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LASAGNA-Search

A user-friendly and an easy-to-use webtool for transcription factor binding site (TFBS) search and visualization. LASAGNA-Search offers collections of 1792 TF models built from either TFBSs or position-specific weight matrices (PWMs), where the TFBSs and PWMs were collected from TRANSFAC, JASPAR, UniPROBE, ORegAnno and PAZAR. To use custom TF models, the tool accepts unaligned variable-length binding sites of a TF as well as TF models in the form of PWMs. Users do not need to be bioinformaticians and can start using the tool immediately. Besides research, LASAGNA-Search 2.0 is well-suited for teaching and class projects at the undergraduate level, where students have limited experience in programming.

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LASAGNA-Search classification

LASAGNA-Search specifications

Interface:
Web user interface
Computer skills:
Basic
Stability:
Stable
Restrictions to use:
None
Version:
2.0
Maintained:
Yes

LASAGNA-Search distribution

LASAGNA-Search support

Maintainer

  • Chih Lee <>

Credits

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Publications

Institution(s)

Department of Computer Science and Engineering, University of Connecticut, Storrs, CT, USA

Funding source(s)

National Science Foundation (grant numbers CCF-0755373, OCI-1156837) (in part)

Link to literature

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