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Sample GSM3743637 Query DataSets for GSM3743637
Status Public on Aug 27, 2019
Title Scrib_8d
Sample type SRA
 
Source name Imaginal wing disc
Organism Drosophila melanogaster
Characteristics parental strain: scrib[1]FRT82B/TM6B
tissue: Imaginal wing disc
age: After Egg Laying 8d
genotype: scrib-/-FRT82B
Growth protocol Around 50 embryos collected within 3 hours were put in an individual vial of fly food to avoid crowding and the larvae were raised at 25-degree incubator for appropriate lengths of time before dissection.
Extracted molecule total RNA
Extraction protocol The wing imaginal discs were dissociated in 0.25% Trypsin-EDTA solution at 37 ℃ for 10 min. Cells were then washed in DPBS and passed through 35μm filter before library preparation.
Construction of 10x single cell libraries and sequencing on Illumina Hiseq platform were performed by Novogene.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Raw data mapping and primary analysis was performed in the Cell Ranger pipeline.
The first 26 bp of R1 contains the barcode and UMI.
Secondary analysis for marker gene expression pattern was performed with Seurat (Butler et al., 2018).
Reads were normalized with the log normalization function in Seurat. Briefly: for each cell, sum all UMI number across all genes, this number is S; for each gene, the normalisation result = log1p(UMI number (of this gene)/S).
Genome_build: GCF_000001215.4
Supplementary_files_format_and_content: csv files include normalized abundance measurements for each Sample
 
Submission date May 01, 2019
Last update date Aug 28, 2019
Contact name Yan Yan
E-mail(s) drosophilaust@gmail.com
Organization name HKUST
Department LIFS
Street address Clear Water Bay
City Hong Kong
ZIP/Postal code 999077
Country China
 
Platform ID GPL25244
Series (1)
GSE130566 Single-cell transcriptomic analysis of the scrib mutant wing imaginal discs
Relations
BioSample SAMN11552350
SRA SRX5774932

Supplementary file Size Download File type/resource
GSM3743637_scrib8d_normalization_data.csv.gz 70.4 Mb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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