|
| Status |
Public on Sep 27, 2016 |
| Title |
4_Fresh_W17_3_p0_S9 |
| Sample type |
SRA |
| |
|
| Source name |
Fetal limb muscle
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Fetal limb muscle
cell status: directly isolated fetal muscle stem cell
age: human week 17
rna collection post facs: 5 days expansion and 7 days differentiation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Qiagen's Rneasy Micro Kit.
RNA-Seq libraries were constructed with Roche's KAPA Stranded RNA-Seq Library Preparation Kit, using standard protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
processed data file: gene_exp_diff_fc_yes_reg_Fetal_stem_cells_and_FACS_sort_vs_Fetal_stem_cells.xls
|
| Data processing |
Illumina Casava software used for basecalling.
Reads were aligned to hg19 genome using TopHat v2.0.8 with parameters -G (using Ensembl GRCh37 GTF) and --no-novel-juncs.
Transcripts were assembled using Cufflinks v2..1. Cuffdiff was used to compare samples, using Ensembl GRCh37 GTF
Genome_build: hg19
Supplementary_files_format_and_content: Excel Cuffdif result files include FPKM values for each Sample, as well as q-value and fold change.
|
| |
|
| Submission date |
Sep 26, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Ascia Eskin |
| Organization name |
UCLA
|
| Department |
Human Genetics
|
| Lab |
Stanley Nelson
|
| Street address |
695 Charles Young Drive South Gonda 5554
|
| City |
Los Angeles |
| State/province |
California |
| ZIP/Postal code |
90095-7088 |
| Country |
USA |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE87365 |
ERBB3 and NGFR mark distinct skeletal muscle progenitor cells in human development enabling enrichment and maturation of hPSC muscle |
|
| Relations |
| BioSample |
SAMN05826478 |
| SRA |
SRX2191447 |
