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Series GSE235798 Query DataSets for GSE235798
Status Public on Mar 15, 2024
Title Atf4 promotes erythroid differentiation by regulating ribosome biogenesis via RPS19BP1
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary To elucidate the mechanisms underlying the role of Atf4 deficiency in erythropoiesis, we performed 10X Genomics single-cell RNA sequencing on Lin-cKit+ cells from Atf4 hematopoietic cell-specific conditional knockout mice (KO) and Atf4 floxed mice (WT) at steady state (referred to KO_BM and WT_BM) and after secondary transplantation (referred to cKO_t and WT_t). Furthermore, we also sorted CMP cells from Atf4 hematopoietic cell-specific conditional knockout mice (KO) and ATF4 floxed mice (WT) for 10X Genomics scRNA-seq.
Overall design We performed 10X Genomics scRNA-seq of fluorescence-activated cell sorter (FACS)-sorted bone marrow (BM) Lin-cKit+ cells from Atf4 floxed mice (WT) and Mx1cre; Atf4fl/fl (KO) mice at 4 weeks post-deletion. We also enriched Lin-cKit+ cells from the BM of secondary recipient mice for an additional scRNA-seq analysis. In total, we captured 33,237 cells, of which 29,026 passed quality control. To further determine the transcriptional profiles in CMP cells, we performed 10x Genomics scRNA-seq of FACS-sorted CMP cells from WT and KO mice at 4 weeks post-deletion. And 19,706 of 21,914 sequenced CMP cells were kept after quality control.
Contributor(s) Cheng T, Cheng H, Zheng Z, Yang S
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Submission date Jun 26, 2023
Last update date Mar 16, 2024
Contact name chao tang
Organization name Institute of Hematology and Blood Diseases Hospital
Street address 288 Nanjing Road
City Tianjin
State/province Tianjin
ZIP/Postal code 300000
Country China
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (6)
GSM7509774 WT_BM-1
GSM7509775 KO_BM-1
GSM7509776 WT_t-1
BioProject PRJNA987998

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE235798_RAW.tar 813.4 Mb (http)(custom) TAR (of TAR)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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