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stajichs library [626 articles]

Senaste artiklarna i stajichs bibliotek.
  • Longer First Introns Are a General Property of Eukaryotic Gene Structure
    PLoS ONE, Vol. 3, No. 8. (2008), e3093.
    by Keith R Bradnam, Ian Korf
    posted to intron_evolution intron genome gene_structure eukarytoa annotation by stajich on 2008-09-07 20:20:30 as ** along with 1 person and 1 group bpcusack Berkeley Mycology
  • Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training.
    Genome research (29 August 2008)
    by Vardges Ter-Hovhannisyan, Alexandre Lomsadze, Yury O O Chernoff, Mark Borodovsky
    posted to methods genome gene_prediction fungi bioinformatics annotation by stajich on 2008-09-07 20:19:51 as ** along with 1 person and 1 group bcondon Berkeley Mycology
  • 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 on 2008-09-03 19:26:42 as ** along with 1 person and 1 group jandot Berkeley Mycology
  • 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 on 2008-09-02 19:36:55 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-09-01 06:20:32 as ** along with 2 groups Berkeley Mycology 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 on 2008-08-19 17:51:09 as ** along with 2 people and 1 group dakelley bpcusack Berkeley Mycology
  • 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 on 2008-08-19 16:25:02 as ** along with 16 people and 4 groups carolh12 ilya alaninmcr druvus srp33 dullhunk tharris mrochman dansullivanblk neils jandot GustavoLacerda jago fgibson thomaskelder sjcockell Berkeley Mycology 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 on 2008-08-19 02:11:40 as ** along with 1 person and 1 group GustavoLacerda Berkeley Mycology
  • 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 on 2008-08-17 20:29:32 as ** along with 1 person and 1 group GustavoLacerda Berkeley Mycology
  • 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 on 2008-08-17 20:29:01 as ** along with 1 person and 1 group GustavoLacerda Berkeley Mycology
  • 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 on 2008-08-17 19:30:17 as ** along with 1 group Berkeley Mycology
  • notes 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 on 2008-08-17 18:17:13 as ** along with 1 person and 2 groups rvosa FAB-lab Berkeley Mycology
  • 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 on 2008-08-17 18:14:53 as ** along with 2 people and 1 group MichaelTully druvus Berkeley Mycology
  • 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 on 2008-08-16 00:55:03 as ** along with 1 person and 1 group GustavoLacerda Berkeley Mycology
  • 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 on 2008-08-16 00:50:20 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-08-16 00:49:43 as ** along with 1 person and 1 group GustavoLacerda Berkeley Mycology
  • 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 on 2008-08-16 00:46:35 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-08-16 00:45:59 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-08-07 02:29:11 as ** along with 1 group Berkeley Mycology
  • 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 animal cell_surface cell_wall cnidaria development evolution multicellular by stajich on 2008-08-05 23:55:14 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-08-05 23:53:11 as ** along with 5 people and 1 group sriram_s nagendraproj skumagai ryanraaum gwenknight Berkeley Mycology
  • 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 on 2008-08-05 16:53:15 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-08-04 23:51:24 as ** along with 1 group Berkeley Mycology
  • 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 amplification copy_number_variation genome by stajich on 2008-07-30 17:56:53 as ** along with 2 people and 1 group nuin jyuh Berkeley Mycology
  • Memory-efficient dynamic programming backtrace and pairwise local sequence alignment.
    Bioinformatics (Oxford, England) (17 June 2008)
    by Lee A A Newberg
    posted to alignment bioinformatics computational_biology methods by stajich on 2008-07-30 17:56:33 as ** along with 2 people chad_davis nuin
  • 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 on 2008-07-28 18:45:20 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-28 06:20:07 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-28 06:19:23 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-28 06:18:17 as ** along with 1 person and 1 group GustavoLacerda Berkeley Mycology
  • 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 on 2008-07-28 06:18:01 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-28 02:32:00 as ** along with 1 person and 2 groups kinestetika Berkeley Mycology 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 on 2008-07-27 23:01:13 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-27 08:14:48 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-25 17:03:34 as ** along with 1 person and 1 group rmk Berkeley Mycology
  • 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 on 2008-07-25 06:44:15 as ** along with 2 people and 1 group renatomilani bpcusack Berkeley Mycology
  • 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 on 2008-07-21 05:56:32 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-21 05:55:45 as ** along with 4 people and 1 group natstreet ddunbar caseybrown jyuh Berkeley Mycology
  • 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 on 2008-07-21 05:00:25 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-21 04:20:07 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-21 04:13:59 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-21 04:13:26 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-21 04:12:57 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-21 04:08:16 as ** along with 1 group Berkeley Mycology
  • 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 on 2008-07-16 17:55:26 as ** along with 1 person and 1 group reyez Berkeley Mycology
  • 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 on 2008-07-16 17:12:31 as ** along with 19 people and 2 groups jiny aramesh2 AbnerCYH jmuhlich MatthiasReimann royerloic Ema lptolik kengg roys reyez tmmurali nuin Borelli askrajiv renatomilani chad_davis sebk rsantana Berkeley Mycology 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 on 2008-07-16 12:29:30 as ** along with 1 person and 1 group jyuh Berkeley Mycology
  • 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 on 2008-07-15 16:36:43 as ** along with 2 people and 1 group bpcusack cabbagesofdoom Berkeley Mycology
  • A genome-wide 20K citrus microarray for gene expression analysis
    BMC Genomics, Vol. 9 (03 July 2008), 318.
    by Angeles M Martinez-Godoy, Nuria Mauri, Jose Juarez, Carmen M Marques, Julia Santiago, Javier Forment, Jose Gadea
    posted to citrus microarray plant by stajich on 2008-07-09 05:44:15 as ** along with 1 person and 1 group JavierTerol Berkeley Mycology
  • Evolution of SET-domain protein families in the unicellular and multicellular Ascomycota fungi
    BMC Evolutionary Biology, Vol. 8 (01 July 2008), 190.
    by Chendhore S Veerappan, Zoya Avramova, Etsuko N Moriyama
    posted to filamentous fungi multicellular yeast by stajich on 2008-07-09 00:20:23 as ** along with 1 group Berkeley Mycology
  • The ins and outs of plant cell walls.
    Current opinion in plant biology, Vol. 9, No. 6. (December 2006), pp. 616-620.
    by JN Johansen, S Vernhettes, H Höfte
    posted to cellulose_synthase cell_wall plant by stajich on 2008-07-08 22:45:31 as ** along with 1 group Berkeley Mycology
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