Genomics

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Genome-wide identification of distinct miRNA-mRNA target regulation pairs in Non-Hodgkin lymphomas: a report from the ICGC MMML-Seq consortium

ABSTRACT: We obtained miRNA profiles by miRnome sequencing from ICGC MMML-Seq patients diagnosed with Burkitt lymphoma, diffuse large B-cell lymphoma and follicular lymphoma and provide evidence of subtype-specific miRNA expression differences. We describe differentially expressed, mutated, edited and not previously annotated miRNAs. Addditionally, by performing argonaute-2 photoactivatable ribonucleoside-enhanced cross-linking and immunoprecipitation (PAR-CLIP) experiments, we obtained a set of biochemically-validated miRNA binding sites and identified miRNA-mRNA interaction pairs with a negative correlation in patient RNASeq data.

PROVIDER: EGAS00001001394 | EGA |

REPOSITORIES: EGA

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Alterations of microRNA and microRNA-regulated messenger RNA expression in germinal center B-cell lymphomas determined by integrative sequencing analysis.

Hezaveh Kebria K   Kloetgen Andreas A   Bernhart Stephan H SH   Mahapatra Kunal Das KD   Lenze Dido D   Richter Julia J   Haake Andrea A   Bergmann Anke K AK   Brors Benedikt B   Burkhardt Birgit B   Claviez Alexander A   Drexler Hans G HG   Eils Roland R   Haas Siegfried S   Hoffmann Steve S   Karsch Dennis D   Klapper Wolfram W   Kleinheinz Kortine K   Korbel Jan J   Kretzmer Helene H   Kreuz Markus M   Küppers Ralf R   Lawerenz Chris C   Leich Ellen E   Loeffler Markus M   Mantovani-Loeffler Luisa L   López Cristina C   McHardy Alice C AC   Möller Peter P   Rohde Marius M   Rosenstiel Philip P   Rosenwald Andreas A   Schilhabel Markus M   Schlesner Matthias M   Scholz Ingrid I   Stadler Peter F PF   Stilgenbauer Stephan S   Sungalee Stéphanie S   Szczepanowski Monika M   Trümper Lorenz L   Weniger Marc A MA   Siebert Reiner R   Borkhardt Arndt A   Hummel Michael M   Hoell Jessica I JI  

Haematologica 20160706 11

MicroRNA are well-established players in post-transcriptional gene regulation. However, information on the effects of microRNA deregulation mainly relies on bioinformatic prediction of potential targets, whereas proof of the direct physical microRNA/target messenger RNA interaction is mostly lacking. Within the International Cancer Genome Consortium Project "Determining Molecular Mechanisms in Malignant Lymphoma by Sequencing", we performed miRnome sequencing from 16 Burkitt lymphomas, 19 diffus  ...[more]

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