Bioinformatics Links Directory : cDNA, EST, SAGE

Links to clone repositories, expression data, methods, and tools for expressed sequence tags (EST) and serial analysis of gene expression (SAGE) are found here.

ACID - (Found July 2, 2008 )

The Array Clone Information Database (ACID) is a searchable resource for information about human, mouse, and rat cDNA clones. Each clone contains information about the assigned UniGene cluster(s), location in the full-length transcript, assigned gene ontology terms and position in the genome assembly.
http://bioinfo.thep.lu.se/acid.html

GOAL - (Found July 2, 2008 )

Gene Ontology Automated Lexicon (GOAL) is a tool for the functional analysis of data from SAGE and microarray experiments. Gene Ontology terms are used as the basis for statistical analysis.
http://microarrays.unife.it/

Mouse Atlas of Gene Expression - (Found July 2, 2008 )

A quantitative and comprehensive atlas of gene expression in mouse development. The project has a goal of producing 150 publically available SAGE libraries.
http://www.mouseatlas.org/

PatMatch - (Found July 2, 2008 )

PatMatch is a pattern matching tool that allows you to search for short (<20 residues) nucleotide or peptide sequences and can accomodate ambiguousdegenerate patterns.
http://www.arabidopsis.org/cgi-bin/patmatch/nph-patmatch.pl

SAGE Home Page - (Found July 2, 2008 )

Serial Analysis of Gene Expression; simultaneous expression and map information.
http://www.sagenet.org/

SAGEmap - (Found July 2, 2008 )

SAGE tag to gene mapping by NCBI.
http://www.ncbi.nlm.nih.gov/SAGE/index.cgi

SAGExplore - (Found July 2, 2008 )

SAGExplore is a tool for the accurate mapping of experimental tags in serial analysis of gene expression (SAGE).
http://protein.bio.puc.cl/cardex/servers/sagexplore/home.php

UniGene - (Found July 2, 2008 )

Non-redundant sets of expressed genes; each UniGene cluster contains sequences, model organism homologs, map and expression information.
http://www.ncbi.nlm.nih.gov/UniGene/

VIRGO - (Found July 2, 2008 )

Virtual Gene Ontology (VIRGO) provides gene function predictions for yeast and human by constructing a functional linkage network (FLN) from gene expression and molecular interaction data. VIRGO then labels genes in the FLN with their annotations from Gene Ontology, and systematically propagates these labels across the FLN in order to predict the functions of unlabelled genes.
http://whipple.cs.vt.edu:8080/virgo

GEO - Gene Expression Omnibus - (Found July 2, 2008 )

Gene expression and hybridization array data repository; online resource for retrieval of gene expression data from any organism or artificial source.
http://www.ncbi.nlm.nih.gov/geo/