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Topic: Entrez

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	Entrez
		Entrez is a powerful search engine that can be applied to any of the large databases maintained by the NCBI.
		The Entrez system can provide views of gene and protein sequences and chromosome maps.
		Entrez Global Query is an integrated search and retrieval system that provides access to all databases simultaneously.
	www.ibpassociation.org /encyclopedia/Biotechnology/Entrez.php (350 words)

	ENTREZ (Site not responding. Last check: 2007-11-01)
		ENTREZ is a service of NCBI (National Center for Biotechnology Information) which is a part of the US National Library of Medicine.
		But ENTREZ is much more than a database, it is a both a powerful search engine and a pre-computed list of relationships between all data elements.
		The entire ENTREZ database was distributed on CD-ROM from 1992 until August, 1996, but this was discontinued due to the huge size of the database (which filled 6 CD's by 1996) and the impossible task of keeping the CDs current with the rapidly growing database.
	www.med.nyu.edu /rcr/rcr/course/entrez.html (388 words)

	Entrez Genome Project Help Document
		The NCBI Entrez Genome Project database is intended to be a searchable collection of complete and incomplete (in-progress) large-scale sequencing, assembly, annotation, and mapping projects for cellular organisms.
		Entrez Genome Project also lists projects that are in progress or for which NCBI has not yet received any data.
		Chromosome GI Chromosome GI is the unique identifier used in Entrez genome to refer to a single molecule, whether it be a single plasmid, a single chromosome, or whether it refers to a set of contigs that all come from the same chromosome.
	web.ncbi.nlm.nih.gov /genomes/static/gprj_help.html (6891 words)

	Entrez
		Entrez (1) is a search and retrieval tool developed by NCBI that is capable of searching multiple NCBI databases with just one query.
		Entrez returns search results that can include a combination of many types of data on the query, such as nucleotide sequences, protein sequences, macromolecular structures, and related articles in the literature.
		Entrez allows access to information such as nucleotide and protein sequences organized by species in the NCBI taxonomy database.
	www.bioc.rice.edu /bios533/2003_labs/entrez.html (1132 words)

	Entrez searches (Site not responding. Last check: 2007-11-01)
		Although Entrez is from the National Center for Biotechnology Information of the National Library of Medicine (NIH), the literature related to agricultural biotechnology is well covered.
		Entrez is more than just a database of 1.3 million citations.
		Entrez also links you to related papers for every citation and provides a "glossary" type explanation of key words.
	www.icp.ucl.ac.be /~opperd/entrez.html (289 words)

	BIOL 499 - Bioinformatics
		Entrez is a molecular biology database and retrieval system developed by the National Center for Biotechnology Information (NCBI).
		NCBI's Entrez integrates genomic sequencing and mapping data, DNA and protein sequences, 3-D structures, taxonomic relationships, and the PubMed database of bibliographic references.
		Entrez contains molecular data from several databases worldwide, including GenBank at NCBI, the European Molecular Biology Laboratory (EMBL), the DNA DataBank of Japan (DDBJ), SWISS-PROT, Protein Identification Resource (PIR), Brookhaven Protein DataBank (PDB), the Protein Research Foundation (PRF) database, and the Genomic Sequence Database (GSDB).
	www.csupomona.edu /~biology/bioinformatics/tut-ht-use-entrez.htm (1467 words)

	Entrez Problems (Site not responding. Last check: 2007-11-01)
		Use Entrez PopSet to find a recent study in the important malaria mosquito Anopheles gambiae species complex that shows that such cytologic data may give an incorrect phylogeny.
		Use Entrez nucleotides to find the number of nucleotide sequences for yeast present in GenBank.
		The CFTR protein is a large transmembrane protein that is mutated in the inherited disease cystic fibrosis.
	info.med.yale.edu /intmed/infdis/course/entrez_problems.html (2832 words)

	EntrezDesc.html
		Entrez is a search and retrieval system that integrates information from databases at NCBI.
		Entrez provides access to nucleotide, protein and bibliographic information and presents text and graphical displays for these.
		Entrez allows the user to visualize the sequence information at varying levels of detail either graphically or as text.
	www.library.csi.cuny.edu /~davis/MolBioTools/bioinformatics/Entrezdesc.html (1171 words)

	WWW Entrez Help
		Entrez will not recognize that this is all one item and will search for "brca" and "1" separately.
		Entrez automatically calculates the intersection of the terms you enter and displays the resultant search statement at the top of the screen, calculating the number of records to retrieve.
		The WWW Entrez Genome database takes you to a graphic view that can be used to find the specific area of a genome that you are interested in and view its component sequences.
	dwb.unl.edu /Teacher/NSF/C10/C10Links/www.ncbi.nlm.nih.gov/Entrez/entrezhelp.html (4055 words)

