|
Status |
Public on Jun 09, 2023 |
Title |
CXCR4+ / ITGβ1+_BMD_iPS1 RNA-seq |
Sample type |
SRA |
|
|
Source name |
Skeletal Muscle progenitor cells
|
Organism |
Homo sapiens |
Characteristics |
tissue: Skeletal Muscle progenitor cells differentiation stage: 16wk genotype: Duchenne iPSCs line
|
Extracted molecule |
total RNA |
Extraction protocol |
Cultured samples were directly lysis into RLT plus buffer and total RNA were extracted using RNeasy plus Micro Kit (Qiagen) CXCR4+ / ITGβ1+/ DAPI- isolated through FACS sorting from 16 weeks organoids into RLT buffet supplemented with 10uM b-mercaptoethanol and RNA was harvested using the RNAeasy Micro Kit from Qiagen. Whole transcriptome Ovation Solo RNA seq Library Preparation Kit (TECAN, NuGEN) was used for the library preparation. Cultured samples were directly lysis into RLT plus buffer and total RNA were extracted using RNeasy plus Micro Kit (Qiagen) TruSeq Stranded Total RNA kit Gold (Illumina) or Whole transcriptome Ovation Solo RNA seq Library Preparation Kit (TECAN, NuGEN) was used for the library preparation of all samples
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 3000 |
|
|
Data processing |
illumina bcl2fastq (v2.19.1.403) used for basecalling and demultiplexing Tophat (v2.1.1) used for alignment HTSeq-count (v0.6.1) used for transcriptome abundance measurement DESeq2(v1.20.0) used for differential gene expression analyses Genome_build: hg38 Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each sample
|
|
|
Submission date |
Mar 25, 2020 |
Last update date |
Jun 09, 2023 |
Contact name |
Hyun-Woo Jeong |
E-mail(s) |
zionjeong@gmail.com
|
Phone |
+4917631115236
|
Organization name |
Max-Planck-Institute for Molecular Biomedicine
|
Department |
Dept. Tissue Morphogenesis
|
Lab |
Adams
|
Street address |
Roentgenstr.20
|
City |
Muenster |
State/province |
NRW |
ZIP/Postal code |
48149 |
Country |
Germany |
|
|
Platform ID |
GPL21290 |
Series (2) |
GSE147513 |
RNA-Seq analysis of human skeletal muscle organoids |
GSE147514 |
Transcriptome profiling of human skeletal muscle organoids |
|
Relations |
BioSample |
SAMN14446517 |
SRA |
SRX7992119 |