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Sample GSM7036273 Query DataSets for GSM7036273
Status Public on Oct 26, 2023
Title ISC/EB RNAseq H1 RNAi C
Sample type SRA
 
Source name ISC/EB
Organism Drosophila melanogaster
Characteristics cell line: ISC/EB
cell type: Intestinal cells
genotype: esgts, UAS-GFP UAS H1 RNAi 1
treatment: H1 RNAi 1
time: 4 days induction at 29°C
Treatment protocol For each replicate, 70 guts (control and H1 RNAi) were dissected in cold PBS, dissociated in elastase and FACS-sorted to isolate 50-100,000 GFP+ progenitor cells
Growth protocol Crosses and adults were kept at 18°C, the GAL80 permissive temperature. 3 day old flies were shifted to 29°C for 1 day to induce Dam expression
Extracted molecule total RNA
Extraction protocol RNA isolation and purification was then performed with the Arcturus PicoPure RNA Isolation kit (Thermofisher)
RNA libraries were prepared with the Illumina Stranded mRNA Prep kit
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description D925T31
Data processing Nextflow pipeline for RNA-seq data processing developed by the Curie Bioinformatics Core facility was used (https://doi.org/10.5281/zenodo.7443721)
FastQ files were generated with bcl2Fastq, demultiplexed and trimmed to remove adaptors using the Raw-QC and RNA-seq analysis pipelines
Reads were aligned to the Drosophila reference genome (dm6) to generate raw counts tables.
Assembly: dmelr6.28
Supplementary files format and content: tab-delimited text file include tpm values for each Sample
 
Submission date Feb 09, 2023
Last update date Oct 26, 2023
Contact name Allison Bardin
E-mail(s) allison.bardin@curie.fr
Organization name Institut Curie
Street address 26 rue d'Ulm
City Paris
ZIP/Postal code 75005
Country France
 
Platform ID GPL25244
Series (2)
GSE224962 Chromatin state transitions in the Drosophila intestinal lineage reveal principles of cell type specification [RNA-seq]
GSE224967 Chromatin state transitions in the Drosophila intestinal lineage reveal principles of cell type specification
Relations
BioSample SAMN33228250
SRA SRX19323457

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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