AnaLysis of Expression on human chromosome 21, ALE-HSA21: a pilot integrated web resource (Articolo in rivista)

Type

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

Label

• AnaLysis of Expression on human chromosome 21, ALE-HSA21: a pilot integrated web resource (Articolo in rivista) (literal)

Anno

• 2014-01-01T00:00:00+01:00 (literal)

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

• 10.1093/database/bau009 (literal)

Alternative label

• Scarpato, Margherita; Esposito, Roberta; Evangelista, Daniela; Aprile, Marianna; Ambrosio, Maria Rosaria; Angelini, Claudia; Ciccodicola, Alfredo; Costa, Valerio (2014)
  AnaLysis of Expression on human chromosome 21, ALE-HSA21: a pilot integrated web resource
  in Database (Oxf.)
  (literal)

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

• Scarpato, Margherita; Esposito, Roberta; Evangelista, Daniela; Aprile, Marianna; Ambrosio, Maria Rosaria; Angelini, Claudia; Ciccodicola, Alfredo; Costa, Valerio (literal)

Rivista

• Database (Rivista)

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

• 11 (literal)

Note

• ISI Web of Science (WOS) (literal)

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

• Consiglio Nazionale delle Ricerche (CNR); University of Salerno; Consiglio Nazionale delle Ricerche (CNR); Seconda Universita degli Studi di Napoli (literal)

Titolo

• AnaLysis of Expression on human chromosome 21, ALE-HSA21: a pilot integrated web resource (literal)

Abstract

• Transcriptome studies have shown the pervasive nature of transcription, demonstrating almost all the genes undergo alternative splicing. Accurately annotating all transcripts of a gene is crucial. It is needed to understand the impact of mutations on phenotypes, to shed light on genetic and epigenetic regulation of mRNAs and more generally to widen our knowledge about cell functionality and tissue diversity. RNA-sequencing (RNA-Seq), and the other applications of the next-generation sequencing, provides precious data to improve annotations' accuracy, simultaneously creating issues related to the variety, complexity and the size of produced data. In this 'scenario', the lack of user-friendly resources, easily accessible to researchers with low skills in bioinformatics, makes difficult to retrieve complete information about one or few genes without browsing a jungle of databases. Concordantly, the increasing amount of data from 'omics' technologies imposes to develop integrated databases merging different data formats coming from distinct but complementary sources. In light of these considerations, and given the wide interest in studying Down syndrome-a genetic condition due to the trisomy of human chromosome 21 (HSA21)-we developed an integrated relational database and a web interface, named ALE-HSA21 (AnaLysis of Expression on HSA21), accessible at http://bioinfo.na.iac.cnr.it/ALE-HSA21. This comprehensive and user-friendly web resource integrates-for all coding and noncoding transcripts of chromosome 21-existing gene annotations and transcripts identified de novo through RNA-Seq analysis with predictive computational analysis of regulatory sequences. Given the role of noncoding RNAs and untranslated regions of coding genes in key regulatory mechanisms, ALE-HSA21 is also an interesting web-based platform to investigate such processes. The 'transcript-centric' and easily-accessible nature of ALE-HSA21 makes this resource a valuable tool to rapidly retrieve data at the isoform level, rather than at gene level, useful to investigate any disease, molecular pathway or cell process involving chromosome 21 genes. (literal)

Prodotto di

• Algoritmi Statistici orientati al grid computing per la genetica (INT.P02.004.001) (Modulo)
• Istituto di genetica e biofisica \"Adriano Buzzati Traverso\" (IGB) (Istituto)
• Istituto per le applicazioni del calcolo \"Mauro Picone\" (IAC) (Istituto)
• Plasticità genomica: dal genoma ai sistemi biologici (SV.P13.003.001) (Modulo)

Autore CNR

• ALFREDO CICCODICOLA (Persona)
• CLAUDIA ANGELINI (Unità di personale interno)
• VALERIO COSTA (Unità di personale interno)

Incoming links:

Prodotto

• Istituto per le applicazioni del calcolo \"Mauro Picone\" (IAC) (Istituto)
• Istituto di genetica e biofisica \"Adriano Buzzati Traverso\" (IGB) (Istituto)
• Algoritmi Statistici orientati al grid computing per la genetica (INT.P02.004.001) (Modulo)
• Plasticità genomica: dal genoma ai sistemi biologici (SV.P13.003.001) (Modulo)

Autore CNR di

• CLAUDIA ANGELINI (Unità di personale interno)
• ALFREDO CICCODICOLA (Persona)
• VALERIO COSTA (Unità di personale interno)

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

• Database (Rivista)