RNA sequencing of high hyperdiploid and ETV6/RUNX1-positive pediatric acute lymphoblastic leukemia

We performed RNA-sequencing of high hyperdiploid and ETV6/RUNX1-positive ALL cases by using the Human Ribo-Zero rRNA Removal Kit to investigate the gene expression in high hyperdiploid ALL.

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

1 Dataset 2 Publications

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
EGAD00001004176	RNA-sequencing data of pediatric B-cell precursor acute lymphoblastic leukemia, including 18 high hyperdiploid cases and 9 ETV6/RUNX1-positive cases. Sequencing libraries were constructed using the Human Ribo-Zero rRNA Removal Kit (Illumina, San Diego, CA) and sequenced on an Illumina NextSeq 500. RNA sequencing data were processed using the TCGA mRNA-seq pipeline (https://docs.gdc.cancer.gov/Data/Bioinformatics_Pipelines/Expression_mRNA_Pipeline/#mrna-analysis-pipeline).	NextSeq 500	27

Publications	Citations
Proteogenomics and Hi-C reveal transcriptional dysregulation in high hyperdiploid childhood acute lymphoblastic leukemia. Yang M, Vesterlund M, Siavelis I, Moura-Castro LH, Castor A, Fioretos T, Jafari R, Lilljebjörn H, Odom DT, Olsson L, Ravi N, Woodward EL, Harewood L, Lehtiö J, Paulsson K. Nat Commun 10: 2019 1519	49
A SIRT7-dependent acetylation switch regulates early B cell differentiation and lineage commitment through Pax5. Gamez-Garcia A, Espinosa-Alcantud M, Bueno-Costa A, Alari-Pahissa E, Marazuela-Duque A, Thackray JK, Ray C, Berenguer C, Kumari P, Bech JJ, Braun T, Ianni A, Tischfield JA, Serrano L, Esteller M, Sardina JL, De La Torre C, Sigvardsson M, Vazquez BN, Vaquero A. Nat Immunol 25: 2024 2308-2319	1

Publications

Citations

Proteogenomics and Hi-C reveal transcriptional dysregulation in high hyperdiploid childhood acute lymphoblastic leukemia.
Yang M, Vesterlund M, Siavelis I, Moura-Castro LH, Castor A, Fioretos T, Jafari R, Lilljebjörn H, Odom DT, Olsson L, Ravi N, Woodward EL, Harewood L, Lehtiö J, Paulsson K. Nat Commun 10: 2019 1519

A SIRT7-dependent acetylation switch regulates early B cell differentiation and lineage commitment through Pax5.
Gamez-Garcia A, Espinosa-Alcantud M, Bueno-Costa A, Alari-Pahissa E, Marazuela-Duque A, Thackray JK, Ray C, Berenguer C, Kumari P, Bech JJ, Braun T, Ianni A, Tischfield JA, Serrano L, Esteller M, Sardina JL, De La Torre C, Sigvardsson M, Vazquez BN, Vaquero A. Nat Immunol 25: 2024 2308-2319