

	FIRST VISIT? TRY THESE LINKS


	Enroll for Updates Privacy Policy Purchase the book



	BOOK COVER




CLICK TO ENLARGE Buy the Book

Chapter 11: Making Sense of Proteomics: Using Bioinformatics to Discover a Protein's Structure, Functions, and Interactions—WWW Resources

http://apropos.icmb.utexas.edu/function-prediction.html Protein Link Explorer (PLEX), University of Texas.

http://bioinfo.pl/cafasp/ CAFASP (Critical Assessment of Fully Automated Structure Prediction).

http://bioinfo.pl/LiveBench/ The Live Bench Project—Continuous benchmarking of protein structure prediction servers.

http://ca.expasy.org/ch2d/ SWISS-2Dpage—Two-dimensional polyacrylamide gel electrophoresis database.

http://ca.expasy.org/sprot/ SWISS-PROT protein knowledgebase.

http://cubic.bioc.columbia.edu/eva/sec/common.html EVA summary

http://dip.doe-mbi.ucla.edu/ The Database of Interacting Proteins.

http://flybase.bio.indiana.edu/ The FlyBase—A Database of the Drosophila Genome.

http://genome-www5.stanford.edu/cgi-bin/SMD/cluster/QuerySetup.pl The Stanford Microarray Database.

http://genome-www.stanford.edu/Saccharomyces/ The Saccharomyces Genome Database (SGD).

http://maple.bioc.columbia.edu/pp/submit_meta.html The META Server.

http://mathbio.nimr.mrc.ac.uk/~rgeorge/snapdragon/ SnapDRAGON domain boundary prediction.

http://nematode.lab.nig.ac.jp/ NEXTDB (The Nematode Expression Pattern DataBase).

http://pfam.wustl.edu/hmmsearch.shtml Pfam HHM database, Washington University in St. Louis.

http://pipe.rockefeller.edu/modbase-cgi/index.cgi ModBase—Database of comparative protein structure models.

http://predictioncenter.llnl.gov/ Protein Structure Prediction Center, Lawrence Livermore National Laboratory.

http://prodes.toulouse.inra.fr/prodom/doc/prodom.html The Protein Domain Database—ProDom.

http://psort.nibb.ac.jp/ PSORT (Prediction of Protein Sorting Signals and Localization Sites in Amino Acid Sequences).

http://rana.lbl.gov/EisenSoftware.htm The Eisen Lab Software page.

http://scop.berkeley.edu SCOP (Structural Classification of Proteins).

http://smart.embl-heidelberg.de/ SMART sequence database.

http://transfac.gbf.de/TRANSFAC TRANSFAC (The Transcription Factor Database).

http://wit.mcs.anl.gov/WIT2/ WIT: Interactive Metabolic Reconstruction.

http://xray.bmc.uu.se/sbnet/prosal.html ProSal (Protein Sequence Analysis Launcher).

http://www.bind.ca/ The Biomolecular Interaction Network Database (BIND).

http://www.biochem.ucl.ac.uk/bsm/cath/_new/index.html CATH_Protein Structure Classification.

http://www.blocks.fhcrc.org/blocks_search.html BLOCKS searcher.

http://www.bmm.icnet.uk/~3djigsaw/dom_fish/ Domain Fishing 1.0.

http://www.bork.embl-heidelberg.de/STRING/ STRING (Search Tool for Recurring Instances of Neighbouring Genes).

http://www.cbs.dtu.dk/services/SignalP/output.html CBS SignalP V1.1, World Wide Web Prediction Server, Center for Biological Sequence Analysis.

http://www.cifn.unam.mx/Computational_Genomics/regulondb/ RegulonDB v3.2: A Database on Transcriptional Regulation and Genome Organization.

http://www.dkfz-heidelberg.de/abt0135/axeldb.htm The Axeldb database home page.

http://www.doe-mbi.ucla.edu/Services/moment/ MOMENT Transmembrane Helix Prediction.

http://www2.ebi.ac.uk/dali/fssp/fssp.html The FSSP database, EMBL-EBI.

http://www.expasy.ch/swissmod/SWISS-MODEL.html SWISS MODEL.

http://hydra.icgeb.trieste.it/~kristian/SBASE/ BLAST-FTHOM database.

https://www.incyte.com/proteome/databases.jsp The Proteome BioKnowledge® Library, Incyte Genomics.

http://www.informatics.jax.org/ Mouse Genome Informatics.

http://www.ncbi.nlm.nih.gov The National Center for Biotechnology Information (NCBI) home page.

http://www.ncbi.nlm.nih.gov/BLAST/ The NCBI BLAST page.

http://www.ncbi.nlm.nih.gov/cgi-bin/Entrez/altik?gi=115&db=Genome Escherichia coli K12, complete genome, NCBI.

http://www.ncbi.nlm.nih.gov/cgi-bin/Entrez/framik?db=G&gi=115 The NCBI Entrez Genome page.

http://www.ncbi.nlm.nih.gov/COG/ The NCBI Clusters of Orthologous Groups of proteins (COGs) page.

http://www.ncbi.nlm.nih.gov/Education/BLASTinfo/information3.html The NCBI BLAST Information Guide.

http://www.ncbi.nlm.nih.gov/PMGifs/Genomes/org.html The NCBI Prominent Organisms Taxonomy/List.

http://www.ncbi.nlm.nih.gov/Structure/dgs/DGSWeb.cgi The NCBI DGS Algorithm page.

http://www.rcsb.org Protein Data Bank (PDB).

http://www.sciencemag.org/feature/data/1042937.shl Hutchison C.A. et al. 1999. Global transposon mutagenesis and a minimal mycoplasma genome.

The reproduction, modification, storage in a retrieval system, or retransmission, in any form or by any means, electronic, mechanical, or otherwise, for reasons other than personal, noncommercial use is strictly prohibited without prior written permission. You are authorized to download one copy of the material on this Web site for personal, noncommercial use only. The material made available on this Web site is protected by United States copyright laws and is provided solely for the use of instructors in teaching their courses and assessing student learning. Dissemination or sale of any of this material, as a whole or in parts (including on the World Wide Web), is not permitted. All users of these materials and visitors to this Web site are expected to abide by these restrictions. Requests for permission for other uses of this material should be directed to Cold Spring Harbor Laboratory Press, 1 Bungtown Road, Cold Spring Harbor, NY 11724 or submitted via our World Wide Web Site at http://www.cshlpress.com/.