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Sample GSM4433504 Query DataSets for GSM4433504
Status Public on Aug 19, 2021
Title NPC_washout_rep2
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
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
BioSample SAMN14452135
SRA SRX8005949

Supplementary file Size Download File type/resource
GSM4433504_NPC_C2_washout_rep_2_gene_counts.txt.gz 872.2 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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