Leitmotif: protein motif scanning 2.0

Biđin, Siniša; Vujaklija, Ivan; Paradžik, Tina; Bielen, Ana; Vujaklija, Dušica (2020) Leitmotif: protein motif scanning 2.0. Bioinformatics, 36 (11). pp. 3566-3567. ISSN 1367-4803

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Abstract

Motivation Motif-HMM (mHMM) scanning has been shown to possess unique advantages over standardly used sequence-profile search methods (e.g. HMMER, PSI-BLAST) since it is particularly well-suited to discriminate proteins with variations inside conserved motifs (e.g. family subtypes) or motifs lacking essential residues (false positives, e.g. pseudoenzymes). Results In order to make mHMM widely accessible to a broader scientific community, we developed Leitmotif, an mHMM web application with many parametrization options easily accessible through intuitive interface. Substantial improvement of performance (ROC scores) was obtained by using two novel parameters. To the best of our knowledge, Leitmotif is the only available mHMM application

Item Type:	Article
Uncontrolled Keywords:	Leitmotif server ; protein motif scanning
Subjects:	NATURAL SCIENCES > Biology
Divisions:	Division of Physical Chemistry
Projects:	Project title Project leader Project code Project type Bioprospecting Jadranskog mora Čož-Rakovac, Rozelinda; Dragović-Uzelac, Verica; Šantek, Božidar; Jokić, Stela; Jerković, Igor; Kraljević Pavelić, Sandra KK.01.1.1.01.0002 EK
Depositing User:	Kristina Ciglar
Date Deposited:	08 Dec 2021 13:52
URI:	http://fulir.irb.hr/id/eprint/6803
DOI:	10.1093/bioinformatics/btaa133

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