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di gjuggler library [270 articles]

Articoli aggiunti di recente nella biblioteca di gjuggler ordinata per importanza .
  • Phylogenetic Inference Using Whole Genomes
    Annual Review of Genomics and Human Genetics, Vol. 9, No. 1. (2008), pp. 217-231.
    by Bruce Rannala, Ziheng Yang
    posted to phylogenetics by gjuggler on 2008-09-04 11:51:46 as ***** along with 3 people druvus aprasad zwang
  • Single-nucleotide mutation rate increases close to insertions/deletions in eukaryotes
    Nature (20 July 2008)
    by Dacheng Tian, Qiang Wang, Pengfei Zhang, Hitoshi Araki, Sihai Yang, Martin Kreitman, Thomas Nagylaki, Richard Hudson, Joy Bergelson, Jian Q Chen
    posted to indels mutation by gjuggler on 2008-07-23 10:47:15 as ***** along with 6 people and 1 group dakelley zwang psique djkt caseybrown bpcusack parkinson's disease references
  • Large-scale comparative analysis of splicing signals and their corresponding splicing factors in eukaryotes.
    Genome Res, Vol. 18, No. 1. (January 2008), pp. 88-103.
    by S Schwartz, J Silva, D Burstein, T Pupko, E Eyras, G Ast
    posted to splicing by gjuggler on 2008-01-04 13:15:53 as ***** along with 4 people and 2 groups tharris dchughes stajich GustavoLacerda C. elegans / WormBase Berkeley Mycology
  • On the Origin of Species
    (1859)
    by Charles Darwin
    posted to nopdf phylowidget by gjuggler on 2007-12-21 03:35:35 as ****
  • Features of 5'-splice-site efficiency derived from disease-causing mutations and comparative genomics.
    Genome Res, Vol. 18, No. 1. (January 2008), pp. 77-87.
    by X Roca, AJ Olson, AR Rao, E Enerly, VN Kristensen, Børresen AL Dale, BS Andresen, AR Krainer, R Sachidanandam
    posted to splicing by gjuggler on 2008-01-04 12:27:18 as *** along with 2 people dchughes ohara
  • The haplo-spliceo-transcriptome: common variations in alternative splicing in the human population.
    Trends Genet, Vol. 24, No. 1. (January 2008), pp. 5-7.
    by BR Graveley
    posted to splicing by gjuggler on 2008-01-04 11:39:40 as ***
  • Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
    Nature, Vol. 450, No. 7167. (2007), pp. 219-232.
    by Alexander Stark, Michael F Lin, Pouya Kheradpour, Jakob S Pedersen, Leopold Parts, Joseph W Carlson, Madeline A Crosby, Matthew D Rasmussen, Sushmita Roy, Ameya N Deoras, Graham J Ruby, Julius Brennecke, Harvard F Curators, Berkeley, Emily Hodges, Angie S Hinrichs, Anat Caspi, Benedict Paten, Seung W Park, Mira V Han, Morgan L Maeder, Benjamin J Polansky, Bryanne E Robson, Stein Aerts, Jacques van Helden, Bassem Hassan, Donald G Gilbert, Deborah A Eastman, Michael Rice, Michael Weir, Matthew W Hahn, Yongkyu Park, Colin N Dewey, Lior Pachter, James W Kent, David Haussler, Eric C Lai, David P Bartel, Gregory J Hannon, Thomas C Kaufman, Michael B Eisen, Andrew G Clark, Douglas Smith, Susan E Celniker, William M Gelbart, Manolis Kellis
    posted to annotation by gjuggler on 2007-11-21 12:40:27 as *** along with 14 people and 3 groups operon tmmurali djkt timflutre stajich lp2 cabbagezs nklee hpaces roys caseybrown shuzhens PetrovLab cisevol csb_journal_club_public Berkeley Mycology Drosophila-Genetics-Genomics-2008
  • Synonymous and Nonsynonymous Rate Variation in Nuclear Genes of Mammals
    Journal of Molecular Evolution, Vol. 46, No. 4. (24 April 1998), pp. 409-418.
    by Ziheng Yang, Rasmus Nielsen
    posted to e-slr by gjuggler on 2008-10-05 18:40:07 as **
  • Accuracy and power of the likelihood ratio test in detecting adaptive molecular evolution.
