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There are an increasing number of encyclopedic' metabolic ... Dan Davison. Anamika Kothari. Joseph Dale. MetaCyc.org. 13. SRI International Bioinformatics ...
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020 Take slice. 025 Primary content checks: -Is everything intended included? ... Fix web site/code. 013 -Update ... Fix web code. nnn - identifier for a step. ...
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The ids used in two DBs are totally different. ... Use conserved domain to perform HMM search. Enable sequence alignment and pattern search ...
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KEGG - http://www.genome.jp/kegg/kegg2.html. BioCarta - http://www. ... http://www.pdg.cnb.uam.es/UniPub/iHOP/ Thank you! Vered Caspi. http://bioinfo.bgu.ac.il ...
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SGD (Saccharomyces Genome Database) Bases de datos biol gicas: prote nas ... KEGG: Kyoto Encyclopedia of Genes and Genomes: www.genome.ad.jp/kegg/kegg/html ...
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Agenda Biological databases related to microarray Gene Ontology KEGG Biocarta Reactome MSigDB Pathway enrichment analysis GSEA GSA Ingenuity Pathway Analysis (IPA)
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Rank putative pathways based on. Activity score: analyze difference in expression profiles ... Putative Pathway Set. KEGG Server. KEGG API. Recommended Pathway ...
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http://www.genome.jp/kegg-bin/show_pathway?map04115 Metabolic & Signalling Pathways Biocarta ( http://biocarta.com) http://www.ihop-net.org/UniPub/iHOP/ Minimal ...
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BIND/SMID Genome Canada initiative. KEGG Japanese initiative. ChEBI European initiative ... http://redpoll.pharmacy.ualberta.ca/drugbank/ DrugBank ...
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Genome Annotation - Magpie. C. Sensen. Metabolomes (KEGG) Number of pathways 17,263 ... Magpie. TTD. DrugBank. The DrugBank Home Page. http://redpoll.pharmacy. ...
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for easily integrating with other data types and existing & future databases ... PDB, SCOP. Protein-Protein Interactions - BIND, DIP. Pathways - KEGG. Gene Expression ...
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KEGG , COG, MultiFun. Common functional classes (10-19 classes) ... Idea for each query instance. Choose k nearest neighbors ...
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HTML Table Interpretation by Sibling Page Comparison in the Molecular ... have at least two helices, and participate in glycolysis' GenBank, PDB, KEGG ' ...
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http://www.genome.ad.jp/kegg/ http://www.brenda.uni-koeln.de ... EMP enzymology and metabolism data. MetaCyc metabolic pathways ...
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http://www.emc.maricopa.edu/faculty ... Aerobic respiration : Electron transport system ... v = vector of n fluxes (rates) S = (m x n) stoichiometric matrix ...
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Bioinformatics Open Source Conference, June 23-24 2005, Detroit. What's BioRuby? ... Bug fixes. We will not continue to support Ruby 1.6. RubyGems for easy ...
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Boehringer Mannheim Wall Charts. Metabolic Pathways. Cellular and Molecular ... Carbohydrate, Energy, Lipid, Nucleotide, Amino acid, Other amino acid, Glycan, ...
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Biologists aim at identifying these roles, described as networks of interactions ... Develop an independent application based on batik ...
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Introduction to Bioinformatics - Tutorial no. 13 Probe Design Gene Networks Probe design problem Given a genome with a set of genes. Recall that each gene is ...
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integrate high-throughput biological studies to understand how biological systems function. ... Enzymology. Allosteric transitions. Metabolic cascades ...
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Raja Jothi, Teresa M. Przytycka, and L. Aravind ... Biotechnology Information, National Library of Medicine, National Institutes of ...
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Title: Protein Family Classification for Functional Genomics Author: wuc Last modified by: zh9 Created Date: 3/9/2001 10:06:29 PM Document presentation format
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integrate high-throughput biological studies to understand how biological systems function. ... Enzymology. Allosteric transitions. Metabolic cascades ...
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Automatic Generation of Drug Metabolic Pathways from ADME Ontology on OWL-DL Konagaya Akihiko RIKEN Genomic Sciences Center Project Director Advanced Genome ...
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Comparison between two sample (cell) 'states' (one is the normal ... 10 Glycolysis-Gluconeogenesis 35 ALA-ASP Met. Styrene degradation 36 Leuk tr-emigration ...
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A Bioinformatics Database Warehouse Peter D. Karp, Thomas J. Lee, Valerie Wagner BioCyc BioPAX BioCyc ENZYME CMR Genbank BioWarehouse Eco2DBase Oracle (10g) or
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High throughput functional annotation and analysis with the Blast2GO suite Ana Conesa Bioinformatics Department Centro de Investigaciones Pr nicpe Felipe
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Bioinformatics for Proteomics ... Under expressed Over expressed Protein Center v 3.0.4 A Proteomics bioinformatics tool available through HSLS Import ...
