title: Deep sequencing of the small RNA transcriptome of normal and malignant human B cells identifies hundreds of novel microRNAs.
abstract: A role for microRNA (miRNA) has been recognized in nearly every biologic system examined thus far. A complete delineation of their role must be preceded by the identification of all miRNAs present in any system. We elucidated the complete small RNA transcriptome of normal and malignant B cells through deep sequencing of 31 normal and malignant human B-cell samples that comprise the spectrum of B-cell differentiation and common malignant phenotypes. We identified the expression of 333 known miRNAs, which is more than twice the number previously recognized in any tissue type. We further identified the expression of 286 candidate novel miRNAs in normal and malignant B cells. These miRNAs were validated at a high rate (92%) using quantitative polymerase chain reaction, and we demonstrated their application in the distinction of clinically relevant subgroups of lymphoma. We further demonstrated that a novel miRNA cluster, previously annotated as a hypothetical gene LOC100130622, contains 6 novel miRNAs that regulate the transforming growth factor-β pathway. Thus, our work suggests that more than a third of the miRNAs present in most cellular types are currently unknown and that these miRNAs may regulate important cellular functions.
authors: Duke Institute for Genome Sciences and Policy, Duke University, Durham, NC, USA.
authors: Dereje D
authors: DD
authors: Jima
authors: Jenny
authors: J
authors: Zhang
authors: Cassandra
authors: C
authors: Jacobs
authors: Kristy L
authors: KL
authors: Richards
authors: Cherie H
authors: CH
authors: Dunphy
authors: William W L
authors: WW
authors: Choi
authors: Wing Yan
authors: WY
authors: Au
authors: Gopesh
authors: G
authors: Srivastava
authors: Magdalena B
authors: MB
authors: Czader
authors: David A
authors: DA
authors: Rizzieri
authors: Anand S
authors: AS
authors: Lagoo
authors: Patricia L
authors: PL
authors: Lugar
authors: Karen P
authors: KP
authors: Mann
authors: Christopher R
authors: CR
authors: Flowers
authors: Leon
authors: L
authors: Bernal-Mizrachi
authors: Kikkeri N
authors: KN
authors: Naresh
authors: Andrew M
authors: AM
authors: Evens
authors: Leo I
authors: LI
authors: Gordon
authors: Micah
authors: M
authors: Luftig
authors: Daphne R
authors: DR
authors: Friedman
authors: J Brice
authors: JB
authors: Weinberg
authors: Michael A
authors: MA
authors: Thompson
authors: Javed I
authors: JI
authors: Gill
authors: Qingquan
authors: Q
authors: Liu
authors: Tam
authors: T
authors: How
authors: Vladimir
authors: V
authors: Grubor
authors: Yuan
authors: Y
authors: Gao
authors: Amee
authors: A
authors: Patel
authors: Han
authors: H
authors: Wu
authors: Jun
authors: J
authors: Zhu
authors: Gerard C
authors: GC
authors: Blobe
authors: Peter E
authors: PE
authors: Lipsky
authors: Amy
authors: A
authors: Chadburn
authors: Sandeep S
authors: SS
authors: Dave
mesh_terms: D001402:B-Lymphocytes; D001483:Base Sequence; D047369:Chromatin Immunoprecipitation; D020869:Gene Expression Profiling / Q000379:methods*; D015723:Gene Library; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D016403:Lymphoma, Large B-Cell, Diffuse / Q000235:genetics*; D035683:MicroRNAs / Q000032:analysis / Q000235:genetics*; D008969:Molecular Sequence Data; D020133:Reverse Transcriptase Polymerase Chain Reaction; D017423:Sequence Analysis, RNA
chemical_list: D035683:MicroRNAs