Genome-wide identification of distinct miRNA-mRNA target regulation pairs in Non-Hodgkin lymphomas: a report from the ICGC MMML-Seq consortium
|Study ID||Alternative Stable ID||Type|
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.
Study Datasets 6 dataset.
Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data
|EGAD00001001468||PAR-CLIP was performed on the Argonaute-2 protein (AGO2) in four lymphoma cell lines:NamalwaRajiSU-DHL-4SU-DHL-6||Illumina HiSeq 2500||4|
|EGAD00001001612||After overexpression and knockdown of both described novel miRs nmiR-1 and nmiR-2 in BL cell lines (SU-DHL4 for nmiR-1 and Raji for nmiR-2), we performed regular RNA-Seq (including Mock controls for all cell lines) to identify their direct and indirect downstream mRNA targets.||Illumina HiSeq 2500||16|
|EGAD00001001619||miRNA seq data of 43 cases out of dataset EGAD00001000650 (MMML)||43|
|EGAD00001001632||miRNA seq data of 13 cases (MMML)||13|
|EGAD00001001672||Part of RNA sequencing data of Malignant Lymphoma Study (ICGC)||Illumina HiSeq 2000||56|
|EGAD00001001673||Part of WGS seq data of Maligant Lymphoma study (ICGC)||Illumina HiSeq 2000 Illumina HiSeq 2500||112|
Who archives the data?
Alterations of microRNA and microRNA-regulated messenger RNA expression in germinal center B-cell lymphomas determined by integrative sequencing analysis.
Haematologica 101:2016 1380-1389