title: Bioinformatics for Novel Long Intergenic Noncoding RNA (lincRNA) Identification in Skeletal Muscle Cells.
abstract: Long intergenic noncoding RNAs (lincRNAs) have emerged as critical participators in gene regulation in myriads of cell types. The development of the whole transcriptome sequencing technology, or RNA-seq , has enabled novel lincRNA detection, but the bioinformatics analysis toward distinguishing reliable ones remains a challenge. Here, we describe the bioinformatics workflow developed for identifying novel lincRNAs step by step, including read alignment, transcriptome assembly and transcript filtering.
authors.affiliation: Department of Chemical Pathology, The Chinese University of Hong Kong, Hong Kong, China.|Li Ka Shing Institute of Health Sciences, The Chinese University of Hong Kong, Hong Kong, China.
authors.forename: Xianlu
authors.initials: X
authors.lastname: Peng
authors.affiliation: Department of Chemical Pathology, The Chinese University of Hong Kong, Hong Kong, China.|Li Ka Shing Institute of Health Sciences, The Chinese University of Hong Kong, Hong Kong, China.
authors.forename: Kun
authors.initials: K
authors.lastname: Sun
authors.affiliation: Department of Chemical Pathology, The Chinese University of Hong Kong, Hong Kong, China.|Li Ka Shing Institute of Health Sciences, The Chinese University of Hong Kong, Hong Kong, China.
authors.forename: Jiajian
authors.initials: J
authors.lastname: Zhou
authors.affiliation: Department of Chemical Pathology, The Chinese University of Hong Kong, Hong Kong, China.|Li Ka Shing Institute of Health Sciences, The Chinese University of Hong Kong, Hong Kong, China.
authors.forename: Hao
authors.initials: H
authors.lastname: Sun
authors.affiliation: Department of Orthopaedics and Traumotology, The Chinese University of Hong Kong, Hong Kong, China. huating.wang@cuhk.edu.hk.|507A, Li Ka Shing Institute of Health Sciences, Prince of Wales Hospital, The Chinese University of Hong Kong, Hong Kong, China. huating.wang@cuhk.edu.hk.
authors.forename: Huating
authors.initials: H
authors.lastname: Wang
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030561:Databases, Nucleic Acid; D020869:Gene Expression Profiling / Q000379:methods*; D023281:Genomics / Q000379:methods; D006801:Humans; D018485:Muscle Fibers, Skeletal / Q000378:metabolism*; D062085:RNA, Long Noncoding; D012984:Software; D059467:Transcriptome; D064878:Web Browser; D057188:Workflow
chemical_list: D062085:RNA, Long Noncoding
keywords: Bioinformatics; RNA-seq; Skeletal muscle cells; lincRNA