In the process, MeV automatically annotates the data, loading transcript/gene level annotation from the UCSC or Ensembl databases.
The code is based on the relative positions of the the splice sites, and can be used to automatically annotate the entire set of alternative splicing events in a set of annotated transcripts.
Finally, this expert work was used to update the annotation of GMI1000, which was published in 2002, and to automatically annotate the two other sequenced (but not finished) strains, Molk2 and IPO1609 [ 24].
"A single shot gives you 500 views of a person's hand, plus it automatically annotates the hand position," said researcher Hanbyul Joo.
NCBI Prokaryotic Genomes Automatic Annotation Pipeline PGAAPP) (http://www.ncbi.nlm.nih.gov/genomes/static/Pipeline.html) was used to automatically annotate the draft genomes of Psg.
Gargesha et al. (2005) proposed a technique to automatically annotate the A/P sides of the embryo.
A custom Perl script (kindly provided by Robert Hubley, http://www.systemsbiology.org, Institute for Systems Biology) was used to automatically annotate the matched regions of the TEs in the genome by RepeatMasker in their respective TE superfamilies.
To automatically annotate the masked regions (matches of the TEs in the genome) in their respective TE superfamilies a custom Perl script was used (kindly provided by Robert Hubley - Institute for Systems Biology, http://www.systemsbiology.org/ -).
We train and evaluate the system on a newly introduced corpus that substantially extends on previously available resources, and apply the resulting tagger to automatically annotate the entire open access scientific domain literature.
The putative motif interface map of the human interactome, produced by the iELM method, identified a large number of potentially novel SLiM-mediated interfaces as well as demonstrating the ability of iELM to automatically annotate the edges of interactions within a PPI network.
