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Group: Berkeley Mycology - with tag bioinformatics [19 articles]

Neue Artikel von Mitliedern der Gruppe Berkeley Mycology Gruppe with tag bioinformatics
  • Mapping short DNA sequencing reads and calling variants using mapping quality scores
    Genome Research
    by Heng Li, J Ruan, R Durbin
    posted to bioinformatics methods nextgensequencing shortread solexa by stajich to the group Berkeley Mycology on 2008-09-01 06:20:33 as ** along with 1 group EisenLab
  • Towards a cyberinfrastructure for the biological sciences: progress, visions and challenges
    Nat Rev Genet, Vol. 9, No. 9. (2008), pp. 678-688.
    by Lincoln D Stein
    posted to bioinformatics database genome informatics infrastructure by stajich to the group Berkeley Mycology on 2008-08-19 16:25:02 as ** along with 16 people and 3 groups carolh12 ilya alaninmcr druvus srp33 dullhunk tharris mrochman dansullivanblk neils jandot GustavoLacerda jago fgibson thomaskelder sjcockell Global_health_enterprise_architecture Knowledge_Economy_Reform kpa-resources
  • BranchClust: A phylogenetic algorithm for selecting gene families
    BMC Bioinformatics, Vol. 8 (10 April 2007), 120.
    by Maria S Poptsova, Peter J Gogarten
    posted to bioinformatics gene_tree methods orthology paralogs phylogenetics phylogenomics by stajich to the group Berkeley Mycology on 2008-08-17 18:17:13 as ** along with 1 person and 1 group rvosa FAB-lab
  • SCUMBLE: a method for systematic and accurate detection of codon usage bias by maximum likelihood estimation
    Nucl. Acids Res., Vol. 36, No. 11. (1 June 2008), pp. 3819-3827.
    by Morten Kloster, Chao Tang
    posted to bioinformatics codon_bias methods by stajich to the group Berkeley Mycology on 2008-07-28 06:18:17 as ** along with 1 person GustavoLacerda
  • GBParsy: A GenBank flatfile parser library with high speed
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Tae H Lee, Yeon K Kim, Baek H Nahm
    posted to bioinformatics methods parser by stajich to the group Berkeley Mycology on 2008-07-25 17:03:34 as ** along with 1 person rmk
  • An improved, bias-reduced probabilistic functional gene network of baker's yeast, Saccharomyces cerevisiae.
    PLoS ONE, Vol. 2, No. 10. (2007)
    by I Lee, Z Li, EM Marcotte
    posted to bioinformatics gene_network saccharomyces by stajich to the group Berkeley Mycology on 2008-07-21 05:00:25 as **
  • Unraveling Protein Networks with Power Graph Analysis
    PLoS Comput Biol, Vol. 4, No. 7. (11 July 2008), e1000108.
    by Loïc Royer, Matthias Reimann, Bill Andreopoulos, Michael Schroeder
    posted to bioinformatics graphics methods protein protein_interactions visualization by stajich to the group Berkeley Mycology on 2008-07-16 17:12:31 as ** along with 18 people and 1 group aramesh2 AbnerCYH jmuhlich MatthiasReimann royerloic Ema lptolik kengg roys reyez tmmurali nuin Borelli askrajiv renatomilani chad_davis sebk rsantana OPIG
  • Conditional Variable Importance for Random Forests
    BMC Bioinformatics, Vol. 9 (11 July 2008), 307.
    by Carolin Strobl, Anne-Laure Boulesteix, Thomas Kneib, Thomas Augustin, Achim Zeileis
    posted to bioinformatics methods randomforest by stajich to the group Berkeley Mycology on 2008-07-16 12:29:30 as ** along with 1 person jyuh
  • 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 alignment bioinformatics methods molecular_evolution statistics by stajich to the group Berkeley Mycology on 2008-07-15 16:36:43 as ** along with 2 people bpcusack cabbagesofdoom
  • The multiple gene duplication problem revisited.
    Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008)
    by MS Bansal, O Eulenstein
    posted to bioinformatics gene_duplication genome methods by stajich to the group Berkeley Mycology on 2008-07-07 03:37:26 as ** along with 2 people bpcusack tharris
  • A max-margin model for efficient simultaneous alignment and folding of RNA sequences.
    Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008)
    by CB Do, CS Foo, S Batzoglou
    posted to alignment bioinformatics folding methods rna by stajich to the group Berkeley Mycology on 2008-07-07 03:32:02 as ** along with 1 person bootsy
  • An Improved General Amino Acid Replacement Matrix
    Mol Biol Evol, Vol. 25, No. 7. (1 July 2008), pp. 1307-1320.
    by Si Q Le, Olivier Gascuel
    posted to bioinformatics evolution methods molecular_evolution phylogenetics protein_evolution by stajich to the group Berkeley Mycology on 2008-06-14 07:08:01 as ** along with 2 people friendpine dmp
  • Endogenous siRNA and miRNA targets identified by sequencing of the Arabidopsis degradome.
    Current biology : CB, Vol. 18, No. 10. (20 May 2008), pp. 758-762.
    by C Addo-Quaye, TW Eshoo, DP Bartel, MJ Axtell
    posted to bioinformatics illumina methods mirna sequencing sirna smallrna solexa by stajich to the group Berkeley Mycology on 2008-06-13 01:19:25 as **
  • Global identification of microRNA-target RNA pairs by parallel analysis of RNA ends.
    Nature biotechnology (9 June 2008)
    by Marcelo A A German, Manoj Pillay, Dong-Hoon H Jeong, Amit Hetawal, Shujun Luo, Prakash Janardhanan, Vimal Kannan, Linda A A Rymarquis, Kan Nobuta, Rana German, Emanuele De Paoli, Cheng Lu, Gary Schroth, Blake C C Meyers, Pamela J J Green
    posted to bioinformatics htg methods mirna sequencing smallrna solexa by stajich to the group Berkeley Mycology on 2008-06-13 01:11:30 as ** along with 1 person megraw
  • RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays
    Genome Res. (11 June 2008), gr.079558.108.
    by John Marioni, Cristopher Mason, Shrikant Mane, Matthew Stephens, Yoav Gilad
    posted to bioinformatics gene_expression methods rnaseq sequencing solexa by stajich to the group Berkeley Mycology on 2008-06-11 21:57:15 as ** along with 16 people dakelley caseybrown Ema balicea vega lusk semrich vmarshal fpattyn giovanni ela503 Stew jyuh kengg shurjo GustavoLacerda
  • UniPrime: a workflow-based platform for improved universal primer design
    Nucl. Acids Res., Vol. 36, No. 10. (1 June 2008), e56.
    by Michael Bekaert, Emma C Teeling
    posted to bioinformatics primer_design by stajich to the group Berkeley Mycology on 2008-06-09 16:41:39 as ** along with 3 people jyuh tharris niallhaslam
  • GENOMEPOP: A program to simulate genomes in populations
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Antonio C Rodriguez
    posted to bioinformatics methods population_genomics simulation by stajich to the group Berkeley Mycology on 2008-04-30 19:51:51 as ** along with 2 people tonia_schwartz jyuh
  • Hawkeye: a visual analytics tool for genome assemblies
    Genome Biology, Vol. 8 (09 March 2007), R34.
    by Michael C Schatz, Adam M Phillippy, Ben Shneiderman, Steven L Salzberg
    posted to assembly bioinformatics comparison genome by stajich to the group Berkeley Mycology on 2008-03-23 21:27:35 as ** along with 2 people and 1 group azazello Neeperando gatech-compgenomics
  • Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells
    Genome Res. (19 February 2008), gr.7179508.
    by Ryan D Morin, Michael D O'Connor, Malachi Griffith, Florian Kuchenbauer, Allen Delaney, Anna-Liisa Prabhu, Yongjun Zhao, Helen Mcdonald, Thomas Zeng, Martin Hirst, Connie J Eaves, Marco A Marra
    posted to bioinformatics human mirna sequencing solexa by stajich to the group Berkeley Mycology on 2008-02-19 22:01:54 as ** along with 4 people maralena jfr caseybrown gdb
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