My Favorite Links of Links

• Provides Bioinformatics links, an excellent collection of muolecular toolbox
• Information for Chemists - Databases
• Pedro's BioMolecular Research Tools
• General Purpose Sites
• Structural Biology on Web
• Amos' WWW links page
• Bioinformatics.org
• Links to Imuunological methods, databases (MHC, T epitope, Proteasome Cleavage site)
• Bioinformatics Section of Tumor Immunology
• ExPASy Proteomics tools
• Information on BIAcore Useful Links from BIACore.com
• Microarray Resources
• Useful Links for 2D gel

Bioinformatics Centers

• NCBI Web Server, NIH, USA
• CBIL at University of Pennsylvania, USA
• Web Servers at Expasy, Switzerland
• EBI Web Servers, UK
• IMTECH Servers, India
• Celera Discovery System
• USCS Genome Bioinformatics

Glossary Related to Bioinformatics

• Glossaries from Human Genome Project
• Glossaries from Cambridge Healthtech Institute (CHI)
• Proteomics Glossary

International Experiment or Competition in Bioinformatics

• Fifth Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP5)
• Third Critical Assessment of full automatic Protein Structure Prediction (CAFASP3)
• CAMDA: Critical Assessment of Microarray Data Analysis
• CAPRI: Critical Assessment of PRediction of Interactions

Genomics (Genome Projects or Resources)

• The Ethical, Legal and Social Implications of the Human Genome Project
• Human Genome Project
• Mouse Genome Informatics
• Drosophila gene annotation
• The Arabidopsis Information Resource, TAIR
• Plant Genomics: United Kingdom CropNet
• TIGR Server: Microbial Genome Project
• EBI Parasite genomics server

Genomics (Software/Web Server for Analysis)

• Software for the assembly of genetic maps
• Sequence Reading Software: Reading Sequence Traces
• Gene Ontology (GO) consortium
• Human Genome Browser Gateway

Microarray Related Sites

• Comparision of Microarray Software
• Microarray Core Facility at University of Pennsylvania  (Links)
• Data munging tools  written by  Charlie Kim
• Analysis tools for DNA-Arrays
• Expression Profiler from EBI
• MicroArray Explorer tool for Data Mining Gene Expression Patterns
• Stanford Microarray Database
• Clustering Software (Cluster, SOMViewer) from Stanford
• BASE (BioArray Software Environment)
• Cleaver 1.0 from Stanford Biomedical Informatics
•  GeneX database and analysis package
• INCLUSive WEb based Cluster analysis
• PAM: Prediction Analysis for Microarrays
• SNOMAD - Standardization and NOrmalization of MicroArray Data
• Software from Eisen Lab
• Microarray Image Processing Software
• SAGEnet: Serial Analysis of Gene Expression
• Microbead Technology for Gene Expression
• HOPGENE Microarray Site
• Molecular Profiling Initiative
• Reed Bussiness Information

BIAcore Resources

• BIAcore Technology
• Information
• Biosensors (BIAcore Training Tools)
• BIAcore Training Tools
• CLAMP Software
• Useful Links from BIACore.com

2-D Gel Electrophoresis Resourecs and Tools

• The 2DWG Meta-Database of 2-D Electrophoretic Gel Images On The Internet
• The Human Myocardial Two-Dimensional Electrophoresis Protein Database
• Useful Links for 2D gel
• Databases of 2D Gel Electrophoresis for various organism
• 2-DE Gel Protein Databases at Harefield
• Technical information on 2-D PAGE
• SWISS-2DPAGE: Two-dimensional polyacrylamide gel electrophoresis database

Immunology Links

General
• Introductory Immunology
• Introduction to Immunology
• HLA frequencies
• Research grade peptide production
• Tumor cell lines
• NIH Tetramers Core Facility
• Immunomics for Tetramer
• Center for drug evaluation and research
• Cancer Evaluation Threapy Program


Prediction Methods
• Links to Imuunological methods, databases (MHC, T epitope, Proteasome Cleavage site)
• BIAMAS: Server for prediction of HLA binding peptides
• SYFPEITHI : Prediction of HLA Motifs
• HLA Ligands
• Paproc: Prediction of Proteasome cleavage site http://www.cbs.dtu.dk/services/NetChop/


Databases in Immunology
• MHCBN: Database of MHC Binders & T cell epitopes
• BCIPep: B cell epitopes
• IMGT: Immunoglobulin, T cell receptor, and MHC sequences from human and other vertebrates
• IMGT/HLA: Polymorphic sequences of human MHC and related genes
• JenPep2:Functional and quantitative thermodynamic data on peptide binding to immunological biomacromolecules
• HIV Epitopes
• Cytokine Gene Polymorphism in Human Disease
• FIMM: FIMM is an integrated database of functional immunology
• SDAP - Structural Database of Allergenic Proteins
• MHCPEP: Databse of MHC binder
• Database for Cancer Immunology
• Tummer specific peptides