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Series GSE142645 Query DataSets for GSE142645
Status Public on Jan 30, 2023
Title Single-cell transcriptome analyses reveal critical roles of RNA splicing during leukemia progression
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Firstly, we extracted bone marrow cells from AML mouse models in four different timepoints (T0, T1, T2 and T3). And we used droplet-based single cell RNA sequencing technology to reveal the early-MDS, late-MDS, MDS-AML and AML four-stage landscape in a mouse AML model initiated by Myc overexpression. Also, we extracted one AML patient bone marrow sample to sequence by constructing library following 10X genomics platform. And integrated this data with four AML patients data from 10X genomics database to explain the molecular mechanism of splicing events of TMEM134 in AML. To verify the alternative splicing results, we used smartseq2 to construct the single cell library in T3. And combined TCGA-LAML and TARGET-AML database and our mouse function data, we identify the alternative splicing events of TMEM134 could drive the proliferation function in acute myelogenous leukemogenesis.
Overall design Single cell RNA sequencing (scRNA-seq) in leukemogenesis
Contributor(s) Pan X, Chen X, Wu B, Wang J, Li S, Chen C, Liu Y
Citation(s) 37130348
Submission date Dec 27, 2019
Last update date Aug 07, 2023
Contact name Xaingyu Pan
Organization name Sichuan University
Department State Key Laboratory of Biotherapy, West China Hospital, Sihcuan University.
Lab Chen & Liu Lab
Street address No.17 Renming road section3
City Chengdu, Cihna
State/province Sichuan
ZIP/Postal code 610041
Country China
Platforms (3)
GPL21273 HiSeq X Ten (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (195)
GSM4233515 Smartseq2_cells_1_Bone_Marrow_AML
GSM4233516 Smartseq2_cells_2_Bone_Marrow_AML
GSM4233517 Smartseq2_cells_3_Bone_Marrow_AML
BioProject PRJNA597853
SRA SRP238888

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Supplementary file Size Download File type/resource
GSE142645_AML_VS_Normal_count_and_DESeq2Normalised_anno.csv.gz 3.1 Mb (ftp)(http) CSV
GSE142645_AML_VS_Normal_rMATS_results.csv.gz 6.6 Mb (ftp)(http) CSV
GSE142645_hsa_10X_scRNA_Landscape_of_leukemogenesis_all.rds.gz 852.2 Mb (ftp)(http) RDS
GSE142645_hsa_10X_scRNA_Landscape_of_leukemogenesis_all_counts.csv.gz 25.6 Mb (ftp)(http) CSV
GSE142645_mmu_10X_scRNA_Landscape_of_Malignant_all.rds.gz 1.5 Gb (ftp)(http) RDS
GSE142645_mmu_10X_scRNA_Landscape_of_Malignant_all_counts.csv.gz 34.6 Mb (ftp)(http) CSV
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis.rds.gz 2.6 Gb (ftp)(http) RDS
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_Malignant_at_T3.rds.gz 192.1 Mb (ftp)(http) RDS
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_Malignant_at_T3_counts.csv.gz 18.3 Mb (ftp)(http) CSV
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_PLC.rds.gz 1.3 Gb (ftp)(http) RDS
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_PLC_counts.csv.gz 56.0 Mb (ftp)(http) CSV
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_all.rds.gz 2.1 Gb (ftp)(http) RDS
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_all_counts.csv.gz 84.1 Mb (ftp)(http) CSV
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_all_unspliced.rds.gz 68.5 Mb (ftp)(http) RDS
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_counts.csv.gz 107.6 Mb (ftp)(http) CSV
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_tipping_point.rds.gz 101.0 Mb (ftp)(http) RDS
GSE142645_mmu_10X_scRNA_Landscape_of_leukemogenesis_tipping_point_counts.csv.gz 4.1 Mb (ftp)(http) CSV
GSE142645_mmu_smartseq2_scRNA_Landscape_of_leukemogenesis.rds.gz 52.0 Mb (ftp)(http) RDS
GSE142645_mmu_smartseq2_scRNA_Landscape_of_leukemogenesis_counts.csv.gz 11.9 Mb (ftp)(http) CSV
GSE142645_mmu_smartseq2_scRNA_Landscape_of_leukemogenesis_unspliced.rds.gz 2.3 Mb (ftp)(http) RDS
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