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Group: Berkeley Mycology - library [396 articles]

グループ Berkeley Mycology のメンバーが最近追加した論文の一覧
  • Genomic Analysis of Adaptive Differentiation in Drosophila melanogaster
    Genetics, Vol. 179, No. 1. (1 May 2008), pp. 455-473.
    by Thomas L Turner, Mia T Levine, Melissa L Eckert, David J Begun
    posted to adaptation clinal drosophila by stajich to the group Berkeley Mycology on 2008-05-21 04:40:09 as ***** along with 1 person and 1 group pradiptaray EisenLab
  • Divergent adaptation promotes reproductive isolation among experimental populations of the filamentous fungus Neurospora
    BMC Evolutionary Biology, Vol. 8 (31 January 2008), 35.
    by Jeremy R Dettman, James B Anderson, Linda M Kohn
    posted to adaptation experimental_evolution neurospora by stajich to the group Berkeley Mycology on 2008-02-04 21:27:49 as *****
  • A novel screening method for cell wall mutants in Aspergillus niger identifies UDP-galactopyranose mutase (UgmA) as an important protein in fungal cell wall biosynthesis
    Genetics (3 February 2008), genetics.107.073148.
    by Robbert A Damveld, Angelique Franken, Mark Arentshorst, Peter J Punt, Frans M Klis, Cees A van den Hondel, Arthur F Ram
    posted to aspergillus cell_wall by stajich to the group Berkeley Mycology on 2008-02-04 08:15:57 as ***
  • Structure of a tyrosyl-tRNA synthetase splicing factor bound to a group I intron RNA
    Nature, Vol. 451, No. 7174. (3 January 2008), pp. 94-97.
    by Paul J Paukstelis, Jui-Hui Chen, Elaine Chase, Alan M Lambowitz, Barbara L Golden
    posted to evolution interaction neurospora rna structure world by sharpton to the group Berkeley Mycology on 2008-01-03 16:54:42 as *** along with 1 person stajich
  • CONTRAST: a discriminative, phylogeny-free approach to multiple informant de novo gene prediction
    Genome Biology, Vol. 8 (20 December 2007), R269.
    by Samuel S Gross, Chuong B Do, Marina Sirota, Serafim Batzoglou
    posted to comparative_genomics gene_prediction by stajich to the group Berkeley Mycology on 2007-12-23 21:48:05 as *** along with 2 people and 1 group GustavoLacerda renatomilani EisenLab
  • Bias in phylogenetic tree reconciliation methods: implications for vertebrate genome evolution
    Genome Biology, Vol. 8 (16 July 2007), R141.
    by Matthew W Hahn
    posted to duplication gene_tree phylogenetics reconciliation by stajich to the group Berkeley Mycology on 2007-12-06 22:48:10 as *** along with 1 person bpcusack
  • Current topics in genome evolution: Molecular mechanisms of new gene formation
    Cellular and Molecular Life Sciences (CMLS), Vol. 64, No. 5. (14 March 2007), pp. 542-554.
    by D Babushok, E Ostertag, H Kazazian
    posted to molecular_evolution genome_evolution gene duplication alternative_splicing by stajich to the group Berkeley Mycology on 2008-09-03 19:26:42 as ** along with 1 person jandot
  • Intron length increases oscillatory periods of gene expression in animal cells.
    Genes & development (14 August 2008)
    by Ian A A Swinburne, David G G Miguez, Dirk Landgraf, Pamela A A Silver
    posted to regulation intron_evolution intron by stajich to the group Berkeley Mycology on 2008-09-02 19:36:56 as **
  • 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
  • The multiple lives of NMD factors: balancing roles in gene and genome regulation
    Nat Rev Genet, Vol. 9, No. 9. (2008), pp. 699-712.
    by Olaf Isken, Lynne E Maquat
    posted to gene nmd posttranscriptional regulation by stajich to the group Berkeley Mycology on 2008-08-19 17:51:09 as ** along with 2 people dakelley bpcusack
  • 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
  • Differential gene expression between the biotrophic-like and saprotrophic mycelia of the witches' broom pathogen Moniliophthora perniciosa.
    Molecular plant-microbe interactions : MPMI, Vol. 21, No. 7. (July 2008), pp. 891-908.
    by J Rincones, LM Scarpari, MF Carazzolle, JM Mondego, EF Formighieri, JG Barau, GG Costa, DM Carraro, HP Brentani, LA Vilas-Boas, BV de Oliveira, M Sabha, R Dias, JM Cascardo, RA Azevedo, LW Meinhardt, GA Pereira
    posted to development gene_expression moniliophthora witchesbroom by stajich to the group Berkeley Mycology on 2008-08-19 02:11:40 as ** along with 1 person GustavoLacerda
  • Annotation of stress-response proteins in the aspergilli.
