensability	2
diversification	2
dna_methylation	2
dnds	2
dog	2
epigenetic_inheritance	2
essentiality_conditional	2
evidence	2
extinction	2
faulty_assumptions	2
fitness	2
functional_genomics	2
galactose	2
gene_activation	2
gene_buffering	2
gene_coexpression	2
gene_family	2
gene_function	2
gene_ontology	2
gene_repression	2
genome_defense	2
genomics	2
heat_shock	2
hemoglobin	2
homomers	2
hormone	2
hub_protein	2
immune_system	2
introns	2
ion_transport	2
ligand	2
lymphocyte	2
marcotte	2
metazoan	2
mirna	2
mirror_tree	2
modeling	2
model_of_evolution	2
mrna_decay	2
multicellularity	2
network_reconstruction	2
nonconserved_functional_dna	2
novel_gene	2
nucleotide_repeats	2
number_systems	2
obesity	2
osmoregulation	2
overexpression	2
pathogen	2
pathogenesis	2
pathway	2
phylogenetic	2
phylogenetic_profiling	2
physiology	2
placozoan	2
pleiotropy	2
polymorphism	2
polyploid	2
population_size	2
prebiotic_evolution	2
probabilistic_model	2
protein_domain	2
protein_reconstruction	2
proton-motive-force	2
pseudogene	2
quorum_sensing	2
rare_genomic_changes	2
recombination	2
repeat_expansion	2
retrogene	2
scaffold_protein	2
secondary_metabolism	2
self-organization	2
signal_integration	2
sporulation	2
statistics	2
sulfur_mustard	2
synonymous_site	2
synthetic_biology	2
synthetic_lethal	2
synthetic_rescue	2
systems	2
teeth	2
tissue_specific	2
transposable_element	2
triplet_repeat	2
unknown_mechanism	2
usefulness_of_evolutionary_theory	2
viviparity	2
abc_transporter	1
acanthostega	1
adaptive_landscape	1
agnathan	1
alu	1
amino_acid_substitution	1
ammonods	1
angiosperm	1
annotation	1
anthropology	1
antibody	1
antioxidant	1
anti-viral_immunity	1
aphid	1
archeaology	1
asexual_reproduction	1
atavism	1
atp	1
backup	1
bacteriophage	1
baleen	1
bandwagon_effect	1
base_excision_repair	1
bet-hedging	1
bias	1
bi-directional_orf	1
binding_site	1
bioengineering	1
biogeography	1
biology_education	1
biophysics	1
biotech	1
blastoderm	1
book_review	1
c3	1
c4	1
canalization	1
capacitor	1
catalyst	1
cell-cell_adhesion	1
cell_polarity	1
cell_signalling	1
cell_specification	1
cellular	1
cellular_storage	1
cell_wall	1
cephalopods	1
chemosensory	1
chipseq	1
chip-seq	1
chromosome_y	1
cilia	1
ciliate	1
circadian_rhythm	1
clade-specific	1
club	1
coat_color	1
co-conservation	1
coelomata	1
colonization	1
combination_therapy	1
communication_bacterial	1
comparative_metabolomics	1
comparative_proteomics	1
competitive_binding	1
competitive_interaction	1
complex_traits	1
connectivity	1
contingent_evolution	1
cost_of_complexity	1
cpg_island	1
critical_thinking	1
crosslinking	1
ctenophora	1
cytokine	1
data	1
dauer	1
ddc	1
democracy	1
de-speciation	1
developmental_bias	1
developmental_reprogramming	1
diabetes	1
digestion	1
directional_selection	1
distance_matrix	1
diversification_rapid	1
dna	1
dollos_law	1
ecdysozoa	1
editorial	1
education	1
effect_size	1
egg_yolk	1
empirical	1
encode	1
endomesoderm	1
endoplasmic_reticulum	1
environmental_niche	1
estrogen	1
eusociality	1
evolutionary_biology	1
exaptation	1
extracellular_matrix	1
eye	1
facilitated	1
faculative_asexuality	1
false_discovery_rate	1
fault_tolerance	1
flux_balance	1
frequency	1
gap_gene	1
gender_differences	1
gene_conversion	1
gene_fusion	1
gene_order	1
gene-phenotype_map	1
genetic_code	1
genetic_meltdown	1
genetic_penetrance	1
genital_defect	1
genome_rearrangements	1
genome_size	1
genomic_imprinting	1
gfp	1
glucose	1
gnathostome	1
graceful_degradation	1
gratuitous_reference	1
gravity	1
growth_factor	1
haploinsufficiency	1
hearing	1
heterotopy	1
hgt	1
histone_acetylation	1
histone_methylation	1
hitch-hiking	1
homeostasis	1
homology	1
homoplazsy	1
hox_genes	1
hsp70	1
hsp90	1
hydrophobic_patch	1
ichthyostega	1
inbreeding	1
incongruence	1
inference	1
information_theory	1
inheritance	1
inparalog	1
inparanoid	1
insect	1
insertion_site_bias	1
interaction_network	1
interaction_site	1
interferon	1
internal_fertilization	1
internal_selection	1
intron_gain	1
intron_loss	1
inverted_repeats	1
isoform	1
jaw	1
journal	1
kegg	1
kinase_tyrosine_receptor	1
kin_selection	1
lactation	1
lamprey	1
learning	1
limb	1
line_long_interspersed_element	1
lung	1
macrophage	1
marsupial	1
maternal_effect	1
mcat	1
meiosis	1
melanin	1
memory	1
metric	1
microrna	1
mistranslation	1
mol	1
monogamy	1
moult	1
mutation_accumulation	1
mutation_small_effect	1
mutualism	1

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