	Entrez Gene HD - Genetics Home Reference
		Entrez Gene lists the observable physical or biochemical characteristics (phenotype) that result from expressing the HD gene.
		Entrez Gene matches each phenotype with an entry in the Online Mendelian Inheritance in Man (OMIM), a catalog that provides information on the relationship between a phenotype and a gene.
		Entrez Gene matches the HD gene with an OMIM record.
	ghr.nlm.nih.gov /ghr/locuslink/3064 (602 words)

	DNA Sequence Access
		Entrez is a very powerful relational database search tool for DNA sequence, protein sequence, protein structure, bioscience literature, and disease information.
		Nevertheless, these resources are outstanding, and Entrez is a shining example of a superb relational database and a tool useful to scientists on a daily basis.
		Entrez can be used as a simple retrieval tool, but it shines when used as a relational database tool.
	www.uky.edu /Classes/BIO/520/BIO520WWW/lab2.htm (1041 words)

	Entrez (Site not responding. Last check: 2007-11-01)
		Entrez (pronounced "on tray") is another way to search databanks with keywords.
		A key feature of the system is the concept of "neighboring" whereby a user can locate all related references or sequences within a database by using pre-computed tables that measure the relatedness of all articles and all sequences.
		Entrez also contains MEDLINE records, including abstracts, which are cited in the sequence databases.
	condor.bcm.tmc.edu /Software/entrez.html (188 words)

	Entrez Map Viewer Help Document
		Entrez Genomes presents a unified graphical view of maps (genetic and physical) and sequence data for a selected organism.
		Entrez Genomes provides access to over 800 complete genomes, and the Map Viewer described here provides special browsing capabilities (e.g., integrated maps) for the organisms noted above.
		For the other organisms, Entrez Genomes also provides graphical overviews of complete genomes/chromosomes, and the ability to explore regions of interest in progressively greater detail.
	web.ncbi.nlm.nih.gov /mapview/static/MapViewerHelp.html (7004 words)

	ENTREZ GROUP OF DATABASES (Site not responding. Last check: 2007-11-01)
		The Protein and Nucleotide entries in Entrez have been compiled from a variety of sources, including GenBank, EMBL, DDBJ, PIR, SWISS-PROT, PRF, PDB and RefSeq.
		Batch Entrez : Batch Entrez allows you to retrieve a large number of sequences from Entrez, in a batch mode, and save them to a local disk file on your computer.
		PDBeast : In compliance with the taxonomy database and the associated toolkit developed and maintained by NCBI, the Structure Group and taxonomists of the NCBI have undertaken taxonomy annotation for structure data in Entrez.
	www.rna.icmb.utexas.edu /linxs/databases/entrez.html (406 words)

	Entrez-intro (Site not responding. Last check: 2007-11-01)
		Entrez is a retrieval system for searching several linked databases.
		Entrez Help) and not to the clipboard shared by your browser and word processor.
		Most students take the short view that there is more to the ENTREZ interface than they will ever use so if I do not emphasize and or threaten a quiz, few of the features are ever explored.
	biology.fullerton.edu /courses/biol_473/Web/entrezintro.htm (405 words)

	CLEVER- Command line Entrez
		Entrez provides an integrated approach for gaining access to nucleotide and protein sequence information, to the MEDLINE citations in which the sequences were published, and to a sequence-associated subset of MEDLINE.The sequence records are derived from a variety of database sources, including GenBank, EMBL, DDBJ, PIR, SWISS-PROT, PRF, and PDB.
		With Entrez and a personal computer, you can rapidly search several hundred megabytes of sequence and literature data using techniques that are fast and intuitive." - Entrez User's Guide.
		The original Entrez program written by NCBI is a tool that uses windows, menus, and a pointing device; since not everyone has computers or terminals with graphics capabilities, clever was written to do the same work using only text input/output.
	megasun.bch.umontreal.ca /ogmp/aboutcl.html (710 words)

	Entrez Gene IL12B - Genetics Home Reference
		Entrez Gene lists the observable physical or biochemical characteristics (phenotype) that result from expressing the IL12B gene.
		Entrez Gene GeneRIFs are recent publications from the PubMed® catalog that contain relevant information about IL12B.
		Entrez Gene matches the IL12B gene with an OMIM record.
	ghr.nlm.nih.gov /ghr/locuslink/3593;jsessionid=F5A79294E9F161B0FF7E98A377F3AEE0 (555 words)

	Pharm 207/Bio 207 - Lecture 2 - Problem Solving with Entrez
		WWW Entrez makes it possible to retrieve molecular biology data and bibliographic citations from the NCBI's integrated databases.
		The lecture will provide a basic outline of the Entrez database system, its capabilities and some of its advanced features.
		This is a somewhat unexpected result, especially since a reference for the expression of the cDNA in E. coli was included with the search results for the structure's publication (compare this MEDLINE result from above).
	www.sdsc.edu /pb/edu/pharm207/4 (749 words)

