xFITOM: a generic GUI tool to search for transcription factor binding sites

Locating transcription factor binding sites in genomic sequences is a key step in deciphering transcription networks. Currently available software for site search is mostly server-based, limiting the range and flexibility of this type of analysis. xFITOM is a fully customizable program for locating...

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Detalles Bibliográficos
Autores principales: Bhargava, Nidhi, Erill, Ivan
Formato: Texto
Lenguaje:English
Publicado: Biomedical Informatics 2010
Materias:
Software
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3039987/
https://www.ncbi.nlm.nih.gov/pubmed/21346861
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author Bhargava, Nidhi
Erill, Ivan
author_facet Bhargava, Nidhi
Erill, Ivan
author_sort Bhargava, Nidhi
collection PubMed
description Locating transcription factor binding sites in genomic sequences is a key step in deciphering transcription networks. Currently available software for site search is mostly server-based, limiting the range and flexibility of this type of analysis. xFITOM is a fully customizable program for locating binding sites in genomic sequences written in C++. Through an easy-to-use interface, xFITOM that allows users an unprecedented degree of flexibility in site search. Among other features,it enables users to define motifs by mixing real sites and IUPAC consensus sequences,to search the annotated sequences of unfinished genomes and to choose among 11 different search algorithms. AVAILABILITY: xFITOM is available for download at: http://research.umbc.edu/˜erill
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spelling pubmed-30399872011-02-23 xFITOM: a generic GUI tool to search for transcription factor binding sites Bhargava, Nidhi Erill, Ivan Bioinformation Software Locating transcription factor binding sites in genomic sequences is a key step in deciphering transcription networks. Currently available software for site search is mostly server-based, limiting the range and flexibility of this type of analysis. xFITOM is a fully customizable program for locating binding sites in genomic sequences written in C++. Through an easy-to-use interface, xFITOM that allows users an unprecedented degree of flexibility in site search. Among other features,it enables users to define motifs by mixing real sites and IUPAC consensus sequences,to search the annotated sequences of unfinished genomes and to choose among 11 different search algorithms. AVAILABILITY: xFITOM is available for download at: http://research.umbc.edu/˜erill Biomedical Informatics 2010-07-06 /pmc/articles/PMC3039987/ /pubmed/21346861 Text en © 2010 Biomedical Informatics This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.
spellingShingle Software
Bhargava, Nidhi
Erill, Ivan
xFITOM: a generic GUI tool to search for transcription factor binding sites
title xFITOM: a generic GUI tool to search for transcription factor binding sites
title_full xFITOM: a generic GUI tool to search for transcription factor binding sites
title_fullStr xFITOM: a generic GUI tool to search for transcription factor binding sites
title_full_unstemmed xFITOM: a generic GUI tool to search for transcription factor binding sites
title_short xFITOM: a generic GUI tool to search for transcription factor binding sites
title_sort xfitom: a generic gui tool to search for transcription factor binding sites
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3039987/
https://www.ncbi.nlm.nih.gov/pubmed/21346861
work_keys_str_mv AT bhargavanidhi xfitomagenericguitooltosearchfortranscriptionfactorbindingsites
AT erillivan xfitomagenericguitooltosearchfortranscriptionfactorbindingsites

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