Server designed to pinpoint protein-DNA interaction sites at the base pair level. Uses ChIP-array data, word enumeration and position-specific weight matrix updating to search for motifs representing these interaction sites. - [Read more MDscan]
MedMiner can be used to select genes from a microarray set based on GeneCards information. Based on the genes selected one can then search PubMed abstracts using known gene synonyms and other user-specified search parameters. The PubMed search can also - [Read more MedMiner]
Group facilitating the development of an international repository for gene expression data and the experimental and database standards required for such an endeavour. - [Read more Microarray Gene Expression Database]
a science training and education site, written by N. Eric Olson, PhD, in partnership with the
University of Washington Health Science Libraries. The "7 keys to successful
microarray analysis" has been designed to guide researchers step-by-step through t - [Read more Microarray Success]
Protocols, analysis and resources; BLAST against the 15K set cDNA library clones (from 15,000 human UniGene clusters; clones are available). - [Read more NHGRI Micorarray Project]
Oligodb generates oligos suitable for expression experiments based on predicted gene transcripts from the Ensembl project. One can search for transcripts via keyword, or do a batch search by providing a list of Ensembl identifiers. - [Read more Oligodb]
Onto-Tools is a suite of tools for data mining based on information from Gene Ontology (GO). Functional groupings of lists of differentially expressed genes can be created using Onto-Express. Contains tools for assessing the functional bias for sets of - [Read more Onto-Tools]
A server for the detection, comparison and verification of transcription factor binding site motifs in promoters. POBO bootstrap analysis applied to one or two clusters of co-regulated genes detects motifs under extreme levels of representation. - [Read more POBO]
Using current releases of genomic sequence data, ProbeLynx allows users to assess the specificity of probe sequences used for microarray experiments. The user provides probe sequences in FASTA or tab-delimited format, and ProbeLynx reports specificity in - [Read more ProbeLynx]
Tool for cross-referencing microarray data derived from different species and across different expression analysis platforms. Built using the analysis of ESTs, the TIGR Gene Index (TGI), and Eukaryotic Gene Orthologs (EGO) databases. - [Read more Resourcerer]
Eisen Lab software for microarry image processing, analysis and visualization; available for download to windows platforms only; free with registration for non-commercial use. - [Read more ScanAlyze, Cluster, TreeView]
Stanford Online Universal Resource for Clones and ESTs pools publicly available data commonly sought for any clone, GenBank accession, or gene from human, mouse, rat. - [Read more SOURCE]
SMD stores raw and normalized data from microarray experiments, as well as their corresponding image files. In addition, SMD provides interfaces for data retrieval, analysis and visualization. - [Read more Stanford Microarray Database (SMD)]
