Genomics / Proteomics

NCBI BLAST- Genome analysis

Joint Genomes Institute (JGI)- Many diverse eukaryotic genome sequences

Tree of Life web project- Extensive collection of biodiversity resources

Softberry- Genomic & proteomic resources

ExPASy - Proteomics tools

Wormbase- C. elegans genomic resources

Wormatlas- Extensive database of C. elegans resources

Chlamydomonas Genetics Center- C. reinhardtii genomic resources

Ciliome Database- Collection of various genomic/proteomic resources related to cilia

Bioinformatics

EMBL-EMI- Package of useful DNA and amino acid analyses programs

Sequence Manipulation Suite (SMS)- Another package of useful DNA and amino acid programs

Motif-based sequence analysis tools (MEME)- find conserved motifs in DNA and amino acid sequences

HMMR Hidden Markov- weighted models for sequence analysis

DAVID bioinformatic database- functional annotation and classification

Bioedit- sequence alignment program and editor freeware

MEGA- molecular evolutionary genetics analysis freeware

Cell Biology and Imaging

Image J- Excellent biology imaging freeware (NIH)

Micro-manager- Free open source imaging software

Huygens- High quality blind image deconvolution

Miscellaneous tools

Serial Cloner- Excellent molecular biology cloning tool

Primer 3- Excellent primer design tool

Venn diagram builder- A useful tool for making Venn diagrams

List comparison tool- Allows for a comparison of two data sets