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Leucegene: AML sequencing (part 1)

UID: 10891

Author(s): Simon, Camille, Chagraoui, Jalila, Krosl, Jana, Gendron, Patrick, Wilhelm, Brian, Lemieux, Sébastien, Boucher, Geneviève, Chagnon, Pierre, Drouin, Simon, Lambert, Raphaëlle, Rondeau, Claude, Bilodeau, Annie, Lavallée, Sylvie, Sauvageau, Martin, Hébert, Josée, Sauvageau. Guy* * MSK affiliated

Description
Summary from GEO:

"RNA sequencing of human leukemia."

Overall design from GEO:

"The goals of this project are to obtain a comprehensive study of mutations and gene expression in human acute myeloid leukemia (AML). Methods: AML cells were thawed. DNA and RNA (polyA) was extracted and sequences were obtained with an Illumina HiSeq 2000 sequencer."

Project website: https://data.leucegene.iric.ca/
Subject of Study
Homo sapiens
Subject(s)
Gene Expression
Leukemia, Myeloid, Acute
Sequence Analysis, RNA
OncoTree Cancer Type(s)
Acute Myeloid Leukemia
Access via GEO


Accession #: GSE49642

Access via BioProject


Accession #: PRJNA214592

Access via SRA


Accession #: SRP028594

Access Restrictions
Free to All
Access Instructions
The NCBI Gene Expression Omnibus, BioProject, and SRA databases provides open access to these files.
Associated Publications
North K, Benbarche S, Liu B, Pangallo J, Chen S, Stahl M, Bewersdorf J, Stanley R, Erickson C, Cho H, Pineda J, Thomas J, Polaski J, Belleville A, Gabel A, Udy D, Humbert O, Kiem H, Abdel-Wahab O, Bradley R. Synthetic introns enable splicing factor mutation-dependent targeting of cancer cells. Nature Biotechnology. 2022; 40(7):1103-1113.
Macrae T, Sargeant T, Lemieux S, Hébert J, Deneault E, Sauvageau G. RNA-Seq reveals spliceosome and proteasome genes as most consistent transcripts in human cancer cells. PLoS One. 2013 Sep 17;8(9):e72884. PMID: 24069164; PMCID: PMC3775772.
Pabst C, Bergeron A, Lavallée VP, Yeh J, Gendron P, Norddahl GL, Krosl J, Boivin I, Deneault E, Simard J, Imren S, Boucher G, Eppert K, Herold T, Bohlander SK, Humphries K, Lemieux S, Hébert J, Sauvageau G, Barabé F. GPR56 identifies primary human acute myeloid leukemia cells with high repopulating potential in vivo. Blood. 2016 Apr 21;127(16):2018-27. Epub 2016 Feb 1. PMID: 26834243.
Lavallée VP, Lemieux S, Boucher G, Gendron P, Boivin I, Armstrong RN, Sauvageau G, Hébert J. RNA-sequencing analysis of core binding factor AML identifies recurrent ZBTB7A mutations and defines RUNX1-CBFA2T3 fusion signature. Blood. 2016 May 19;127(20):2498-501. Epub 2016 Mar 11. PMID: 26968532.
Equipment Used
Illumina HiSeq 2000

High throughput gene sequencing system

Dataset Format(s)
TAR, TXT
Dataset Size
17.9 MB
Data Catalog Record Updated
2023-10-06