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 | [ description ] |
TEPSS (Tissue Expression Profile Similarity Searches) is an extension of
TissueInfo
which can be used to
scan genomes for transcripts that have similar expression to a query transcript.
We evaluated TEPSS for its ability to discriminate
between pairs of transcripts coding for interacting proteins and
non-interacting pairs. We found that ordering protein-protein pairs by
TEPSS score produces sets significantly enriched in reported pairs of
interacting proteins (interacting versus non-interacting pairs,
OR=157.57, 95% CI [36.81-375.51] at 1% coverage, employing a large
dataset of about 50,000 human protein interactions).
The enrichment is still significant at 50% coverage (OR=4.73
95% CI [3.24-6.90]).
Since the approach does not use sequence
similarity, we expect that TEPSS will be useful for various gene
discovery applications.
| [ documentation ] |
Visit the TEPSS wiki page for more information about the approach.
 | [ availability ] |
TEPSS source code is available from the [TEPSS wiki page].
Counts data from the latest release of Ensembl are available from [here]. Please read the README.
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March, 2012; Michelle Sahai, Ph.D., a Postdoctoral Associate in Harel Weinstein's lab, was awarded a three year Canadian Institutes of Health Research (CIHR) Fellowship for her research on Molecular Mechanisms of the Dopamine Transporter Function: The effects of drugs of abuse.
Feb, 2012; Sayan Mondal, a student in Harel Weinstein's lab, won the Student Research Achievement Award at the Biophysical Society's 2012 Annual Meeting for his poster on the interaction of GPCRs with the membrane.
Jan, 2012; Jan Dlabal, a student from the Lycée Français de New York, was selected as a semi-finalist in the 2012 Intel Science Talent Search, for work on the determination of large-scale genomic structure performed in the lab of Olivier Elemento.
Oct, 2011; Sheila Nirenberg presented a talk, "Can we speak the language of the brain?", at the TEDMED 2011 conference.
A Q & A session followed.
Nov, 2011; GobyWeb binary release. The Campagne laboratory has just released a binary distribution of GobyWeb. This first public release of GobyWeb makes it possible to install the tool locally for non-commercial use. Detailled installation instructions are available on the download page.
Apr, 2011; Dr. Olivier Elemento was awarded an NSF CAREER Grant, the National Science Foundation's most prestigious award in support of junior faculty who exemplify the role of teacher-scholars through outstanding research, excellent education and the integration of education and research.
Nov, 2010; Dr. Sheila Nirenberg's work on artificial retinas has been featured in Technology Review, Wired, Scientific American, and the New Scientist.
Jul, 2009; ChIPseeqer, a comprehensive framework for analysis of ChIP-seq data developed in the Elemento lab, is now available for download. [More]
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