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Series GSE148218 Query DataSets for GSE148218
Status Public on Oct 30, 2020
Title Single cell characterization of arrested B-lymphoid differentiation and leukemic cell states in ETV6-RUNX1-positive pediatric leukemia
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Arrested bone marrow (BM) lymphoid cell differentiation underlies the emergence of the most common childhood cancer, acute lymphoblastic leukemia (ALL). Recurrent genetic lesions often directly involve transcription factors (TFs), such as ETV6 and RUNX1 found in the most common ALL translocation. Here, we studied differential gene expression in ETV6-RUNX1 primary ALL samples and the REH cell line using single cell RNA-seq (scRNA-seq).
Submitter declares that the raw data will be deposited in EGA due to patient privacy concerns.
The raw data can be accessed at
Overall design Primary patient samples from diagnosis (N=6 BM samples, subtype ETV6-RUNX1, 4000-8000 cells per donor) with day 15 post-treatment sample collected from two cases. Cell line experiment in REH comparing two drugs targeting ETS-factors (TK216 ERG/FLI1 and XRP44X ELK3) at 72 h (N=1, 900-2500 cells per treatment).
Contributor(s) Mehtonen J, Teppo S, Lahnalampi M, Kokko A, Kaukonen R, Oksa L, Laukkanen S, Bouvy-Liivrand M, Lönnberg T, Lohi O, Heinäniemi M
Citation(s) 33218352
Submission date Apr 07, 2020
Last update date Nov 18, 2023
Contact name Merja Heinäniemi
Organization name University of Eastern Finland
Department School of Medicine
Street address Yliopistonranta 1 E
City Kuopio
ZIP/Postal code 70211
Country Finland
Platforms (4)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
GPL21697 NextSeq 550 (Homo sapiens)
Samples (15)
GSM4456251 ALL1
GSM4456252 ALL3
GSM4456253 ALL8
BioProject PRJNA623525
SRA SRP284002

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE148218_RAW.tar 597.2 Mb (http)(custom) TAR (of BIGWIG, MTX, TSV)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data not provided for this record
Raw data are available in SRA

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