    Mol Biol Evol, Vol. 18, No. 8. (August 2001), pp. 1585-1592.
    by M Anisimova, JP Bielawski, Z Yang
    posted to e-slr by gjuggler on 2008-10-05 18:22:01 as ** along with 3 people and 1 group stevanspringer ankur_iitg CharlesM FAB-lab
  • An evolutionary model for maximum likelihood alignment of DNA sequences.
    Journal of molecular evolution, Vol. 33, No. 2. (August 1991), pp. 114-124.
    by JL Thorne, H Kishino, J Felsenstein
    posted to alignment by gjuggler on 2008-10-03 17:06:25 as ** along with 1 person timflutre
  • Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution.
    Mol Biol Evol, Vol. 15, No. 5. (May 1998), pp. 568-573.
    by Z Yang
    posted to tac-1 by gjuggler on 2008-10-03 17:00:48 as ** along with 3 people AaronDarling usagi-kirin Garamonfok
  • Computational Molecular Evolution (Oxford Series in Ecology and Evolution)
    (07 December 2006)
    by Ziheng Yang
    posted to books by gjuggler on 2008-10-03 16:58:04 as ** along with 2 people druvus CharlesM
  • Evolutionary diversification of multigene families: allelic selection of toxins in predatory cone snails.
    Molecular biology and evolution, Vol. 17, No. 9. (September 2000), pp. 1286-1293.
    by TF Duda, SR Palumbi
    posted to tac-1 by gjuggler on 2008-10-03 16:57:11 as **
  • Non-Darwinian evolution.
    Science (New York, N.Y.), Vol. 164, No. 881. (16 May 1969), pp. 788-798.
    by JL King, TH Jukes
    posted to tac-1 by gjuggler on 2008-10-02 23:37:43 as **
  • Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection
    Nature, Vol. 335, No. 6186. (1988), pp. 167-170.
    by Austin L Hughes, Masatoshi Nei
    posted to tac-1 by gjuggler on 2008-10-02 23:03:43 as ** along with 1 person cjeans
  • Evolutionary rate at the molecular level.
    Nature, Vol. 217, No. 5129. (17 February 1968), pp. 624-626.
    by M Kimura
    posted to tac-1 by gjuggler on 2008-10-02 23:00:34 as ** along with 3 people renewang timflutre elfar
  • Mutually exclusive var gene expression in the malaria parasite: multiple layers of regulation.
    Trends in parasitology (2 September 2008)
    by Thanat Chookajorn, Patrath Ponsuwanna, Liwang Cui
    posted to epidemiology by gjuggler on 2008-10-02 11:21:50 as **
  • Inferring Phylogenies
    (04 September 2003)
    by Joseph Felsenstein
    posted to tac-1 phylogenetics by gjuggler on 2008-10-01 10:27:26 as ** along with 5 people and 2 groups bayesian dpollard cmm farhat dlizcano EisenLab FAB-lab
  • DNA assembly with gaps (Dawg): simulating sequence evolution.
    Bioinformatics, Vol. 21 Suppl 3 (1 November 2005)
    by RA Cartwright
    posted to tac-1 alngen by gjuggler on 2008-09-26 16:34:17 as ** along with 1 person aprasad
  • Ortheus: Efficient Probabalistic Ancestor Reconstruction
    by Benedict Paten, Ian Holmes, Ewan Birney
    posted to general by gjuggler on 2008-09-26 11:05:58 as **
  • Genome sequence of the Brown Norway rat yields insights into mammalian evolution.
    Nature, Vol. 428, No. 6982. (1 April 2004), pp. 493-521.
