Links

Relevant Journals

Prokaryotes:

Plants & Fungi:

Invertebrates:

Mammals:

Genscan - eukaryotes - Identification of complete gene structures in genomic DNA
Fgenesh - the fastest ab initio HMM-based eukaryotic gene prediction program
GeneMark
GLIMMER - prokaryotes
tRNAscan - SE 1.21 - search for tRNA genes in genomic sequence
GFF (General Feature Format) Specification - a standard format for genomic sequence annotation

Gene Expression Omnibus (NCBI)
ArrayExpress - is a public archive for transcriptomics data, which is aimed at storing MIAME- and MINSEQE- compliant data in accordance with MGED recommendations.
Stanford Microarray Database
MGED - an international organization of biologists, computer scientists, and data analysts that aims to facilitate biological and biomedical discovery through data integration.

TRAFAC- For identifying conserved and shared cis regulatory elements between a pair of genes.
CisMols - For identifying conserved and shared cis regulatory elements between a set of co-expressed genes.
EPD - eukaryotic promoter database
DBTSS - DataBase of Transcriptional Start Sites (human)
SCPD - Saccharomyces cerevisiae promoter database
DCPD - Drosophila Core Promoter Database
RegulonDB - a database on transcriptional regulation in E. coli
DPInteract - protein binding sites on E. coli DNA
PromoterInspector - prediction of promoter regions in mammalian genomic sequences
MatInspector - search for transcription factor binding sites
Cister - cis-element cluster finder
Gene regulatory Tools

OMIM - a comprehensive, authoritative compendium of human genes and genetic phenotypes that is freely available and updated daily.
MalaCards - an integrated database of human maladies and their annotations,modeled on the architecture and richness of the popular GeneCards databse of human gene.
TCGA - (The Cancer Genome Atlas) a collaboration between the National Cancer Institute(NIC) And the National Human Genome Research Institute (NHGRI)that has generated comprehensive,mutil-dimensional maps of the key genomic changes in 33 types of cancer.
CCLE - (Cancer Cell Line Encycclopedia) a collaboration between the Board Institute,and the Novartis Institute for Biomedical Research and its Genomics Institute of the Novartis Research Foundation to conduct a detailed genetic and pharmacologic characterization of a large panel of human cancer models, to develop integrated computational analyses that link distinct pharmacologic vulnerabilities to genomic patters and to translate cell line integrative genomics into cancer patient stratiffication.The CCLE provides public access to genomic data,analysis and visualization for about 1000 cell lines.
Cancer Genome Anatomy Project
The Cancer Genome Atlas
Cancer Genetics With an Edge
Cancers Genomes and their Implications for Curing Cancer by Bert Vogelstein
Cancer Risk Prediction Models and Assessment