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Search Tools

Links to resources facilitating searching for articles of interest.

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Found 12 links

Displaying 12 links

BioPortalDatabase Content

http://bioportal.bioontology.org

DNA > Annotations
Expression > Transcript Expression Analysis
Human Genome > Annotations
Literature > Open Access Resources
Literature > Search Tools

BioPortal is a web accessible open repository of biomedical ontologies. Users may browse, search and visualize ontologies, as well as participate in the evaluation and evolution of ontology reviews by adding notes, corrections, reviews, etc. Data from other sources such as GEO, ClinicalTrials.gov and ArrayExpress may also be integrated with the ontologies.

This content is being maintained by whetzel.

NAR Web Server Issue 2009NAR Web Server Issue 2011
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tagsbiomedical research controlled vocabulary natural language processing systems integration

botXminerDatabase Content

http://botdb.abcc.ncifcrf.gov/

Literature > Search Tools
Literature > Text Mining and Semantics

botXminer is a literature searching tool that allows you to search BotDB. BotDB citations contain only those articles with either \'botulinum\' or \'tetanus\' anywhere in their text. botXminer is an interface to this subset of complete medline xml files loaded into an Oracle XMLDB.

NAR Web Server Issue 2006
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tagsamino acid sequence botulinum toxins database management systems medline molecular sequence data protein databases tetanus toxin

EBI ToolsTool Content

http://www.ebi.ac.uk/Tools/webservices/

Computer Related > Web Services
DNA > Sequence Retrieval and Submission
Education > Directories and Portals
Literature > Search Tools
Protein > 3-D Structure Comparison
Protein > Domains and Motifs
Protein > Sequence Retrieval
RNA > Sequence Retrieval
Sequence Comparison > Multiple Sequence Alignments
Sequence Comparison > Similarity Searching

EBI Tools is a project that aims to provide programmatic access to the various databases and retrieval and analysis services that the European Bioinformatics Institute (EBI) provides through Simple Object Access Protocol (SOAP) and other related web service technologies.

NAR Web Server Issue 2005NAR Web Server Issue 2007NAR Web Server Issue 2009
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tagsbibliographic databases biotechnology computational biology europe genetic databases nucleic acids protein sequence analysis proteins sequence alignment sequence analysis sequence homology systems integration

eTBLASTDatabase Content

http://etest.vbi.vt.edu/etblast3/

Literature > Search Tools

eTBLAST is a textual similarity search engine. This server can parse and summarize the results of an abstract similarity search to find appropriate journals for publication, authors with expertise in a given field, and documents similar to a submitted query.

NAR Web Server Issue 2007
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tagsalgorithms artificial intelligence authorship automated pattern recognition bibliographic databases controlled vocabulary database management systems humans informatics medline natural language processing peer review periodicals as topic publications publishing pubmed software design

GoPubMedTool Content

http://www.gopubmed.org/

Literature > Search Tools

GoPubMed is a tool that allows users to explore the results of PubMed queries in the context of Gene Ontology (GO) terms.

NAR Web Server Issue 2005
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tagscontrolled vocabulary enzyme inhibitors genetic databases levamisole pubmed subject headings

GPSDBDatabase Content

http://biomint.pharmadm.com/

Literature > Search Tools
Literature > Text Mining and Semantics

Gene and Protein Synonym DataBase (GPSDB) is a collection of gene and protein names, organized by species that can be used to search for a given gene/protein name, retrieve all synonyms for this entity, and query Medline with a set of user-selected terms.

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tagscontrolled vocabulary database management systems documentation information dissemination medline natural language processing protein databases proteins terminology as topic

HubMedTool Content

http://www.hubmed.org/

Literature > Search Tools

HubMed uses information from PubMed\'s database, provided by the NCBI through the EUtils web service, to produce a search interface focused on browsing, organising and gathering information from the biomedical literature.

NAR Web Server Issue 2006
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tagspubmed systems integration

PubCrawlerTool Content

http://pubcrawler.gen.tcd.ie/

DNA > Sequence Retrieval and Submission
Literature > Search Tools
Protein > Sequence Retrieval
RNA > Sequence Retrieval

It goes to the library. You go to the pub; receive email alerts for current contents of PubMed and GenBank; e.g. use accession number of htg record as query to receive sequence updates (as the version number changes).

NAR Web Server Issue 2004
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tagselectronic mail information services medline national library of medicine (u.s.) nucleic acid databases pubmed united states

PubMedDatabase Content

http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?db=PubMed

Literature > Goldmines
Literature > Search Tools

Entrez-searchable database of biomedical literature citations with links to molecular resources at the NCBI.

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PubMed CentralDatabase Content

http://www.pubmedcentral.gov/

Literature > Goldmines
Literature > Search Tools

PubMed Central (PMC) is the U.S. National Institutes of Health (NIH) free digital archive of biomedical and life sciences journal literature.

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tagsdna sequence analysis gene expression regulation genes genetic databases genomics humans national library of medicine (u.s.) nucleic acid databases protein databases pubmed sequence alignment united states

soaPDBTool Content

http://soapdb.sourceforge.net/

Literature > Search Tools

soaPDB is a web application for the generation and organization of saved PDB searches as well email notifications.

NAR Web Server Issue 2008
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tagselectronic mail protein databases

XplorMedTool Content

http://www.ogic.ca/projects/xplormed/

Literature > Search Tools
Literature > Text Mining and Semantics

XplorMed is a tool that summarizes MEDLINE search results according to subjects and allows you to navigate through abstracts in an interactive fashion.

NAR Web Server Issue 2003
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tagsalgorithms artificial intelligence benchmarking bibliography of medicine fuzzy logic genetic databases information systems medline publications systems integration

Tags associated with subcategory 'Literature/Search Tools'

pubmed medline controlled vocabulary systems integration protein databases database management systems natural language processing genetic databases artificial intelligence algorithms tetanus toxin molecular sequence data automated pattern recognition authorship botulinum toxins sequence analysis sequence homology levamisole subject headings information services gene expression regulation publications publishing biomedical research periodicals as topic peer review national library of medicine (u.s.) nucleic acid databases united states dna sequence analysis sequence alignment biotechnology terminology as topic genes genomics information dissemination documentation computational biology europe enzyme inhibitors amino acid sequence bibliographic databases humans software design nucleic acids protein sequence analysis proteins information systems fuzzy logic informatics electronic mail benchmarking bibliography of medicine