Useful Databases and Tools
Entrez-PubMed: database of literature
Nature
Science
Current Opinion in Lipidology (Curr. Opin. Lipidol.)
The Journal of Biological Chemistry (J. Biol. Chem.)
Journal of Lipid Research (J. Lipid Res.)
Biochimica et Biophysica Acta (Biochim. Biophys. Acta)
Proceedings of the National Academy of Sciences of the United States of America (Proc. Natl. Acad. Sci. USA)
FEBS Letters (FEBS Lett.)
Arteriosclerosis, Thrombosis and Vascular Biology (Arterioscler. Thromb. Vasc. Biol.)
NCBI-GenBank: National Center for Biotechnology Information
EMBL database: European Bioinformatics Institute
DDBJ: DNA databank of Japan
BLAST: at NCBI
PSI-BLAST: at NCBI
FASTA: at EBI
SWISS-PROT & TrEMBL: annotated protein database
PIR: Protein Information Resources
ClustalW: multiple sequence alignment
T-COFFEE: multiple sequence alignment
The USC Sequence Alignment Server: pairwise alignment
Pfam: discover common protein domain by HMM model
PROSITE: database of protein families and domains
SMART: protein domain analysis
Protein Family Databases: introduction of protein families, including ABC superfamily
PDB: database of protein 3D structures
Rasmol: viewer of protein 3D structure
SWISS-MODEL: a fully automated protein structure homology-modeling server
The PredictProtein server: a service for sequence analysis, and structure prediction
Jpred: predict protein secondary structure
PSIPRED: PSIPRED, MEMSAT and GenTHREADER
DALI: compare protein structures in 3D
GeneScan: predicting the locations and exon-intron structures of genes in genomic sequences
GLIMMER: from TIGR
Eukaryotic Promoter Database: an annotated non-redundant collection of eukaryotic POL II promoters
DBTSS: Database of Transcriptional Start Sites
Kimono: for finding regulatory elements in promoter sequences
ATGpr: identifying start codon in cDNA
SignalP: predicts the presence and location of signal peptide cleavage sites in amino acid sequences
Translate Tool: translation of a nucleotide (DNA/RNA) sequence to a protein sequence
Primer3: primer design
MELTING: computing the melting temperature of nucleic acid duplex
Compute pI/Mw Tool: computation of the theoretical pI (isoelectric point) and Mw (molecular weight)
Webcutter: find restriction enzyme sites in DNA sequences
This page is maintained by Tong. Please send your suggestions to tliu@bu.edu Thanks!
Last updated: July 9, 2002.