X-inactivation: quantitative predictions of protein interactions in the Xist network | Zendy

Federico Agostini | Zendy; Davide Cirillo | Zendy; Benedetta Bolognesi | Zendy; Gian Gaetano Tartaglia | Zendy

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X-inactivation: quantitative predictions of protein interactions in the Xist network

Author(s) -

Federico Agostini,

Davide Cirillo,

Benedetta Bolognesi,

Gian Gaetano Tartaglia

Publication year - 2012

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gks968

Subject(s) - xist , biology , x inactivation , epigenetics , rna splicing , ribonucleoprotein , genetics , gene silencing , transcription (linguistics) , rna binding protein , rna , computational biology , x chromosome , gene , linguistics , philosophy

The transcriptional silencing of one of the female X-chromosomes is a finely regulated process that requires accumulation in cis of the long non-coding RNA X-inactive-specific transcript (Xist) followed by a series of epigenetic modifications. Little is known about the molecular machinery regulating initiation and maintenance of chromosomal silencing. Here, we introduce a new version of our algorithm catRAPID to investigate Xist associations with a number of proteins involved in epigenetic regulation, nuclear scaffolding, transcription and splicing processes. Our method correctly identifies binding regions and affinities of protein interactions, providing a powerful theoretical framework for the study of X-chromosome inactivation and other events mediated by ribonucleoprotein associations.Funding for open access charge: Spanish Ministry of Economy and Competitiveness [SAF2011-26211

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