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sgoetz library [110 articles]

Статьи, недавно добавленные в библиотеку sgoetz .
  • Phylogenomic inference of protein molecular function: advances and challenges.
    Bioinformatics, Vol. 20, No. 2. (22 January 2004), pp. 170-179.
    by K Sjölander
    posted to phylogenomics by sgoetz on 2008-07-24 23:21:51 as ** along with 3 people ziquje jwortman sriram_s
  • DBAli tools: mining the protein structure space.
    Nucleic acids research, Vol. 35, No. Web Server issue. (July 2007)
    by MA Marti-Renom, U Pieper, MS Madhusudhan, A Rossi, N Eswar, FP Davis, F Al-Shahrour, J Dopazo, A Sali
    posted to no-tag by sgoetz on 2008-07-24 23:15:42 as **
  • Phylogenomics: Improving Functional Predictions for Uncharacterized Genes by Evolutionary Analysis
    Genome Res., Vol. 8, No. 3. (1 March 1998), pp. 163-167.
    by Jonathan A Eisen
    posted to no-tag by sgoetz on 2008-07-24 23:14:32 as ** along with 1 person gjuggler
  • The AnnoLite and AnnoLyze programs for comparative annotation of protein structures.
    BMC Bioinformatics, Vol. 8 Suppl 4 (2007)
    by MA Marti-Renom, A Rossi, F Al-Shahrour, FP Davis, U Pieper, J Dopazo, A Sali
    posted to no-tag by sgoetz on 2008-07-24 22:46:01 as **
  • Semantic Similarity Based on Corpus Statistics and Lexical Taxonomy
    (September 1997), 9008.
    by JJ Jiang, DW Conrath
    posted to no-tag by sgoetz on 2008-07-24 15:09:51 as ** along with 4 people and 2 groups CitoJam ejmeij iris_2001 Wurlitzer ilps LanguageModeling
  • An information-theoretic definition of similarity
    (1998), pp. 296-304.
    by Dekang Lin
    posted to no-tag by sgoetz on 2008-07-24 15:08:53 as ** along with 23 people and 16 groups CitoJam camster dbk sourada korakot LeightonP frednicolier parmentierf JacquesC mortimer mote lwilliams jelsas jtextori barry ingo gangli garyfeng okarsligil onlyme gaudan macavity1g Tronhus streptomyces NU-PRL Philosophy_of_Information UoY-CS-AIG dbk-lab Blog_and_Wiki_Research structural_bioinformatics tulip ReadingLab ASR ISI NLP SLA Bioinformatics LanguageAndBrain AI
  • Using Information Content to Evaluate Semantic Similarity in a Taxonomy
    (1995), pp. 448-453.
    by Philip Resnik
    posted to no-tag by sgoetz on 2008-07-24 15:07:46 as ** along with 6 people and 7 groups eegilbert CitoJam mote styliani ejmeij brightbyte ASR ISI NLP SLA LanguageAndBrain ilps LanguageModeling
  • GenBank.
    Nucleic Acids Res, Vol. 36, No. Database issue. (January 2008)
    by DA Benson, I Karsch-Mizrachi, DJ Lipman, J Ostell, DL Wheeler
    posted to no-tag by sgoetz on 2008-07-17 14:57:08 as ** along with 3 people dullhunk hpiwowar sci91078
  • Transcriptome analysis of root transporters reveals participation of multiple gene families in the response to cation stress
    The Plant Journal, Vol. 35, No. 6. (2003), pp. 675-692.
    by Frans JM Maathuis, Victor Filatov, Pawel Herzyk, Gerard C Krijger, Kristian B Axelsen, Sixue Chen, Brian J Green, Yi Li, Kathryn L Madagan, Rocío Sánchez-Fernández, Brian G Forde, Michael G Palmgren, Philip A Rea, Lorraine E Williams, Dale Sanders, Anna Amtmann
    posted to no-tag by sgoetz on 2008-07-17 14:22:58 as **
  • Biomedical ontologies: a functional perspective
    Brief Bioinform, Vol. 9, No. 1. (1 January 2008), pp. 75-90.
    by Daniel L Rubin, Nigam H Shah, Natalya F Noy
    posted to no-tag by sgoetz on 2008-07-14 09:57:31 as ** along with 6 people and 1 group dansullivanblk jyuh jfr dullhunk RockHI wchapman dbmi-nlp
  • Twilight zone of protein sequence alignments.
