Bioinformatics

Collection of sequences from sources such as GenBank, RefSeq, TPA, and PDB.

Tool for comparing gene and protein sequences and finding regions of local similarity.
Help, NCBI Handbook Tutorial

Graphical analysis tool that identifies all open reading frames using the standard or alternative genetic codes.

Tool for computing cDNA-to-genomic or spliced sequence alignments.
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System for identifying segments of a nucleic acid sequence that may have vector origins and removing those segments before sequence analysis or submission.
Overview, Example Results

Program that helps identify the genotype (or subtype) of viral nucleotide sequences.
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Open-source software analysis package integrating a range of tools.
Help Overview, guides & FAQ
Tutorial Includes exercises

Integrated databases including fully annotated sequences of immunoglobulins and T cell receptors from humans and other vertebrates.

Database of information about genes. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
FAQ, Quick Start beginner's how-to introduction

Automated system for detecting homologs among the annotated genes of several completely sequenced eukaryotic genomes. Includes homology and phenotype information plus paralogs in addition to orthologs.
Help Overview, tips, FAQ, etc.

Information about genes and proteins presented as "literature networks" based on instances where gene or protein names appear in articles together, providing a way to visualize possible direct or indirect connections (e.g., biological interactions).
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Concise genomic, proteomic, transcriptomic, genetic, and functional information on human genes.
Guide search guide, FAQ

Database of homologous vertebrate genes, including protein and associated nucleotide sequences.

Searching and browsing of a controlled vocabulary for genes, gene product attributes, and biological concepts that have been annotated with GO terms across different species and databases.
Help Document & FAQ, Database Guide

Classifications of proteins and their genes according to families and subfamilies, molecular function, biological processes, and pathways specifying relationships.
Help overview and tips

Public repository of high-throughput gene expression data provided by researchers.
FAQ

"...relates cytogenetic changes and their genomic consequences, in particular gene fusions, to tumor characteristics, based either on individual cases or associations."

Collection of protein sequences from sources such as GenBank, RefSeq, TPA, SwissProt, and PDB.

Collection of annotated data for identifying conserved domains in protein sequences through the use of Reverse Position Specific BLAST.
Help extensive classification

Tool for comparing gene and protein sequences and finding regions of local similarity.
Help FAQ, guide & glossary
NCBI Handbook Tutorial

Tool provided as part of NCBI's Entrez Protein database that shows precalculated BLAST search results for protein sequences.
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Tool for conducting searches in NCBI's Entrez Protein to find protein similarities by using domain profiles that include functional annotation.
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Comprehensive resource for protein sequence and annotation data.
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Several databases related to protein molecular biology and proteomics.
Documentation

Open-source software analysis package integrating a range of tools for sequence analysis, including sequence alignment, protein motif identification, nucleotide sequence pattern analysis, codon usage analysis, and more.
Help Overview, guides & FAQ
Tutorial Includes exercises

Curated set of data about protein-protein interactions.
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Database of integrated and visualized data on G protein-coupled receptors, including information on sequences, ligand binding constants, mutations, multiple sequence alignments, and homology models.
Tutorial

Classifications of proteins and their genes according to families and subfamilies, molecular function, biological processes, and pathways specifying relationships.
Help overview and tips