|
| Status |
Public on Jun 09, 2023 |
| Title |
Org_16wk Rep2 RNA-seq |
| Sample type |
SRA |
| |
|
| Source name |
iPSC-derived organoid
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: iPSC-derived organoid
differentiation stage: 16wk
genotype: Wild type 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)
Organoids were flash frozen on dry ice, and RNA was harvested using the RNAeasy Micro Kit from Qiagen. Whole transcriptome Illumina TruSeq Stranded Total RNA Library Prep Kit Gold (Illumina) was used for the constuction of libraries
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 |
SAMN14446522 |
| SRA |
SRX7992115 |