    Protein Eng, Vol. 12, No. 2. (February 1999), pp. 85-94.
    by B Rost
    posted to no-tag by sgoetz on 2008-07-10 19:36:06 as ** along with 2 people chad_davis ffranca
  • The InterPro database, an integrated documentation resource for protein families, domains and functional sites
    Nucl. Acids Res., Vol. 29, No. 1. (1 January 2001), pp. 37-40.
    by R Apweiler, TK Attwood, A Bairoch, A Bateman, E Birney, M Biswas, P Bucher, L Cerutti, F Corpet, MDR Croning, R Durbin, L Falquet, W Fleischmann, J Gouzy, H Hermjakob, N Hulo, I Jonassen, D Kahn, A Kanapin, Y Karavidopoulou, R Lopez, B Marx, NJ Mulder, TM Oinn, M Pagni, F Servant, CJA Sigrist, EM Zdobnov
    posted to no-tag by sgoetz on 2008-07-10 17:11:01 as ** along with 1 person alanrw
  • Large-Scale Protein Annotation through Gene Ontology
    Genome Res., Vol. 12, No. 5. (1 May 2002), pp. 785-794.
    by Hanqing Xie, Alon Wasserman, Zurit Levine, Amit Novik, Vladimir Grebinskiy, Avi Shoshan, Liat Mintz
    posted to no-tag by sgoetz on 2008-07-10 15:06:03 as ** along with 1 person bootsy
  • Blast2GO: A Comprehensive Suite for Functional Analysis in Plant Genomics.
    International journal of plant genomics, Vol. 2008 (2008)
    by A Conesa, S Götz
    posted to no-tag by sgoetz on 2008-06-19 16:15:39 as ** along with 1 person gilmour70
  • Improved Detection of Overrepresentation of Gene-Ontology Annotations with Parent-Child Analysis.
    Bioinformatics (11 September 2007)
    by Steffen Grossmann, Sebastian Bauer, Peter N N Robinson, Martin Vingron
    posted to no-tag by sgoetz on 2008-06-09 21:55:42 as ** along with 5 people marck RamuAnandakrishnan tmmurali grahamc heliopais
  • Improved scoring of functional groups from gene expression data by decorrelating GO graph structure
    Bioinformatics, Vol. 22, No. 13. (1 July 2006), pp. 1600-1607.
    by Alexa, Adrian, Rahnenfuhrer, Jorg, Lengauer, Thomas
    posted to no-tag by sgoetz on 2008-06-09 21:55:14 as ** along with 3 people and 2 groups marck yas ealloza T_lab BioinfoCIPF
  • GEPAS, a web-based tool for microarray data analysis and interpretation
    Nucl. Acids Res. (28 May 2008), gkn303.
    by Joaquin Tarraga, Ignacio Medina, Jose Carbonell, Jaime Huerta-Cepas, Pablo Minguez, Eva Alloza, Fatima Al-Shahrour, Susana Vegas-Azcarate, Stefan Goetz, Pablo Escobar, Francisco Garcia-Garcia, Ana Conesa, David Montaner, Joaquin Dopazo
    posted to no-tag by sgoetz on 2008-06-02 14:50:49 as ** along with 1 person jyuh
  • Babelomics: advanced functional profiling of transcriptomics, proteomics and genomics experiments
    Nucl. Acids Res. (31 May 2008), gkn318.
    by Fatima Al-Shahrour, Jose Carbonell, Pablo Minguez, Stefan Goetz, Ana Conesa, Joaquin Tarraga, Ignacio Medina, Eva Alloza, David Montaner, Joaquin Dopazo
    posted to no-tag by sgoetz on 2008-06-02 12:17:49 as ** along with 2 people balicea neils
  • BABELOMICS: a suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments.
    Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005), pp. W460-W464.
    by F Al-Shahrour, P Minguez, JM Vaquerizas, L Conde, J Dopazo
    posted to no-tag by sgoetz on 2008-05-20 18:12:53 as ** along with 4 people and 2 groups RMGraze marcius eweaver Garamonfok BioinfoCIPF SGU-CIPF
  • FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes
    Bioinformatics, Vol. 20, No. 4. (1 March 2004), pp. 578-580.
    by Fatima Al-Shahrour, Ramon Diaz-Uriarte, Joaquin Dopazo
    posted to no-tag by sgoetz on 2008-05-20 18:12:09 as ** along with 5 people ellakat aalibes RMGraze macavity1g Garamonfok
  • SIMAP--structuring the network of protein similarities.
