|
| Status |
Public on Oct 16, 2019 |
| Title |
UnDiff_1 |
| Sample type |
SRA |
| |
|
| Source name |
Cell Line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: BLaER1
Stage: Un-differentiaed
|
| Treatment protocol |
BLaER1 cells were trans-differentiated for 5-6 day in medium containing 10 ng/ml hrIL-3, hr-CSF-1 (M-CSF) (both MPI of Biochemistry, Munich) and 100 nM b-Estradiol.
|
| Growth protocol |
BLaER1 cells were cultured in RPMI Medium 1640, supplemented with 10% (v/v) FCS, L-glutamine and 100 U/ml Penicillin-Streptomycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Undifferentiated as well as differentiated BLaER1 cells were lysed in Trizol (2x106/1ml) and total RNA was purified using the Zymo Direct-zol RNA Miniprep.
Total RNA was used to generate stranded RNA sequencing libraries using the Encore Complete RNA-Seq™ library system of NuGEN.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence with trimmomatic and aligned with STAR softare
The TPM (Transcripts Per Million) was quantified with RSEM
Genome_build: Ensembl release 91
Supplementary_files_format_and_content: tab-delimited text files include TPM values for each sample
|
| |
|
| Submission date |
Oct 15, 2019 |
| Last update date |
Oct 16, 2019 |
| Contact name |
Veit Hornung |
| E-mail(s) |
hornung@genzentrum.lmu.de
|
| Organization name |
LMU
|
| Street address |
Feodor-Lynen-Straße 25
|
| City |
Munich |
| ZIP/Postal code |
81377 |
| Country |
Germany |
| |
|
| Platform ID |
GPL18460 |
| Series (1) |
| GSE138913 |
RNASeq of differentiated and undifferentiated BLaER1 cells |
|
| Relations |
| BioSample |
SAMN13035630 |
| SRA |
SRX6999916 |
