title: Analysis RNA-seq and Noncoding RNA.
abstract: RNA-Seq is an approach to transcriptome profiling that uses deep-sequencing technologies to detect and accurately quantify RNA molecules originating from a genome at a given moment in time. In recent years, the advent of RNA-Seq has facilitated genome-wide expression profiling, including the identification of novel and rare transcripts like noncoding RNAs and novel alternative splicing isoforms.Here, we describe the analytical steps required for the identification and characterization of noncoding RNAs starting from RNA-Seq raw samples, with a particular emphasis on long noncoding RNAs (lncRNAs).
authors.affiliation: Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', Via F. Sforza 35, 20122, Milan, Italy.
authors.forename: Alberto
authors.initials: A
authors.lastname: Arrigoni
authors.affiliation: Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', Via F. Sforza 35, 20122, Milan, Italy.
authors.forename: Valeria
authors.initials: V
authors.lastname: Ranzani
authors.affiliation: Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', Via F. Sforza 35, 20122, Milan, Italy.
authors.forename: Grazisa
authors.initials: G
authors.lastname: Rossetti
authors.affiliation: Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', Via F. Sforza 35, 20122, Milan, Italy.
authors.forename: Ilaria
authors.initials: I
authors.lastname: Panzeri
authors.affiliation: Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', Via F. Sforza 35, 20122, Milan, Italy.|Department of Clinical Sciences and Community Health, Università degli Studi di Milano, Via Festa del Perdono 7, 20122, Milan, Italy.
authors.forename: Sergio
authors.initials: S
authors.lastname: Abrignani
authors.affiliation: Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', Via F. Sforza 35, 20122, Milan, Italy. bonnal@ingm.org.
authors.forename: Raoul J P
authors.initials: RJ
authors.lastname: Bonnal
authors.affiliation: Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', Via F. Sforza 35, 20122, Milan, Italy. pagani@ingm.org.|Department of Medical Biotechnology and Translational Medicine, Università degli Studi di Milano, Via Festa del Perdono 7, 20122, Milan, Italy. pagani@ingm.org.
authors.forename: Massimiliano
authors.initials: M
authors.lastname: Pagani
mesh_terms: D017398:Alternative Splicing / Q000235:genetics; D020869:Gene Expression Profiling / Q000379:methods*; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D062085:RNA, Long Noncoding / Q000235:genetics / Q000302:isolation & purification*; D022661:RNA, Untranslated / Q000235:genetics / Q000302:isolation & purification*; D059467:Transcriptome / Q000235:genetics
chemical_list: D062085:RNA, Long Noncoding; D022661:RNA, Untranslated
keywords: Bioinformatics; RNA-seq; lncRNAs