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DASHR: database of small human noncoding RNAs.

TitleDASHR: database of small human noncoding RNAs.
Publication TypeJournal Article
Year of Publication2016
AuthorsLeung, YYee, Kuksa, PP, Amlie-Wolf, A, Valladares, O, Ungar, LH, Kannan, S, Gregory, BD, San Wang, L-
JournalNucleic Acids Res
Volume44
IssueD1
PaginationD216-22
Date Published2016 Jan 04
ISSN1362-4962
KeywordsDatabases, Nucleic Acid, Humans, Molecular Sequence Annotation, RNA Processing, Post-Transcriptional, RNA, Small Untranslated
Abstract

Small non-coding RNAs (sncRNAs) are highly abundant RNAs, typically <100 nucleotides long, that act as key regulators of diverse cellular processes. Although thousands of sncRNA genes are known to exist in the human genome, no single database provides searchable, unified annotation, and expression information for full sncRNA transcripts and mature RNA products derived from these larger RNAs. Here, we present the Database of small human noncoding RNAs (DASHR). DASHR contains the most comprehensive information to date on human sncRNA genes and mature sncRNA products. DASHR provides a simple user interface for researchers to view sequence and secondary structure, compare expression levels, and evidence of specific processing across all sncRNA genes and mature sncRNA products in various human tissues. DASHR annotation and expression data covers all major classes of sncRNAs including microRNAs (miRNAs), Piwi-interacting (piRNAs), small nuclear, nucleolar, cytoplasmic (sn-, sno-, scRNAs, respectively), transfer (tRNAs), and ribosomal RNAs (rRNAs). Currently, DASHR (v1.0) integrates 187 smRNA high-throughput sequencing (smRNA-seq) datasets with over 2.5 billion reads and annotation data from multiple public sources. DASHR contains annotations for ∼ 48,000 human sncRNA genes and mature sncRNA products, 82% of which are expressed in one or more of the curated tissues. DASHR is available at http://lisanwanglab.org/DASHR.

DOI10.1093/nar/gkv1188
Alternate JournalNucleic Acids Res.
PubMed ID26553799
PubMed Central IDPMC4702848
Grant ListU01-AG032984 / AG / NIA NIH HHS / United States
R01-GM099962 / GM / NIGMS NIH HHS / United States
R01 GM099962 / GM / NIGMS NIH HHS / United States
U01 AG032984 / AG / NIA NIH HHS / United States
T32 AG000255 / AG / NIA NIH HHS / United States
U24-AG041689 / AG / NIA NIH HHS / United States