    Fungal genetics and biology : FG & B (25 July 2008)
    by Márton Miskei, Zsolt Karányi, István Pócsi
    posted to aspergillus fungi stress_response by stajich to the group Berkeley Mycology on 2008-08-17 20:29:32 as ** along with 1 person GustavoLacerda
  • The evolution of 5S ribosomal RNA genes linked to the rDNA units of fungal species.
    Current genetics (15 August 2008)
    by Julie Bergeron, Guy Drouin
    posted to 5s fungi rdna ribosomal by stajich to the group Berkeley Mycology on 2008-08-17 20:29:01 as ** along with 1 person GustavoLacerda
  • Gene Expansion and Retention Leads to a Diverse Tyrosine Kinase Superfamily in Amphioxus
    Mol Biol Evol, Vol. 25, No. 9. (1 September 2008), pp. 1841-1854.
    by Salvatore D'Aniello, Manuel Irimia, Ignacio Maeso, Juan Pascual-Anaya, Senda Jimenez-Delgado, Stephanie Bertrand, Jordi Garcia-Fernandez
    posted to animal chordate evolution expansion gene_family metazoa by stajich to the group Berkeley Mycology on 2008-08-17 19:30:18 as **
  • 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
  • ANTHRAX INVESTIGATION: Full-Genome Sequencing Paved the Way From Spores to a Suspect
    Science, Vol. 321, No. 5891. (15 August 2008), pp. 898-899.
    by Martin Enserink
    posted to anthrax news sequencing by stajich to the group Berkeley Mycology on 2008-08-17 18:14:54 as ** along with 2 people MichaelTully druvus
  • Taxonomic reliability of DNA sequences in public sequence databases: a fungal perspective.
    PLoS ONE, Vol. 1 (2006)
    by RH Nilsson, M Ryberg, E Kristiansson, K Abarenkov, KH Larsson, U Kõljalg
    posted to database fungi taxonomy by stajich to the group Berkeley Mycology on 2008-08-16 00:55:03 as ** along with 1 person GustavoLacerda
  • A novel regulator couples sporogenesis and trehalose biogenesis in Aspergillus nidulans.
    PLoS ONE, Vol. 2, No. 10. (2007)
    by M Ni, JH Yu
    posted to aspergillus fungi gene regulation spore sugar by stajich to the group Berkeley Mycology on 2008-08-16 00:50:21 as **
  • Comparative genome analysis of filamentous fungi reveals gene family expansions associated with fungal pathogenesis.
    PLoS ONE, Vol. 3, No. 6. (2008)
    by DM Soanes, I Alam, M Cornell, HM Wong, C Hedeler, NW Paton, M Rattray, SJ Hubbard, SG Oliver, NJ Talbot
    posted to analysis comparative_genomics fungi genome phylogenomics by stajich to the group Berkeley Mycology on 2008-08-16 00:49:43 as ** along with 1 person GustavoLacerda
  • Multigene phylogeny of choanozoa and the origin of animals.
    PLoS ONE, Vol. 3, No. 5. (2008)
    by K Shalchian-Tabrizi, MA Minge, M Espelund, R Orr, T Ruden, KS Jakobsen, T Cavalier-Smith
    posted to animal metazoa multicellular phylogenetics phylogeny by stajich to the group Berkeley Mycology on 2008-08-16 00:46:36 as **
  • Ecologic niche modeling of Blastomyces dermatitidis in Wisconsin.
    PLoS ONE, Vol. 3, No. 4. (2008)
    by KD Reed, JK Meece, JR Archer, AT Peterson
    posted to blastomyces ecology environmental_microbiology fungi by stajich to the group Berkeley Mycology on 2008-08-16 00:45:59 as **
  • The Yeast Spore Wall Enables Spores to Survive Passage through the Digestive Tract of Drosophila
    PLoS ONE, Vol. 3, No. 8. (2008), e2873.
    by Alison E Coluccio, Rachael K Rodriguez, Maurice J Kernan, Aaron M Neiman
    posted to cell_surface cell_wall drosophila saccharomyces spore yeast by stajich to the group Berkeley Mycology on 2008-08-07 02:29:11 as **
  • Cell-Cell Adhesion in the Cnidaria: Insights Into the Evolution of Tissue Morphogenesis
    Biol Bull, Vol. 214, No. 3. (1 June 2008), pp. 218-232.
