Reverse engineering and analysis of genome-wide gene regulatory networks from gene expression profiles using high-performance computing (Articolo in rivista)

Type

• Articolo in rivista (Classe)
• Prodotto della ricerca (Classe)

Label

• Reverse engineering and analysis of genome-wide gene regulatory networks from gene expression profiles using high-performance computing (Articolo in rivista) (literal)

Anno

• 2012-01-01T00:00:00+01:00 (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#doi

• 10.1109/TCBB.2011.60 (literal)

Alternative label

• Belcastro, Vincenzo; Gregoretti, Francesco; Siciliano, Velia; Santoro, Michele; D'Angelo, Giovanni; Oliva, Gennaro; Di Bernardo, Diego (2012)
  Reverse engineering and analysis of genome-wide gene regulatory networks from gene expression profiles using high-performance computing
  in IEEE/ACM transactions on computational biology and bioinformatics (Print)
  (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#autori

• Belcastro, Vincenzo; Gregoretti, Francesco; Siciliano, Velia; Santoro, Michele; D'Angelo, Giovanni; Oliva, Gennaro; Di Bernardo, Diego (literal)

Pagina inizio

• 668 (literal)

Pagina fine

• 678 (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#url

• http://www.scopus.com/record/display.url?eid=2-s2.0-84859192845&origin=inward (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#numeroVolume

• 9 (literal)

Rivista

• IEEE/ACM transactions on computational biology and bioinformatics (Rivista)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#numeroFascicolo

• 3 (literal)

Note

• Scopu (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#affiliazioni

• Universita degli Studi di Napoli Federico II (literal)

Titolo

• Reverse engineering and analysis of genome-wide gene regulatory networks from gene expression profiles using high-performance computing (literal)

Abstract

• Regulation of gene expression is a carefully regulated phenomenon in the cell. \"Reverse-engineering algorithms try to reconstruct the regulatory interactions among genes from genome-scale measurements of gene expression profiles (microarrays). Mammalian cells express tens of thousands of genes; hence, hundreds of gene expression profiles are necessary in order to have acceptable statistical evidence of interactions between genes. As the number of profiles to be analyzed increases, so do computational costs and memory requirements. In this work, we designed and developed a parallel computing algorithm to reverse-engineer genome-scale gene regulatory networks from thousands of gene expression profiles. The algorithm is based on computing pairwise Mutual Information between each gene-pair. We successfully tested it to reverse engineer the Mus Musculus (mouse) gene regulatory network in liver from gene expression profiles collected from a public repository. A parallel hierarchical clustering algorithm was implemented to discover \"communities within the gene network. Network communities are enriched for genes involved in the same biological functions. The inferred network was used to identify two mitochondrial proteins. © 2006 IEEE. (literal)

Prodotto di

• Metodi, algoritmi e strumenti software innovativi per le Scienze Computazionali (ICT.P09.002.001) (Modulo)
• Institute for high performance computing and networking (ICAR) (Istituto)

Autore CNR

• FRANCESCO GREGORETTI (Unità di personale interno)
• GENNARO OLIVA (Persona)

Insieme di parole chiave

• Parole chiave di "Reverse engineering and analysis of genome-wide gene regulatory networks from gene expression profiles using high-performance computing" (Insieme di parole chiave)

Incoming links:

Prodotto

• Institute for high performance computing and networking (ICAR) (Istituto)
• Metodi, algoritmi e strumenti software innovativi per le Scienze Computazionali (ICT.P09.002.001) (Modulo)

Autore CNR di

• GENNARO OLIVA (Persona)
• FRANCESCO GREGORETTI (Unità di personale interno)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#rivistaDi

• IEEE/ACM transactions on computational biology and bioinformatics (Rivista)

Insieme di parole chiave di

• Parole chiave di "Reverse engineering and analysis of genome-wide gene regulatory networks from gene expression profiles using high-performance computing" (Insieme di parole chiave)