    Nucleic acids research, Vol. 36, No. Database issue. (January 2008), pp. D289-D292.
    by T Rattei, P Tischler, R Arnold, F Hamberger, J Krebs, J Krumsiek, B Wachinger, V Stümpflen, W Mewes
    posted to simap2go by sgoetz on 2008-05-19 15:13:47 as **
  • High-throughput functional annotation and data mining with the Blast2GO suite
    Nucl. Acids Res. (29 April 2008), gkn176.
    by Stefan Götz, Juan M Garcia-Gomez, Javier Terol, Tim D Williams, Shivashankar H Nagaraj, Maria J Nueda, Montserrat Robles, Manuel Talon, Joaquin Dopazo, Ana Conesa
    posted to my_papers gene_ontology_tool blast2go b2g annotation by sgoetz on 2008-05-14 18:11:39 as ** along with 2 people barriot jyuh
  • Blast2GO: A Comprehensive Suite for Functional Analysis in Plant Genomics
    International Journal of Plant Genomics, Vol. 2008, No. 2008. (2008), pp. 1-12.
    by Ana Conesa, Stefan Götz
    posted to my_papers blast2go b2g annotation by sgoetz on 2008-05-14 13:13:38 as **
  • BiNoM: a Cytoscape plugin for manipulating and analyzing biological networks
    Bioinformatics (16 November 2007), btm553.
    by Andrei Zinovyev, Eric Viara, Laurence Calzone, Emmanuel Barillot
    posted to interactome by sgoetz on 2007-11-27 10:47:12 as ** along with 5 people jyuh jfr dullhunk grahamc idonaldson
  • Estimating node degree in bait-prey graphs
    Bioinformatics (19 November 2007), btm565.
    by Denise Scholtens, Tony Chiang, Wolfgang Huber, Robert Gentleman
    posted to no-tag by sgoetz on 2007-11-27 10:42:12 as ** along with 1 person cjeans
  • Archetype-Based Semantic Integration and Standardization of Clinical Data
    Engineering in Medicine and Biology Society, 2006. EMBS '06. 28th Annual International Conference of the IEEE (2006), pp. 5141-5144.
    by David Moner, Jose A Maldonado, Diego Bosca, Jesualdo T Fernandez, Carlos Angulo, Pere Crespo, Pedro J Vivancos, Montserrat Robles
    posted to bio-ontologies by sgoetz on 2007-11-17 15:31:29 as **
  • The Unified Medical Language System (UMLS): integrating biomedical terminology.
    Nucleic Acids Res, Vol. 32, No. Database issue. (1 January 2004)
    by O Bodenreider
    posted to bio-ontologies by sgoetz on 2007-11-17 15:28:49 as ** along with 7 people and 2 groups irenas kuhn wnpx bundschu josepe kkaiser leechuck dbk-lab IEG
  • Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae
    Journal of Biology, Vol. 5, No. 4. (08 June 2006), 11.
    by Teresa Reguly, Ashton Breitkreutz, Lorrie Boucher, Bobby-Joe Breitkreutz, Gary C Hon, Chad L Myers, Ainslie Parsons, Helena Friesen, Rose Oughtred, Amy Tong, Chris Stark, Yuen Ho, David Botstein, Brenda Andrews, Charles Boone, Olga G Troyanskya, Trey Ideker, Kara Dolinski, Nizar N Batada, Mike Tyers
    posted to annotation by sgoetz on 2007-11-16 13:05:34 as ** along with 17 people and 3 groups chasmand snuppepuppan tmmurali lfriedl balajis wnpx nickluscombe egralla citecat noano koller grahamc iris_2001 shikin s041629 pmendes mtruksa kdl EBI-regulation GeneGo
  • A meta-analysis of kidney microarray datasets: investigation of cytokine gene detection and correlation with rt-PCR and detection thresholds
    BMC Genomics, Vol. 8 (30 March 2007), 88.
    by Walter D Park, Mark D Stegall
    posted to phenomodelcite by sgoetz on 2007-11-15 11:52:51 as **
  • Coexpression analysis of human genes across many microarray data sets.
    Genome Res, Vol. 14, No. 6. (June 2004), pp. 1085-1094.
    by HK Lee, AK Hsu, J Sajdak, J Qin, P Pavlidis
    posted to phenomodelcite by sgoetz on 2007-11-15 11:29:52 as ** along with 11 people and 2 groups nedwards jo_davies maryee gpalidwor giovanni jeremymiller hawkeyehammer grahamc macavity1g raylim wilbur GeschwindLab Indigene
  • The Gene Ontology (GO) database and informatics resource.
