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Links tagged with 'national library of medicine (u.s.)'

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BioSystemsDatabase Content

http://www.ncbi.nlm.nih.gov/biosystems

Protein > Databases

The NCBI BioSystems database centralizes and cross-links existing biological systems databases, increasing their utility and target audience by integrating their pathways and systems into NCBI resources. This integration allows users of NCBI's Entrez databases to quickly categorize proteins, genes and small molecules by metabolic pathway, disease state or other BioSystem type.

NAR Database Issue 2010
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tagsanimals cell membrane computational biology genes genetic databases genomics humans national library of medicine (u.s.) nucleic acid databases protein databases systems biology united states
setsNational Center for Biotechnology Information (NCBI)

BLASTTool Content

http://www.ncbi.nlm.nih.gov/BLAST/

DNA > Gene Prediction
DNA > Sequence Retrieval and Submission
Protein > Sequence Retrieval
RNA > Sequence Retrieval
Sequence Comparison > Similarity Searching

Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.

NAR Web Server Issue 2004NAR Web Server Issue 2006NAR Web Server Issue 2008
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tagsalgorithms amino acid sequence base sequence factual databases genetic databases genome humans mutation national library of medicine (u.s.) nucleic acid databases nucleic acid sequence homology nucleotides protein databases protein sequence analysis sensitivity and specificity sequence alignment sequence analysis systems integration united states
setsNational Center for Biotechnology Information (NCBI)

Entrez GeneDatabase Content

http://www.ncbi.nlm.nih.gov/gene

DNA > Databases

Entrez Gene is NCBI's database for gene-specific information. Entrez Gene maintains records from genomes which have been completely sequenced, which have an active research community to submit gene-specific information, or which are scheduled for intense sequence analysis.

NAR Database Issue 2011
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tagsgenes genetic databases genomics national library of medicine (u.s.) united states
setsNational Center for Biotechnology Information (NCBI)

GenBankDatabase Content

http://www.ncbi.nlm.nih.gov

DNA > Databases

GenBank is a comprehensive database that contains publicly available nucleotide sequences for more than 300,000 organisms named at the genus level or lower, obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects, including whole genome shotgun (WGS) and environmental sampling projects. Daily data exchange with the European Molecular Biology Laboratory Nucleotide Sequence Database in Europe and the DNA Data Bank of Japan ensures worldwide coverage. GenBank is accessible through the NCBI Entrez retrieval system, which integrates data from the major DNA and protein sequence databases along with taxonomy, genome, mapping, protein structure and domain information, and the biomedical journal literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases.

NAR Database Issue 2010NAR Database Issue 2011
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tagsalgorithms animals bacterial genome computational biology expressed sequence tags genetic databases genomics high-throughput nucleotide sequencing humans metagenomics molecular sequence annotation national institutes of health (u.s.) national library of medicine (u.s.) nucleic acid databases plant genome protein databases united states viral genome

NCBI Assembly ArchiveTool Content

http://www.ncbi.nlm.nih.gov/projects/assembly/

Model Organisms > General Resources

The NCBI Assembly Archive links publically available assembly information with the NCBI Trace Archive\'s raw sequence data.

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tagsbiomedical research bioterrorism genetic databases genome information dissemination national institutes of health (u.s.) national library of medicine (u.s.) research support as topic single nucleotide polymorphism united states
setsNational Center for Biotechnology Information (NCBI)

NCBI GEODatabase Content

http://www.ncbi.nlm.nih.gov/geo/

Expression > Databases

The Gene Expression Omnibus (GEO) database stores over 20,000 microarray- and sequence-based functional genomics studies, and continues to handle the majority of direct high-throughput data submissions from the research community. Multiple mechanisms are provided to help users effectively search, browse, download and visualize the data at the level of individual genes or entire studies.

NAR Database Issue 2011
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tagsanimals computational biology database management systems forecasting gene expression profiling genetic databases genome genomics humans information systems national library of medicine (u.s.) oligonucleotide array sequence analysis software design united states
setsNational Center for Biotechnology Information (NCBI)

NCBI Human DNA Reference SequenceDatabase Content

http://www.ncbi.nlm.nih.gov/RefSeq/

DNA > Sequence Retrieval and Submission
Human Genome > Annotations
Model Organisms > Mouse and Rat
Model Organisms > Yeast

Downloadable human DNA reference sequence as well as other reference genome sequences.

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tagsamino acid sequence animals base sequence dna sequence analysis exons genetic databases genome genomics humans messenger rna mice national library of medicine (u.s.) nucleic acid databases protein databases protein sequence analysis proteins pseudogenes rats reference standards rna sequence analysis sequence analysis systems integration united states untranslated rna

NCBI ResourcesDatabase Content

http://www.ncbi.nlm.nih.gov

DNA > Databases
Expression > Databases
Human Genome > Databases
Literature > Databases
Model Organisms > Databases
Other Molecules > Databases
Protein > Databases
RNA > Databases

The National Center for Biotechnology Information (NCBI) provides analysis and retrieval resources for the data in GenBank and other biological data made available through the NCBI web site.

NAR Database Issue 2010NAR Database Issue 2011
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tagsalgorithms animals bacterial genome computational biology dna sequence analysis gene expression genetic databases genomics humans national institutes of health (u.s.) national library of medicine (u.s.) nucleic acid databases protein databases pubmed rna sequence analysis sequence alignment systems integration tertiary protein structure united states viral genome

NCBI Taxonomy DatabaseDatabase Content

http://www.ncbi.nlm.nih.gov/Taxonomy

DNA > Phylogeny Reconstruction
Model Organisms > General Resources
Protein > Phylogeny Reconstruction

Taxonomic classification of all organisms with sequences in GenBank.

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tagsanimals biology dna expressed sequence tags factual databases gene expression genome human genome humans mice molecular models national library of medicine (u.s.) neoplasms phenotype sequence tagged sites united states

PubChemDatabase Content

http://pubchem.ncbi.nlm.nih.gov/

Other Molecules > Databases

The PubChem BioAssay database is a public repository for biological activities of small molecules and small interfering RNAs (siRNAs). It archives experimental descriptions of assays and biological test results. A PubChem BioAssay data entry includes an assay description, a summary and detailed test results. Each assay record is linked to the molecular target, whenever possible, and is cross-referenced to other NCBI database records.

NAR Database Issue 2010
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tagsanimals biological assay chemical dictionaries computational biology factual databases humans national library of medicine (u.s.) pharmaceutical preparations pharmacology protein databases structure-activity relationship united states

PubChem BioAssay ServiceTool Content

http://pubchem.ncbi.nlm.nih.gov/assay/

Other Molecules > Compounds
Other Molecules > Metabolites
Other Molecules > Small Molecules
Protein > Annotation and Function
Protein > Biochemical Features
Protein > Interactions, Pathways, Enzymes
Protein > Molecular Dynamics and Docking

PubChem BioAssay Service expands upon PubChem. It is a set of web servers which provide for rapid data retrieval, integration, and comparison of biological screening results, exploratory structure-activity analysis and target selectivity examination.

NAR Web Server Issue 2009
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tagsfactual databases molecular structure national library of medicine (u.s.) pharmaceutical preparations pharmacology structure-activity relationship united states

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

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