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Series GSE146221 Query DataSets for GSE146221
Status Public on Apr 11, 2020
Title Single cell transcriptomics of Ewing Sarcoma cell lines
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We report single cell gene expression profiles for Ewing Sarcoma cell lines CHLA9, CHLA10, and TC71. Cell lines were harvested and prepared as single cell suspensions with high viability. Library prep was performed with the 10X Genomics v3.1 3' kit. All samples were sequenced on the illumina HiSeq 3000 with a 28+8+100 configuration. CHLA9 and CHLA10 libraries were re-sequenced on the Illumina NovaSeq with a 28+8+91 configuration. Counts were processed with cellranger v3.1.0. Both the raw data and the cellranger output are provded.
Overall design 10X Genomics single cell RNA-Seq (scRNA-Seq) of Ewing Sarcoma cell lines CHLA9, CHLA10, and TC71
Contributor(s) Bassani N, Miller HE, Bishop AJ
Citation(s) 32290418
Miller, H.E.; Gorthi, A.; Bassani, N.; Lawrence, L.A.; Iskra, B.S.; Bishop, A.J.R. Reconstruction of Ewing Sarcoma Developmental Context from Mass-Scale Transcriptomics Reveals Characteristics of EWSR1-FLI1 Permissibility. Cancers 2020, 12, 948. doi:10.3390/cancers12040948
Submission date Mar 02, 2020
Last update date May 26, 2020
Contact name Henry Miller
Organization name UT Health San Antonio
Department Cell Systems and Anatomy
Lab Alexander Bishop Laboratory
Street address 8403 Floyd Curl Drive
City San Antonio
State/province TX
ZIP/Postal code 78229
Country USA
Platforms (2)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (3)
GSM4368462 CHLA9 scRNA-Seq
GSM4368463 CHLA10 scRNA-Seq
GSM4368464 TC71 scRNA-Seq
BioProject PRJNA609725
SRA SRP251276

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Supplementary file Size Download File type/resource
GSE146221_RAW.tar 280.6 Mb (http)(custom) TAR (of MTX, TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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