    Nucleic Acids Res, Vol. 32, No. Database issue. (1 January 2004)
    by MA Harris, J Clark, A Ireland, J Lomax, M Ashburner, R Foulger, K Eilbeck, S Lewis, B Marshall, C Mungall, J Richter, GM Rubin, JA Blake, C Bult, M Dolan, H Drabkin, JT Eppig, DP Hill, L Ni, M Ringwald, R Balakrishnan, JM Cherry, KR Christie, MC Costanzo, SS Dwight, S Engel, DG Fisk, JE Hirschman, EL Hong, RS Nash, A Sethuraman, CL Theesfeld, D Botstein, K Dolinski, B Feierbach, T Berardini, S Mundodi, SY Rhee, R Apweiler, D Barrell, E Camon, E Dimmer, V Lee, R Chisholm, P Gaudet, W Kibbe, R Kishore, EM Schwarz, P Sternberg, M Gwinn, L Hannick, J Wortman, M Berriman, V Wood, N de la Cruz, P Tonellato, P Jaiswal, T Seigfried, R White,
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-15 11:19:25 as ** along with 8 people and 1 group setar balajis nuke2005 benny dullhunk bundschu talponer waghsk generif_paper
  • Next station in microarray data analysis: GEPAS.
    Nucleic Acids Res, Vol. 34, No. Web Server issue. (1 July 2006)
    by D Montaner, J Tárraga, J Huerta-Cepas, J Burguet, JM Vaquerizas, L Conde, P Minguez, J Vera, S Mukherjee, J Valls, MA Pujana, E Alloza, J Herrero, F Al-Shahrour, J Dopazo
    posted to microarray by sgoetz on 2007-11-14 20:14:24 as * along with 5 people and 2 groups marcius tardigrade rdiaz ealloza schuylrp BioinfoCIPF SGU-CIPF
  • The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration
    Nat Biotech, Vol. 25, No. 11. (November 2007), pp. 1251-1255.
    by Barry Smith, Michael Ashburner, Cornelius Rosse, Jonathan Bard, William Bug, Werner Ceusters, Louis J Goldberg, Karen Eilbeck, Amelia Ireland, Christopher J Mungall, Neocles Leontis, Philippe Rocca-Serra, Alan Ruttenberg, Susanna-Assunta Sansone, Richard H Scheuermann, Nigam Shah, Patricia L Whetzel, Suzanna Lewis
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 19:21:20 as ** along with 12 people and 2 groups dagmar marck dansullivanblk AlexanderPico tmmurali jfr dullhunk cjeans leechuck PunkRock sobolevnrm lenov baker-group csb_journal_club_public
  • Current Official Version of the CIDOC CRM version 4.2 of the reference document. Definition of the CIDOC Conceptual Reference Model
    (June 2005)
    by N Crofts, M Doerr, T Gill, S Stead, M Stiff
    posted to phenomodelcite by sgoetz on 2007-11-14 12:53:58 as **
  • Conceptual data modelling for bioinformatics.
    Brief Bioinform, Vol. 3, No. 2. (June 2002), pp. 166-180.
    by E Bornberg-Bauer, NW Paton
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 12:46:57 as ** along with 4 people and 4 groups alanrw irenas dalloliogm angelika12 dbk-lab Web2 splicing yeast
  • Organization of heterogeneous scientific data using the EAV/CR representation.
    J Am Med Inform Assoc, Vol. 6, No. 6. (c 1999), pp. 478-493.
    by PM Nadkarni, L Marenco, R Chen, E Skoufos, G Shepherd, P Miller
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 12:46:10 as **
  • PhenomicDB: a new cross-species genotype/phenotype resource
    Nucleic Acids Research, Vol. 35, No. Supplement 1. (January 2007), pp. D696-D699.
    by Groth, Philip, Pavlova, Nadia, Kalev, Ivan, Tonov, Spas, Georgiev, Georgi, Pohlenz, Hans-Dieter, Weiss, Bertram
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 12:43:54 as ** along with 3 people jiny jyuh Nilza
  • Phenogo: assigning phenotypic context to gene ontology annotations with natural language processing.
    Pac Symp Biocomput (2006), pp. 64-75.
    by Y Lussier, T Borlawsky, D Rappaport, Y Liu, C Friedman
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 12:41:08 as ** along with 3 people and 1 group fisherp helliontroy aconesa biomedical-nlp
  • The Rat Genome Database, update 2007--easing the path from disease to data and back again.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by SN Twigger, M Shimoyama, S Bromberg, AE Kwitek, HJ Jacob,
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 12:37:21 as ** along with 2 people jyuh aconesa
  • The Mammalian Phenotype Ontology as a tool for annotating, analyzing and comparing phenotypic information.
