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14243


Cloud-based next-generation sequencing infomatics

Chapter by: Krampis, Konstantinos; Efstathiadis, Efstratios; Brown, Stuart M
in: Next-generation DNA sequencing informatics by Brown, Stuart M [Eds]
Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015
pp. 361-370
ISBN: 1621821234
CID: 1681522

Quality control and data preprocessing

Chapter by: Brown, Stuart M
in: Next-generation DNA sequencing informatics by Brown, Stuart M [Eds]
Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015
pp. 29-46
ISBN: 1621821234
CID: 1681532

Novel Role of miR-33 in Regulating of Mitochondrial Function [Editorial]

Price, Nathan L; Fernandez-Hernando, Carlos
PMCID:4643669
PMID: 26185207
ISSN: 1524-4571
CID: 1675442

The miR-199/DNM regulatory axis controls receptor-mediated endocytosis

Aranda, Juan F; Canfran-Duque, Alberto; Goedeke, Leigh; Suarez, Yajaira; Fernandez-Hernando, Carlos
Small non-coding RNAs (microRNAs) are important regulators of gene expression that modulate many physiological processes, however their role in regulating intracellular transport remains largely unknown. Intriguingly, we found that the dynamin (DNM) genes, a GTPase family of proteins responsible for endocytosis in eukaryotic cells, encode the conserved miR-199a/b family of miRNAs within their intronic sequences. Here, we demonstrate that miR-199a/b regulates endocytic transport by controlling the expression of important mediators of endocytosis such as clathrin heavy chain (CLTC), Rab5A, low-density lipoprotein receptor (LDLR) and caveolin-1 (Cav-1). Importantly, miR-199a/b-5p overexpression markedly inhibits CLTC, Rab5A, LDLR and Cav-1 expression, thus preventing receptor-mediated endocytosis in human cell lines (Huh7 and HeLa). Of note, miR-199a-5p inhibition increases target gene expression and receptor-mediated endocytosis. Altogether, our work identifies a novel mechanism by which miRNAs regulate intracellular trafficking. In particular, we demonstrate that the DNM/miR-199a/b-5p genes act as a bifunctional locus that regulates endocytosis, thus adding an unexpected layer of complexity in the regulation of intracellular trafficking.
PMCID:4582188
PMID: 26163491
ISSN: 1477-9137
CID: 1674992

Introduction to DNA sequencing

Chapter by: Brown, Stuart
in: Next-generation DNA sequencing informatics by Brown, Stuart M [Eds]
Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015
pp. 1-28
ISBN: 1621821234
CID: 1671572

Genome annotation

Chapter by: Shen, Steven; Brown, Stuart
in: Next-generation DNA sequencing informatics by Brown, Stuart M [Eds]
Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015
pp. 169-190
ISBN: 1621821234
CID: 1671622

RNA sequencing with next-generation sequencing

Chapter by: Brown, Stuart; Goecks, Jeremy
in: Next-generation DNA sequencing informatics by Brown, Stuart M [Eds]
Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015
pp. 273-308
ISBN: 1621821234
CID: 1671652

ChIP-seq

Chapter by: Brown, Stuart; Tang, Zuojian; Schweikert, Christina; Hsu, Frank
in: Next-generation DNA sequencing informatics by Brown, Stuart M [Eds]
Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015
pp. 217-272
ISBN: 1621821234
CID: 1671642

Next-generation DNA sequencing informatics

Brown, Stuart M
Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015
Extent: 402 p.
ISBN: 1621821234
CID: 1671562

History of sequencing informatics

Chapter by: Brown, Stuart
in: Next-generation DNA sequencing informatics by Brown, Stuart M [Eds]
Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press, 2015
pp. 47-72
ISBN: 1621821234
CID: 1671592