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Series GSE79920 Query DataSets for GSE79920
Status Public on Jun 30, 2016
Title Single-nucleus RNA-seq on undifferentiated human KD3 myoblasts and differentiated myotubes and mononucleated cells.
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We report the application of single-nucleus-based sequencing technology for high-throughput profiling of transcriptome in immortazalized human myoblast KD3. By obtaining over sixty billion bases of sequence from mRNA, we generated comprehensive transcriptome profiles from KD3 undifferentiated myoblast and differentiated multi-nucleated myotube and mono-nucleated cells. We find that the data from single-nucleus RNA-seq is consistent with the transcriptome from single-cell RNA-seq. The pri-mRNA expression characterized by single-nucleus RNA-seq can reflect the actual miRNA level in the whole cell.
Overall design Examination of transcriptome in 1 cell type in 3 differential stages.
Contributor(s) Zeng W, Jiang S, Yokomori K, Mortazavi A
Citation(s) 27566152
Submission date Apr 04, 2016
Last update date May 15, 2019
Contact name Weihua Zeng
Organization name UCIrvine
Department Dev & Cell Biology
Lab Mortazavi lab
Street address 2300E Bio Sci III
City Irvine
State/province CA
ZIP/Postal code 92697-2300
Country USA
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (254)
GSM2108328 undifferentiated KD3 myoblast single-cell RNA-seq 1
GSM2108329 undifferentiated KD3 myoblast single-cell RNA-seq 2
GSM2108330 undifferentiated KD3 myoblast single-cell RNA-seq 3
BioProject PRJNA317461
SRA SRP072875

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE79920_63_nuclei_merged_TPM.txt.gz 910.1 Kb (ftp)(http) TXT
GSE79920_63_nuclei_merged_TPM_for_lncRNA.txt.gz 984.0 Kb (ftp)(http) TXT
GSE79920_63_nuclei_merged_count.txt.gz 683.8 Kb (ftp)(http) TXT
GSE79920_63_nuclei_merged_count_for_lncRNA.txt.gz 745.7 Kb (ftp)(http) TXT
GSE79920_74_myob_cell_vs_nucleus_merged_TPM_for_lncRNA.txt.gz 1.4 Mb (ftp)(http) TXT
GSE79920_74_myob_cell_vs_nucleus_merged_count_for_lncRNA.txt.gz 1.1 Mb (ftp)(http) TXT
GSE79920_merged_TPM_74_cell_vs_nucleus.txt.gz 1.3 Mb (ftp)(http) TXT
GSE79920_merged_TPM_with_genename_and_pseudocount_with_genetype.txt.gz 4.1 Mb (ftp)(http) TXT
GSE79920_merged_count_74_cell_vs_nucleus.txt.gz 1003.8 Kb (ftp)(http) TXT
GSE79920_merged_count_with_genename_and_pseudocount_with_genetype.txt.gz 3.0 Mb (ftp)(http) TXT
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