	Programmes at ICGEBnet: Network Entrez (Site not responding. Last check: 2007-11-01)
		Network Entrez application provides functionality for browsing bibliographic, nucleotide sequence, genome, protein sequence and 3D structure databases.
		Entrez provides integrated access to biomedical literature, nucleotide and protein sequences, along with 3-D protein structures, complete genomes and population study data sets.
		The Entrez search and retrieval system is provided by the National Center for Biotechnology Information.
	www.icgeb.org /~netsrv/entrez.html (95 words)

	Searching Entrez Gene
		Entrez Gene, developed by the National Center for Biotechnology Information (NCBI), is an excellent Databases for finding gene specific information.
		Know which genes on chromosome 3 are associated with a known disease.
		Each Entrez Gene record represents a single gene from a given organism, and provides information including nomenclature, chromosomal localization, gene products, markers, phenotypes, molecular interaction, genomic sequence information, intron/exon organization, links to literature citations, sequences, homologs, protein domains, variation details, maps and expression.
	www.hsls.pitt.edu /about/news/hslsupdate/2005/february/entrez_gene (583 words)

	Batch Entrez (Site not responding. Last check: 2007-11-01)
		Batch Entrez allows you to retrieve a large number of sequences from Entrez, in a batch mode, and save them to a local disk file on your computer.
		There are three ways to submit the query: a prepared list of GI or Accession numbers; organism; or Entrez search query.
		Instructions for each, as well as other tips for use, are provided in Batch Entrez Help.
	dwb.unl.edu /Teacher/NSF/C10/C10Links/www.ncbi.nlm.nih.gov/Entrez/batch.html (118 words)

	Entrez
		WWW Entrez allows you to retrieve molecular biology data and bibliographic citations from the National Center for Biotechnology Information's integrated databases.
		Entrez Help Document: Nucleotide - Protein - Genome - Structure - PopSet- "brief guide" from the database producers.
		From Help guide - "If you have found a bug or are still confused, please e-mail to the NCBI Help Desk - pubmed@ncbi.nlm.nih.gov.
	www.lib.gla.ac.uk /Resources/Databases/entrez.shtml (130 words)

	Entrez Molecular Sequence Database System-Search multiple databases covering nucleotide sequences, protein sequences, ... (Site not responding. Last check: 2007-11-01)
		Entrez Molecular Sequence Database System-Search multiple databases covering nucleotide sequences, protein sequences, macromolecular structures, and whole genomes
		Pre-computed similarity searches are available for most database records producing a list of related sequences, structure neighbors, as well as related articles.
		Protein sequence database The Entrez protein database is cross-linked to the Entrez stucture database which allows you to find a 3D structure given a sequence.
	www.scitechresources.gov /Results/show_result.php?rec=726 (320 words)

	Intro_Entrez_Records (Site not responding. Last check: 2007-11-01)
		Many, if not most, graduate research projects are based on observations and predictions of others which are in turn used to formulate queries to a database.
		Before we start with ENTREZ to retrieve some sequence (and records), it is important to note that we are emphasizing developing the necessary skills to be self-sufficient for answering all problems with only a web browser and a word processor on the local computer.
		It is boring just to read definitions and paragraphs, I agree but if you fail to explore this interface, you will be handicapped by your inefficiency in the use of all the features that so many have devoted 100s of hours to provide you with the best.
	biology.fullerton.edu /biol473/introentrezrecords.htm (902 words)

	NLM Technical Bulletin, March-April 2005, Gene Indexing and Entrez Gene
		The basic principles of gene indexing have not changed with Entrez Gene: indexers create annotated links between records in Entrez Gene and PubMed®'s MEDLINE citations in which the basic biology of a gene or protein is the main focus of the article.
		Because of the improved searching capabilities of Entrez Gene over LocusLink, indexers are able to narrow their retrieval and locate Entrez Gene records more easily and more efficiently.
		In PubMed citations, users may click on "Links" and then select "Gene" from the pull-down menu (see Figure 1) to view the Entrez Gene record for the gene or protein to which the article was linked.
	www.nlm.nih.gov /pubs/techbull/ma05/ma05_gene.html (309 words)

	GeneStudio Tutorials: Downloading sequences with Entrez - Text version
		GeneStudio's Entrez interface provides an easy way to search GenBank using the Entrez utility and retrieve the sequences from within SeqVerter, the Alignment editor or the Contig editor.
		When the search is complete, the Entrez results dialog box will be displayed.
		The Entrez results viewer is displayed automatically when a search is complete.
	www.genestudio.com /tutorial/genestudio/gsentrez.html (357 words)

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