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Directories and Portals *(34)		Homology Detection (9)
Ecological Databases (0)		Protein Analysis (15)
Genome Databases (3)		Sites about Software *(34)

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A web Server for prediction of Promiscuous MHC binding regions - This server allows the prediction of promiscuous MHC binding regions in an antigen, which are useful for subunit vaccine design. The 51 HLA DR alleles are used for prediction by the server.

AG BIODV Software - Links to software developed by the AG BIODV group. Tools for consensus, alignment and definition. Both downloads and executables.

BioGIS: Israel Biodiversity Information System - Israel Biodiversity Information System (BioGIS) is a Geographical Information System established to create a national database of the flora and fauna of Israel. The system is open to the public and provides advanced tools for querying, analyzing, modeling, and visualizing patterns of species distribution.

BioMolecular Engineering Research Center - Tools and methods for computational biology. Working on secondary protein structure prediction, providing reliable profiles, and developing new ways to study molecular biology through bioinformatics.

Bionavigator - Provides an integrated set of online tools that allow use of GCG, BLAST and other programs. Also allows data storage. Commercial site with some free services.

CUBIC: Columbia University Bioinformatics Center - Services - PredictProtein for sequence analysis and protein structure prediction , META for single-page interface to validated sequence analysis, Links to WWW services for molecular biology, and analysing entire genomes

Center Structural Biology: Programs and Tools - User guides and worked examples for software applications in structural and molecular biology - from Yale Univ.

Entrez Browser - Retrieves molecular biology data and bibliographic citations from the NCBI's integrated databases.

FTG: Fast Fourier Transform approach for locating protein coding genes - This site provides user a choice of using different Fourier Transform based techniques on their genomic sequences to identify protein coding regions in the genome. This algorithm improves the efficiency of gene prediction and does not require any learning set. (Unfortunately, uses client-side scripting which seems broken in IE 5.5).

GeneCards: Human Genes, Proteins, and Diseases - Database of concise information about human genes (and their mouse homologs), focusing on their cellular functions and medical aspects - from the Weizmann Inst. of Science.

Genepop on the Web - Online version of the program for populational genetics.

Geneva Bioinformatics (GeneBio) S.A. - GeneBio provides proteomics software tools and databases including SWISS-PROT, PROSITE, SWISS-2DPAGE and Melanie. We also offer a secure version of ExPASy molecular biology web server.

GenomeNet WWW server - Very nice collection of bioinformatics tools, including BLAST and MOTIF - from Kyoto Univ.

INCBI Irish National Centre for BioInformatics - Hosts Irish embnet node, Gives links to Database browsing and interrogation at SRS, European (EBI) servers, Blast server for parasite genomes (EBI), US (NCBI) servers, Protein structure prediction, PredictProtein Server in Heidelberg, Gene identification, splice sites, exons, introns and a list of gene structure prediction programs

Matrix Science - Mascot is an on-line search engine for protein identification using mass spectrometry data. Search NCBI nr and dbEST using peptide mass fingerprint data, sequence queries, and MS/MS peak lists.

MedMiner - An Internet biomedical data-mining tool for organizing search information gathered from textual or genetic databases - from the NIH National Cancer Inst.

Melanie II 2-D Analysis Software - Powerful, state-of-the-art, 2-D analysis software package with user-friendly interface from the Swiss Institute of Bioinformatics (SIB).

MendelBase - MendelBase is a database of functional and structural/biophysical information pertaining to proteins. Run by Array Genetics. [Registration required]

Microarray Database Gateway - Tools for managing, accessing, and analyzing cDNA microarray data generated by the NCI Div. of Clinical Sciences µArray Center - from the BioInformatics and Molecular Analysis Section of the NIH Center for Info. Technology.

Molecular Bioinformatics of Gene Regulation - The focus of the GBF project "Molecular Bioinformatics of Gene Regulation" are regulatory genomic signals and regions that govern transcriptional control based on TRANSFAC - The Transcription Factor Database. It compiles data about gene regulatory DNA sequences and protein factors binding to and acting through them.

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