Bioinformatics Links Directory : Other Resources

Resources include databases, gene-collections, portals, and various tools related to the human genome.

The Sequence Ontology Project - (Found June 19, 2008 )

The Sequence Ontology Project aims to provide a standard vocabulary for describing biological sequences.
http://song.sourceforge.net/

TIGR Gene Indices - (Found June 19, 2008 )

An analysis of a set of unique, highly accurate virtual transcripts that are represented in the worlds public EST data; can perform a BLAST search against the TIGR unique Gene Indices.
http://www.tigr.org/tdb/tgi.shtml

Users Guide to the Human Genome - (Found June 19, 2008 )

Hands-on tutorial for using genome browsers as web tools for browsing and analyzing data from the Human Genome Project and other sequencing efforts; features UCSC Genome Browser, NCBIs Map Viewer, and Ensembl Genome Browser.
http://www.nature.com/cgi-taf/DynaPage.taf?file=/ng/journal/v35/n1s/index.html

LIPID MAPS - (Found June 19, 2008 )

LIPID Metabolites And Pathways Strategy (LIPID MAPS) is a consortium that presents a collection of tools for performing tasks such as drawing lipid structures and predicting possible structures from mass spectrometry data.
http://www.lipidmaps.org/tools/index.html

Intergr8 - (Found June 19, 2008 )

Integr8 is a browser for information relating to completed genomes and proteomes. It provides access to species descriptions, literature, statistical analysis and summary information about each complete proteome; and integrates data from a variety of sources, including InterPro, CluSTr and GO.
http://www.ebi.ac.uk/integr8/

IDconverter - (Found June 19, 2008 )

IDconverter is a tool that converts gene, clone or protein IDs to other IDs which can be especially useful for microarray data analyses. This application is part of the suite Asterias.
http://idconverter.bioinfo.cnio.es/IDconverter.php

CREME - (Found June 19, 2008 )

CREME (Cis-Regulatory Module Explorer for the human genome) is a tool for identifying and visualizing cis-regulatory modules for a given set of genes that are potentially co-expressed or co-regulated. It takes as input a list of accession numbers, and reports back common modules, grouping genes from the list by which modules are found in their promoter regions.
http://creme.dcode.org/

DCODE.ORG - (Found June 19, 2008 )

The dcode.org website provides access to tools for comparative genomic analyses developed by the Comparative Genomics Center at the Lawerence Livermore National Laboratory. Tools include: zPicture, Mulan, eShadow, rVista, CREME, and the ECR Browser.
http://www.dcode.org/

Gene Ontology (GO) Consortium - (Found June 19, 2008 )

Organized, controlled vocabularies for the description of the molecular function, biological process and cellular component of gene products in many organisms.
http://www.geneontology.org/

Gene Set Builder - (Found June 19, 2008 )

Gene Set Builder is a database-driven, web-based tool designed to help researchers compile, store, export, and share sets of genes. This application supports the 17 eukaryotic genomes found in version 32 of the Ensembl database, which includes species from yeast to human. User-created information such as sets and customized annotations are stored and can be shared to facilitate easy access. Gene sets stored in the system can be exported in a variety of output formats - as lists of identifiers,..
http://www.cisreg.ca/gsb/