    by RA Gibbs, GM Weinstock, ML Metzker, DM Muzny, EJ Sodergren, S Scherer, G Scott, D Steffen, KC Worley, PE Burch, G Okwuonu, S Hines, L Lewis, C Deramo, O Delgado, Dugan S Rocha, G Miner, M Morgan, A Hawes, R Gill, Celera, RA Holt, MD Adams, PG Amanatides, Baden H Tillson, M Barnstead, S Chin, CA Evans, S Ferriera, C Fosler, A Glodek, Z Gu, D Jennings, CL Kraft, T Nguyen, CM Pfannkoch, C Sitter, GG Sutton, JC Venter, T Woodage, D Smith, HM Lee, E Gustafson, P Cahill, A Kana, Doucette L Stamm, K Weinstock, K Fechtel, RB Weiss, DM Dunn, ED Green, RW Blakesley, GG Bouffard, PJ De Jong, K Osoegawa, B Zhu, M Marra, J Schein, I Bosdet, C Fjell, S Jones, M Krzywinski, C Mathewson, A Siddiqui, N Wye, J Mcpherson, S Zhao, CM Fraser, J Shetty, S Shatsman, K Geer, Y Chen, S Abramzon, WC Nierman, PH Havlak, R Chen, KJ Durbin, A Egan, Y Ren, XZ Song, B Li, Y Liu, X Qin, S Cawley, KC Worley, AJ Cooney, LM D'Souza, K Martin, JQ Wu, Gonzalez ML Garay, AR Jackson, KJ Kalafus, MP Mcleod, A Milosavljevic, D Virk, A Volkov, DA Wheeler, Z Zhang, JA Bailey, EE Eichler, E Tuzun, E Birney, E Mongin, Ureta A Vidal, C Woodwark, E Zdobnov, P Bork, M Suyama, D Torrents, M Alexandersson, BJ Trask, JM Young, H Huang, H Wang, H Xing, S Daniels, D Gietzen, J Schmidt, K Stevens, U Vitt, J Wingrove, F Camara, Mar M Albà, JF Abril, R Guigo, A Smit, I Dubchak, EM Rubin, O Couronne, A Poliakov, N Hübner, D Ganten, C Goesele, O Hummel, T Kreitler, YA Lee, J Monti, H Schulz, H Zimdahl, H Himmelbauer, H Lehrach, HJ Jacob, S Bromberg, Gullings J Handley, Jensen MI Seaman, AE Kwitek, J Lazar, D Pasko, PJ Tonellato, S Twigger, CP Ponting, JM Duarte, S Rice, L Goodstadt, SA Beatson, RD Emes, EE Winter, C Webber, P Brandt, G Nyakatura, M Adetobi, F Chiaromonte, L Elnitski, P Eswara, RC Hardison, M Hou, D Kolbe, K Makova, W Miller, A Nekrutenko, C Riemer, S Schwartz, J Taylor, S Yang, Y Zhang, K Lindpaintner, TD Andrews, M Caccamo, M Clamp, L Clarke, V Curwen, R Durbin, E Eyras, SM Searle, GM Cooper, S Batzoglou, M Brudno, A Sidow, EA Stone, JC Venter, BA Payseur, G Bourque, López C Otín, XS Puente, K Chakrabarti, S Chatterji, C Dewey, L Pachter, N Bray, VB Yap, A Caspi, G Tesler, PA Pevzner, D Haussler, KM Roskin, R Baertsch, H Clawson, TS Furey, AS Hinrichs, D Karolchik, WJ Kent, KR Rosenbloom, H Trumbower, M Weirauch, DN Cooper, PD Stenson, B Ma, M Brent, M Arumugam, D Shteynberg, RR Copley, MS Taylor, H Riethman, U Mudunuri, J Peterson, M Guyer, A Felsenfeld, S Old, S Mockrin, And F Collins
    posted to general by gjuggler on 2008-09-26 09:54:44 as ** along with 6 people and 4 groups aprasad ccots rvosa dchughes djkt stajich FAB-lab G4ID Genetics-of-Gambling Berkeley Mycology
  • THE LOCUS OF EVOLUTION: EVO DEVO AND THE GENETICS OF ADAPTATION
    Evolution, Vol. 61, No. 5. (2007), pp. 995-1016.
    by Hopi E Hoekstra, Jerry A Coyne
    posted to general by gjuggler on 2008-09-25 14:40:53 as ** along with 12 people and 2 groups stevanspringer mcphee dpollard balicea bpcusack TaqSys epigenetics jayster4 mimulus_99 mjoach kndiaye rvosa EisenLab FAB-lab
  • SIMPROT: Using an empirically determined indel distribution in simulations of protein evolution
    BMC Bioinformatics, Vol. 6, No. 1. (2005)
    by Andy Pang, Andrew Smith, Paulo Nuin, Elisabeth Tillier
    posted to indels alngen by gjuggler on 2008-09-22 14:46:44 as ** along with 2 people pansapiens martainn
  • Probabilistic Phylogenetic Inference with Insertions and Deletions
    PLoS Comput Biol, Vol. 4, No. 9. (2008), e1000172.
    by Elena Rivas, Sean R Eddy
    posted to phylogenetics by gjuggler on 2008-09-22 14:19:40 as ** along with 5 people timflutre druvus djkt aprasad emptyhb
  • Inference of selection from multiple species alignments.