    by Craig R Magie, Mark Q Martindale
    posted to adhesion cell_surface cell_wall development multicellular by stajich to the group Berkeley Mycology on 2008-08-05 23:55:15 as **
  • Estimate of the Mutation Rate per Nucleotide in Humans
    Genetics, Vol. 156, No. 1. (1 September 2000), pp. 297-304.
    by Michael W Nachman, Susan L Crowell
    posted to cpg human mutation_rate by stajich to the group Berkeley Mycology on 2008-08-05 23:53:11 as ** along with 5 people sriram_s nagendraproj skumagai ryanraaum gwenknight
  • Evolutionarily Conserved Substrate Substructures for Automated Annotation of Enzyme Superfamilies
    PLoS Comput Biol, Vol. 4, No. 8. (2008), e1000142.
    by Ranyee A Chiang, Andrej Sali, Patricia C Babbitt
    posted to annotation computational_biology functional_prediction by stajich to the group Berkeley Mycology on 2008-08-05 16:53:15 as **
  • Conserved Secondary Structures in Aspergillus
    PLoS ONE, Vol. 3, No. 7. (30 July 2008), e2812.
    by Abigail M Mcguire, James E Galagan
    posted to aspergillus genome_evolution noncoding_rna rna_gene by stajich to the group Berkeley Mycology on 2008-08-04 23:51:24 as **
  • Impact of whole genome amplification on analysis of copy number variants.
    Nucleic acids research, Vol. 36, No. 13. (August 2008)
    by TJ Pugh, AD Delaney, N Farnoud, S Flibotte, M Griffith, HI Li, H Qian, P Farinha, RD Gascoyne, MA Marra
    posted to genome amplification copy_number_variation by stajich to the group Berkeley Mycology on 2008-07-30 17:56:54 as ** along with 2 people nuin jyuh
  • EVOLUTIONARY SIGNIFICANCE OF IMBALANCED NUCLEAR RATIOS WITHIN HETEROKARYONS OF THE BASIDIOMYCETE FUNGUS HETEROBASIDION PARVIPORUM.
    Evolution; international journal of organic evolution (15 July 2008)
    by Timothy Y Y James, Jan Stenlid, Ake Olson, Hanna Johannesson
    posted to basidiomycota heterobasidion heterokaryon by stajich to the group Berkeley Mycology on 2008-07-28 18:45:21 as **
  • Identification of mating type genes in the bipolar basidiomycetous yeast Rhodosporidium toruloides: first insight into the MAT locus structure of the Sporidiobolales.
    Eukaryotic cell, Vol. 7, No. 6. (June 2008), pp. 1053-1061.
    by MA Coelho, A Rosa, N Rodrigues, A Fonseca, P Gonçalves
    posted to basidiomycota mating_genes mating_type by stajich to the group Berkeley Mycology on 2008-07-28 06:20:08 as **
  • An in silico analysis of cytochrome c from Phanerochaete chrysosporium: its amino acid sequence and characterization of gene structural elements.
    In silico biology, Vol. 8, No. 1. (2008), pp. 1-13.
    by JA Bumpus, M Trax, A Reisdorph, C Boyd, D Gilbert, S Techau, RM Ventullo
    posted to p450 phanerochaete phanerochaete_chrysosporium by stajich to the group Berkeley Mycology on 2008-07-28 06:19:24 as **
  • 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
  • Guided genome halving: hardness, heuristics and the history of the Hemiascomycetes.
    Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008)
    by C Zheng, Q Zhu, Z Adam, D Sankoff
    posted to duplication genome_duplication genome_evolution saccharomyces simluation by stajich to the group Berkeley Mycology on 2008-07-28 06:18:01 as **
  • The Crystal Structure of [Fe]-Hydrogenase Reveals the Geometry of the Active Site
    Science, Vol. 321, No. 5888. (25 July 2008), pp. 572-575.
    by Seigo Shima, Oliver Pilak, Sonja Vogt, Michael Schick, Marco S Stagni, Wolfram Meyer-Klaucke, Eberhard Warkentin, Rudolf K Thauer, Ulrich Ermler
    posted to crystalstructure hydrogenase by stajich to the group Berkeley Mycology on 2008-07-28 02:32:00 as ** along with 1 person and 1 group kinestetika microbiology_nijmegen
  • Report concludes that a fungal genome database is of "the highest priority".
