The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates

We have developed several new methods to investigate transcriptional motifs in vertebrates. We developed a specific alignment tool appropriate for regions involved in transcription control, and exhaustively enumerated all possible 12-mers for involvement in transcription by virtue of their mammalian...

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Detalles Bibliográficos
Autores principales: Ettwiller, Laurence, Paten, Benedict, Souren, Marcel, Loosli, Felix, Wittbrodt, Jochen, Birney, Ewan
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2005
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1414082/
https://www.ncbi.nlm.nih.gov/pubmed/16356267
http://dx.doi.org/10.1186/gb-2005-6-12-r104
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author Ettwiller, Laurence
Paten, Benedict
Souren, Marcel
Loosli, Felix
Wittbrodt, Jochen
Birney, Ewan
author_facet Ettwiller, Laurence
Paten, Benedict
Souren, Marcel
Loosli, Felix
Wittbrodt, Jochen
Birney, Ewan
author_sort Ettwiller, Laurence
collection PubMed
description We have developed several new methods to investigate transcriptional motifs in vertebrates. We developed a specific alignment tool appropriate for regions involved in transcription control, and exhaustively enumerated all possible 12-mers for involvement in transcription by virtue of their mammalian conservation. We then used deeper comparative analysis across vertebrates to identify the active instances of these motifs. We have shown experimentally in Medaka fish that a subset of these predictions is involved in transcription.
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spelling pubmed-14140822006-03-28 The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates Ettwiller, Laurence Paten, Benedict Souren, Marcel Loosli, Felix Wittbrodt, Jochen Birney, Ewan Genome Biol Method We have developed several new methods to investigate transcriptional motifs in vertebrates. We developed a specific alignment tool appropriate for regions involved in transcription control, and exhaustively enumerated all possible 12-mers for involvement in transcription by virtue of their mammalian conservation. We then used deeper comparative analysis across vertebrates to identify the active instances of these motifs. We have shown experimentally in Medaka fish that a subset of these predictions is involved in transcription. BioMed Central 2005 2005-12-02 /pmc/articles/PMC1414082/ /pubmed/16356267 http://dx.doi.org/10.1186/gb-2005-6-12-r104 Text en Copyright © 2005 Ettwiller et al.; licensee BioMed Central Ltd.
spellingShingle Method
Ettwiller, Laurence
Paten, Benedict
Souren, Marcel
Loosli, Felix
Wittbrodt, Jochen
Birney, Ewan
The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
title The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
title_full The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
title_fullStr The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
title_full_unstemmed The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
title_short The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
title_sort discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1414082/
https://www.ncbi.nlm.nih.gov/pubmed/16356267
http://dx.doi.org/10.1186/gb-2005-6-12-r104
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