    Curr Opin Genet Dev, Vol. 12, No. 6. (December 2002), pp. 688-694.
    by Z Yang
    posted to e-slr by gjuggler on 2008-09-19 13:04:30 as ** along with 5 people natstreet druvus operon mingzhi friendpine
  • PAML Documentation
    (19 September 2008)
    by Ziheng Yang
    posted to nopdf by gjuggler on 2008-09-19 10:59:26 as **
  • Visualization of large influenza virus sequence datasets using adaptively aggregated trees with sampling-based subscale representation
    BMC Bioinformatics, Vol. 9 (16 May 2008), 237.
    by Leonid Zaslavsky, Yiming Bao, Tatiana A Tatusova
    posted to visualization by gjuggler on 2008-09-18 15:47:56 as **
  • Extrapolating ENCODE data to the whole human genome.
    Gene, Vol. 419, No. 1-2. (1 August 2008), pp. 66-69.
    by M Costantini, M Di Filippo, G Bernardi
    posted to isochores by gjuggler on 2008-09-17 23:22:59 as **
  • Phylogenetic shadowing: sequence comparisons of multiple primate species.
    Methods in molecular biology (Clifton, N.J.), Vol. 453 (2008), pp. 217-231.
    by D Boffelli
    posted to phylogenetics by gjuggler on 2008-09-17 23:22:50 as **
  • Transcriptional control and gene silencing in Plasmodium falciparum.
    Cellular microbiology (10 July 2008)
    by Bradley II Coleman, Manoj TT Duraisingh
    posted to pseudogenes by gjuggler on 2008-09-12 14:07:06 as ** along with 1 person GeeSharpMinor
  • Reciprocal and Nonreciprocal Recombination at the Glucocerebrosidase Gene Region: Implications for Complexity in Gaucher Disease
    The American Journal of Human Genetics, Vol. 72, No. 3. (March 2003), pp. 519-534.
    by Nahid Tayebi, Barbara K Stubblefield, Joseph K Park, Eduard Orvisky, Jamie M Walker, Mary E Lamarca, Ellen Sidransky
    posted to pseudogenes by gjuggler on 2008-09-12 13:00:25 as **
  • Antigenic Variation in Plasmodium falciparum
    Annual Review of Microbiology, Vol. 62, No. 1. (2008), pp. 445-470.
    by Artur Scherf, Jose, Loic Riviere
    posted to pseudogenes by gjuggler on 2008-09-12 12:54:52 as **
  • The short-sequence designs of isochores from the human genome
    Proceedings of the National Academy of Sciences (2008)
    by Maria Costantini, Giorgio Bernardi
    posted to isochores by gjuggler on 2008-09-10 12:23:41 as **
  • Quality estimation of multiple sequence alignments by Bayesian hypothesis testing
    Bioinformatics (27 July 2007), btm366.
    by Andrija Tomovic, Edward J Oakeley
    posted to e-slr by gjuggler on 2008-09-09 12:33:11 as **
  • Rose: generating sequence families
    Bioinformatics, Vol. 14, No. 2. (1 March 1998), pp. 157-163.
    by J Stoye, D Evers, F Meyer
    posted to alngen by gjuggler on 2008-09-09 12:26:23 as ** along with 1 person adijr
  • How Well Does the HoT Score Reflect Sequence Alignment Accuracy?
    Mol Biol Evol, Vol. 25, No. 8. (1 August 2008), pp. 1576-1580.
    by Barry G Hall
    posted to alngen by gjuggler on 2008-09-09 12:11:25 as ** along with 3 people and 1 group bpcusack stajich cabbagesofdoom Berkeley Mycology
  • Simulating DNA coding sequence evolution with EvolveAGene 3
    Mol Biol Evol (12 January 2008), msn008.
    by Barry G Hall
    posted to alngen by gjuggler on 2008-09-09 12:08:06 as ** along with 5 people operon aprasad zwang friendpine adacier
  • The effect of sequence quality on sequence alignment
    Bioinformatics, Vol. 24, No. 7. (1 April 2008), pp. 897-900.
    by Ketil Malde
    posted to e-slr by gjuggler on 2008-09-09 11:24:39 as ** along with 2 people niallhaslam mailund
  • Positive Selection in the Human Genome: From Genome Scans to Biological Significance
    Annual Review of Genomics and Human Genetics, Vol. 9, No. 1. (2008), pp. 143-160.
    by Joanna L Kelley, Willie J Swanson
    posted to e-slr by gjuggler on 2008-09-04 11:52:38 as ** along with 1 person zwang
  • Consistent Patterns of Rate Asymmetry and Gene Loss Indicate Widespread Neofunctionalization of Yeast Genes After Whole-Genome Duplication
    Genetics, Vol. 175, No. 3. (1 March 2007), pp. 1341-1350.
