.:institute for computational biomedicine::TEPSS

[ 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.

TEPSS wiki page

[ 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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Apr, 2009; The BDVal program developed by the Campagne laboratory for MAQC-II is now available from http://bdval.org. The software supports the development and evaluation of predictive biomarker models from high-throughput data. The web site offers binary and source distributions. [More]
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