RNAmmer is software for predicting ribosomal RNA in full gene sequences.
TMHMM is software for the prediction of transmembrane helices in proteins.
To use this program at MSI, please send a a request to email@example.com and ask to be added to the TMHMM group. The use of TMHMM at MSI is limited to academic researchers.
SignalP4 is software for predicting the presence and location of signal peptide cleavage sites in amino acid sequences in different organisms.
GeneMark is the name of a set of gene prediction programs developed at the Georgia Institure of Technology. Genemark-ET is a member of this set of software for semi-supervised analysis of novel genomes.
To use this program at MSI, please send a a request to firstname.lastname@example.org and ask to be added to the GeneMark group. The use of GeneMark at MSI is limited to academic researchers.
USEARCH is a unique sequence analysis tool with thousands of users world-wide. USEARCH offers search and clustering algorithms that are often orders of magnitude faster than BLAST.
Ingenuity Pathways Analysis (IPA) is a software and database search tool for finding functions and pathways for specific biological states. It is a web-delivered application that makes use of the Ingenuity Pathways Knowledge Base, a currated database consisting of millions of individually modeled relationships between proteins, genes, complexes, cells, tissues, drugs, and diseases. It currently has data for humans, rats, and mice.
MacVector is a sequence analysis software for Macintosh computers. It provides sequence editing, primer design, Internet database searches, protein analysis, sequence confirmation, contig assembly capabilities, multiple sequence alignment, phylogenetic reconstruction, coding region analysis, and a wide variety of other functions.
Notice to users:
Though still available for access MacVector will no longer be updated after 10/2014.