    Future microbiology, Vol. 3 (August 2008)
    posted to databases fungal report by stajich to the group Berkeley Mycology on 2008-07-27 23:01:13 as **
  • Mating System of the Anther Smut Fungus Microbotryum violaceum: Selfing under Heterothallism
    Eukaryotic Cell, Vol. 7, No. 5. (1 May 2008), pp. 765-775.
    by Tatiana Giraud, Roxana Yockteng, Manuela Lopez-Villavicencio, Guislaine Refregier, Michael E Hood
    posted to fungus mating_systems mating_type microbotryum selfing smuth by stajich to the group Berkeley Mycology on 2008-07-27 08:14:48 as **
  • 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
  • EVOLUTION: Modernizing the Modern Synthesis
    Science, Vol. 321, No. 5886. (11 July 2008), pp. 196-197.
    by Elizabeth Pennisi
    posted to evolution evolutionary_theory modernsynthesis by stajich to the group Berkeley Mycology on 2008-07-25 06:44:15 as ** along with 2 people renatomilani bpcusack
  • Predicted functional RNAs within coding regions constrain evolutionary rates of yeast proteins.
    PLoS ONE, Vol. 3, No. 2. (2008)
    by CD Warden, SH Kim, SV Yi
    posted to noncoding_rna rna saccharomyces by stajich to the group Berkeley Mycology on 2008-07-21 05:56:32 as **
  • Trait-trait dynamic interaction: 2D-trait eQTL mapping for genetic variation study
    BMC Genomics, Vol. 9, No. 1. (2008)
    by Wei Sun, Shinsheng Yuan, Ker C Li
    posted to eqtl methods qtl quantitative_genetics by stajich to the group Berkeley Mycology on 2008-07-21 05:55:46 as ** along with 4 people natstreet ddunbar caseybrown jyuh
  • 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 **
  • Sexual attraction: on the role of fungal pheromone/receptor systems (A review).
    Acta microbiologica et immunologica Hungarica, Vol. 55, No. 2. (June 2008), pp. 125-143.
    by E Kothe
    posted to fungal fungi pheremone receptor signaling by stajich to the group Berkeley Mycology on 2008-07-21 04:20:07 as **
  • The asexual yeast Candida glabrata maintains distinct a and alpha haploid mating types.
    Eukaryotic cell, Vol. 7, No. 5. (May 2008), pp. 848-858.
    by H Muller, C Hennequin, J Gallaud, B Dujon, C Fairhead
    posted to candida fungi genome mating_genes mating_type saccharomyces by stajich to the group Berkeley Mycology on 2008-07-21 04:14:00 as **
  • Evolution and phylogenetic relationships of APSES proteins from Hemiascomycetes.
    FEMS yeast research, Vol. 8, No. 4. (June 2008), pp. 511-519.
    by B Ramírez-Zavala, A Domínguez
    posted to evolution fungi phylogenetics saccharomyces by stajich to the group Berkeley Mycology on 2008-07-21 04:13:26 as **
  • Exploring contradictory phylogenetic relationships in yeasts.
    FEMS yeast research, Vol. 8, No. 4. (June 2008), pp. 641-650.
    by Q Wu, SA James, IN Roberts, V Moulton, KT Huber
    posted to fungi phylogeny saccharomyces systematics yeast by stajich to the group Berkeley Mycology on 2008-07-21 04:12:58 as **
  • A genomic approach for the identification and classification of genes involved in cell wall formation and its regulation in Saccharomyces cerevisiae.
    Comparative and functional genomics, Vol. 2, No. 3. (2001), pp. 124-142.
    by PW de Groot, C Ruiz, CR Vázquez de Aldana, E Duenas, VJ Cid, F Del Rey, JM Rodríquez-Peña, P Pérez, A Andel, J Caubín, J Arroyo, JC García, C Gil, M Molina, LJ García, C Nombela, FM Klis
    posted to cell_wall fungal saccharomyces by stajich to the group Berkeley Mycology on 2008-07-21 04:08:17 as **
  • GENOMICS: Billion-Dollar Cancer Mapping Project Steps Forward
    Science, Vol. 321, No. 5885. (4 July 2008), pp. 26a-27.
    by Jocelyn Kaiser
    posted to cancer funding genomics news by stajich to the group Berkeley Mycology on 2008-07-16 17:55:26 as ** along with 1 person reyez
  • 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
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