    by Kevin P Byrne, Kenneth H Wolfe
    posted to e-slr by gjuggler on 2008-09-03 14:07:59 as ** along with 3 people and 1 group dpollard echinotrix stajich EisenLab
  • notes Gene Loss and Evolutionary Rates Following Whole-Genome Duplication in Teleost Fishes
    Mol Biol Evol, Vol. 23, No. 9. (1 September 2006), pp. 1808-1816.
    by Frederic G Brunet, Hugues R Crollius, Mathilde Paris, Jean M Aury, Patricia Gibert, Olivier Jaillon, Vincent Laudet, Marc R Rechavi
    posted to e-slr by gjuggler on 2008-09-03 14:06:42 as ** along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling
  • The delayed rise of present-day mammals
    Nature, Vol. 446, No. 7135., pp. 507-512.
    by Olaf, Marcel Cardillo, Kate E Jones, Ross DE Macphee, Robin MD Beck, Richard Grenyer, Samantha A Price, Rutger A Vos, John L Gittleman, Andy Purvis
    posted to phylogenetics by gjuggler on 2008-09-01 13:34:01 as ** along with 4 people and 2 groups rvosa dchughes nurban dwildman G4ID Genetics-of-Gambling
  • Pervasive positive selection on duplicated and non duplicated vertebrate protein coding genes
    Genome Res. (18 June 2008), gr.076992.108.
    by Romain Studer, Laurent Duret, Simon Penel, Marc R Rechavi
    posted to tac-1 e-slr by gjuggler on 2008-08-29 16:04:25 as ** along with 2 people djkt bpcusack
  • Selection shapes malaria genomes and drives divergence between pathogens infecting hominids versus rodents
    BMC Evolutionary Biology, Vol. 8 (30 July 2008), 223.
    by Franck Prugnolle, Kate Mcgee, Jon Keebler, Philip Awadalla
    posted to e-slr by gjuggler on 2008-08-28 20:09:12 as ** along with 1 person hdopazo
  • Relatedness of medically important strains of <I>Saccharomyces cerevisiae</I> as revealed by phylogenetics and metabolomics
    Yeast, Vol. 25, No. 7. (2008), pp. 501-512.
    by Donald A Mackenzie, Marianne Defernez, Warwick B Dunn, Marie Brown, Linda J Fuller, Santiago, Andreas Günther, Steve A James, John Eagles, Mark Philo, Royston Goodacre, Ian N Roberts
    posted to phylogenetics by gjuggler on 2008-08-27 12:34:47 as **
  • Searching the genome for our adaptations
    Evolutionary Anthropology: Issues, News, and Reviews, Vol. 17, No. 3. (2008), pp. 146-157.
    by Eugene E Harris
    posted to e-slr by gjuggler on 2008-08-27 12:34:29 as **
  • Subclonal phylogenetic structures in cancer revealed by ultra-deep sequencing.
    Proceedings of the National Academy of Sciences of the United States of America (22 August 2008)
    by Peter JJ Campbell, Erin DD Pleasance, Philip JJ Stephens, Ed Dicks, Richard Rance, Ian Goodhead, George AA Follows, Anthony RR Green, Andy, Michael RR Stratton
    posted to general by gjuggler on 2008-08-27 11:57:32 as **
  • Tree thinkings for all of biology: the problem with reading phylogenies as ladders of progress
    BioEssays, Vol. 30, No. 9. (2008), pp. 854-867.
    by Kevin E Omland, Lyn G Cook, Michael D Crisp
    posted to phylogenetics by gjuggler on 2008-08-13 08:13:52 as ** along with 1 person bpcusack
  • Mango: multiple alignment with N gapped oligos.
    Journal of bioinformatics and computational biology, Vol. 6, No. 3. (June 2008), pp. 521-541.
    by Z Zhang, H Lin, M Li
    posted to alignment by gjuggler on 2008-08-08 11:00:43 as **
  • ProbCons: Probabilistic consistency-based multiple sequence alignment.
    Genome Res, Vol. 15, No. 2. (February 2005), pp. 330-340.
    by CB Do, MS Mahabhashyam, M Brudno, S Batzoglou
    posted to e-slr by gjuggler on 2008-08-06 15:53:33 as ** along with 6 people and 1 group bpb radek balajis stajich olympos newton1234 Berkeley Mycology
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