Biochemistry 158/258

Genomics, Bioinformatics & Medicine


Doug Brutlag

Bioinformatics Lectures

Bioinformatics Lecture I Slides (PDF)

Bioinformatics Lecture I Video

Bioinformatics Lecture II Slides (PDF)

Bioinformatics Lecture II Video


Annotating Individual Genomes - Torkamani, Scott-Van-Zeeland, Topol and Schork


Web Resources

SwissProt Protein Sequence database



Uniprot Protein Database



Prosite Scan Database


National Center for Biotechnology Information


BLAST Program


Interpro Scan at EBI

Recent Bioinformatics Database References

Literature References from Nucleic Acid Database Issue 2014 

NCBI Databases

EBI Databases

Ensembl 2014

JGI Databases

GenBank Database

InterPro Scan

The UCSC Genome Browser database: 2014 update

RefSeq: an update on mammalian reference sequences

Current status and new features of the Consensus Coding Sequence database

ClinVar: Locus Reference Genomic: reference sequences for the reporting of clinically relevant sequence variants

DDBJ Datbase

UniProt: Activities at the Universal Protein Resource

KEGG: Data, information, knowledge and principle: back to metabolism in KEGG

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases

Pfam: the protein families database

SCOPe: Structural Classification of Proteins—extended, integrating SCOP and ASTRAL data and classification of new structures

SCOP2 prototype: a new approach to protein structure mining

The Catalytic Site Atlas 2.0: cataloging catalytic sites and residues identified in enzymes

Ensembl Genomes 2013: scaling up access to genome-wide data