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Title: 1. dia Author: peterzsofia Last modified by: K sa J nos Created Date: 5/25/2004 9:19:42 AM Document presentation format: Diavet t s a k perny re
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... Comparison of Sequence Analysis Methods Four methods (abbr.) HMMer HMM search using the whole sequence CSR HMM search using common shared regions generated ...
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Title: Tecniche post-genomiche Author: dino Last modified by: mfasano Created Date: 3/13/2005 8:49:18 PM Document presentation format: Presentazione su schermo (4:3)
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Reconstruction of Amino Acid Biosynthesis Pathways from the Complete Genome Sequence. Hidemasa Bono et al. Genome Res. 1998 8: 203-210. Chun-Yu Chen. Institute of ...
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Database concepts - what is a 'good' database (DB) How is data stored and ... has open interfaces (APIs) for query requests. Bad DB: ... APIs, Mashups, SQL ...
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Title: Protein Family Classification for Functional Genomics Author: wuc Last modified by: zh9 Created Date: 3/9/2001 10:06:29 PM Document presentation format
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Title: BioRuby : in-house R&D Author: ayu Last modified by: ayu Created Date: 1/10/2002 1:53:35 AM
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Formation RNG - 24-28 octobre 2005 - Quantification des intensit s de fluorescence ... 2 liaison des g nes les plus proches (arbre hi rarchique) ...
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What do you hope to get out of the tutorial? SRI International. Bioinformatics. SRI ... Mike McLeod, University of British Columbia, Rhodococcus sp. RHA1 ...
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Molecular Biology Database Collection (http://nar.oupjournals.org/cgi/content ... WIT: Functional Curation and Metabolic Models. BRENDA: Enzyme Database ...
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Visit to Bioinformatics Company 1-2. Beach barbeque 2-5. What is signal transduction? Conversion of a signal from one physical or chemical form into another. ...
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Some questions that can be answered with a chip experiment can also be answered ... RA TEETER M.M., MAZER J.A., L'ITALIEN J.J. ...
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The Cell, Central Dogma and. Human Genome Project. A Eukaryotic Cell ... (How Perl saved the Human Genome project?) Major Database and Data collection methods: ...
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An approach to gene discovery in ALS crops ... unclaimed. Unigenes. Seed Assembly. 4,647. Apogee ESTs 1976. Unigenes. 6,195. Apogee. ESTs ...
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Functional annotation Datasources Konstantinos Mavrommatis Head of Omics group DOE-JGI Kmavrommatis@lbl.gov
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Pathway Tools / BioCyc Fundamentals Peter D. Karp, Ph.D. Bioinformatics Research Group SRI International pkarp@ai.sri.com BioCyc.org EcoCyc.org, MetaCyc.org, HumanCyc.org
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p53 reponse is attenuated in sarcoma cells ... Southern Blot Q-PCR. Breast ca. ~ 5. Lung ca. ~ 5 ~20. Ovarian ca. ~ 5. Colon ca. ~ 5 ~10 ...
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Title: 1 Author: Rahmaninova Last modified by: ravcheyev Created Date: 2/9/2006 1:13:17 PM Document presentation format: On-screen Show Company
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Human Genome Project (http://genome.ucsc.edu/downloads.html) Gene Ontology Consortium ... Human Genome Project Date built: 28jun2002. URL:http://www.genome.ucsc.edu ...
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(a) column(s) in the GC (gas chromatograph) unit. of the instrument. HP5890 gas chromatograph and HP5970 mass selective detector ...
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All pathways are networks of interactions, however not all networks are ... Chemical substructure comparison. Enzymes,Transcription Factors. Genes: Blast search ...
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Bioinformatikos rankiai Bioinformatika Doc. R. Dama evi ius KTU Program in inerijos katedra
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Network Motifs: simple Building Blocks of Complex Networks R. Milo et. al. Science 298, 824 (2002) Y. Lahini Internet as measured by Hal Burch and Bill Cheswick's ...
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Title: Slide 1 Author: Fedor Kolpakov Last modified by: roger Created Date: 7/12/2002 4:14:44 AM Document presentation format: On-screen Show Company
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CISBIC Sub-project 1: Modeling genotype-phenotype relations in Campylobacter Stephen Muggleton, Brendan Wren, Victor Lesk CISBIC, Imperial College London.
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Not the same as amino acid metabolism pathways. Synthesis of most amino acids is only one or two steps removed from another pathway or cycle. ...
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Group III (Calvin Cycle) Charles Hunter, Yingnan Jiang, Thelma Madzima. Group IV (TCA Cycle) Stefanie Maruhnich, Scott Morris, Wei Pan ...
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The 'Two' Fates of Pyruvate. from Alberts et al. Molecular Biology of the Cell. TCA Cycle ... What are some of the possible fates of pyruvate in E. coli? ...
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