|
| Status |
Public on Aug 19, 2021 |
| Title |
NPC_washout_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Neural progenitor cells, wild-type after washout of 2 µM UNC1999 + 4 µM A395
|
| Organism |
Mus musculus |
| Characteristics |
cell type: ES-derived neural progenitor cells
genotype: wild-type
treatment: after washout of 2 uM UNC1999 + 4 uM A395
fraction: total RNA
|
| Growth protocol |
neural progenitor cells were grown in N2B27 medium supplemented with EGF and FGF2 (10ng/ml each), on 0.1% gelatin-coated flasks.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Truseq Stranded mRNA
Total or nascent RNA was extracted using Trizol reageant following manufacturer's instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Adapter trimming (Trim Galore! 0.4.4 wrapper with default settings)
Discard reads aligning to complete mouse rRNA sequence (Bowtie 2.2.9)
Alignment to mouse genome (Bowtie 2.2.9)
Gene counts (FeatureCounts 1.5.1)
Genome_build: mm10
Supplementary_files_format_and_content: gene_counts.txt files contain gene counts
|
| |
|
| Submission date |
Mar 26, 2020 |
| Last update date |
Aug 19, 2021 |
| Contact name |
Daniel Holoch |
| E-mail(s) |
daniel.holoch@curie.fr
|
| Phone |
0156246553
|
| Organization name |
Institut Curie, Centre de Recherche
|
| Department |
Genetics and Developmental Biology Unit
|
| Lab |
Raphaël Margueron
|
| Street address |
26 rue d'Ulm
|
| City |
Paris |
| State/province |
Cedex 05 |
| ZIP/Postal code |
75248 |
| Country |
France |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE147563 |
A cis-acting mechanism mediates trancriptional memory at Polycomb target genes in mammals [RNA-Seq] |
| GSE147568 |
A cis-acting mechanism mediates trancriptional memory at Polycomb target genes in mammals |
|
| Relations |
| BioSample |
SAMN14452136 |
| SRA |
SRX8005948 |
