Study
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 |
---|---|---|
EGAS00001001394 | Other |
Study Description
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 datasets.
Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data
Dataset ID | Description | Technology | Samples |
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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 |
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