    Genome Biol, Vol. 6, No. 1. (2005)
    by CL Smith, CA Goldsmith, JT Eppig
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 12:35:48 as ** along with 2 people leechuck aconesa
  • Using ontologies to describe mouse phenotypes.
    Genome Biol, Vol. 6, No. 1. (2005)
    by GV Gkoutos, EC Green, AM Mallon, JM Hancock, D Davidson
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 12:35:04 as ** along with 2 people fisherp aconesa
  • Standards for systems biology
    Nature Reviews Genetics, Vol. 7, No. 8. (2006), pp. 593-605.
    by Alvis Brazma, Maria Krestyaninova, Ugis Sarkans
    posted to bio-ontologies phenomodelcite by sgoetz on 2007-11-14 12:34:13 as ** along with 8 people and 2 groups giovenko aalibes jfr rdiaz ronaldozhou mhucka dagmar peterli dIEMoSIRIS compneur
  • Integration of the Gene Ontology into an object-oriented architecture.
    BMC Bioinformatics, Vol. 6, No. 1. (10 May 2005)
    by Daniel Shegogue, W J Zheng
    posted to bio-ontologies by sgoetz on 2007-11-14 12:30:59 as **
  • Bio-ontologies: current trends and future directions.
    Brief Bioinform, Vol. 7, No. 3. (September 2006), pp. 256-274.
    by O Bodenreider, R Stevens
    posted to phenomodelcite by sgoetz on 2007-11-14 12:28:52 as read along with 7 people and 1 group dansullivanblk alanrw yas dullhunk ebrahim_bagheri aconesa BIBLIOma T_lab
  • Minimum information about a microarray experiment (MIAME)-toward standards for microarray data.
    Nat Genet, Vol. 29, No. 4. (December 2001), pp. 365-371.
    by A Brazma, P Hingamp, J Quackenbush, G Sherlock, P Spellman, C Stoeckert, J Aach, W Ansorge, CA Ball, HC Causton, T Gaasterland, P Glenisson, FC Holstege, IF Kim, V Markowitz, JC Matese, H Parkinson, A Robinson, U Sarkans, S Schulze-Kremer, J Stewart, R Taylor, J Vilo, M Vingron
    posted to phenomodelcite by sgoetz on 2007-11-14 12:27:41 as read along with 7 people and 3 groups shikin irenas setar fisherp jeremymiller aconesa katerinakal GeneGo dbk-lab GeschwindLab
  • GOSim - An R-package for computation of information theoretic GO similarities between terms and gene products
    BMC Bioinformatics, Vol. 8 (22 May 2007), 166.
    by Holger Froehlich, Nora Speer, Annemarie Poustka, Tim Beissbarth
    posted to semantic similarity by sgoetz on 2007-11-09 12:56:00 as ** along with 4 people jyuh jfr macavity1g RamuAnandakrishnan
  • Investigating semantic similarity measures across the Gene Ontology: the relationship between sequence and annotation
    Bioinformatics, Vol. 19, No. 10. (1 July 2003), pp. 1275-1283.
    by PW Lord, RD Stevens, A Brass, CA Goble
    posted to semantic similarity by sgoetz on 2007-11-09 12:53:33 as ** along with 5 people and 2 groups j3xucite CitoJam ejmeij josemblazquez roys ilps LanguageModeling
  • A New Method to Measure the Semantic Similarity of GO Terms.
    Bioinformatics (7 March 2007)
    by James Z Z Wang, Zhidian Du, Rapeeporn Payattakool, Philip S S Yu, Chin-Fu F Chen
    posted to semantic similarity by sgoetz on 2007-11-09 12:51:47 as ** along with 8 people and 1 group jyuh jfr grahamc iris_2001 macavity1g florianleitner zwang mz2 ParkinsonLab_at_MaRS
  • FunSimMat: a comprehensive functional similarity database
    Nucl. Acids Res. (11 October 2007), gkm806.
    by Andreas Schlicker, Mario Albrecht
    posted to semantic similarity by sgoetz on 2007-11-09 12:50:39 as ** along with 2 people and 1 group jyuh sobolevnrm baker-group
  • Automated Gene Ontology annotation for anonymous sequence data.
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3712-3715.
    by S Hennig, D Groth, H Lehrach
    posted to b2gpaper2 by sgoetz on 2007-11-07 17:42:31 as **
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