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Experiment information
Accession CRX347402
Organism Mus musculus
Title Control
BioProject PRJCA008567
BioSample SAMC628417
Platform Illumina HiSeq X Ten
Library
Library name Construction protocol Strategy Source Selection Layout
Sequencing data from 10X genomics was processed with CellRanger software package (version 2.1.0) with default mapping arguments. For modified STRT-seq data, raw reads were first split for each cell by specific barcode sequence attached in Read 2. The TSO sequence and polyA tail sequence were trimmed for the corresponding Read 1 after UMI information was aligned to it. Reads with adapter contaminants or low-quality bases (N > 10%) were discarded. Subsequently, we aligned the stripped Read 1 sequences to hg19 human transcriptome (UCSC) using Hisat2 (version 2.10). Uniquely mapped reads were counted by HTSeq package83 and grouped by the cell-specific barcodes. Duplicated transcripts were removed based on the UMI information for each gene. Finally, for each individual cell, the copy number of transcripts of a given gene was the number of the distinct UMIs of that gene RNA-Seq TRANSCRIPTOMIC PCR PAIRED
Processing Planned read length (bp) for mate 1: 150
Planned read length (bp) for mate 2: 150
Insert size (bp): 400
Release date2022-03-15
Run
Run accession Run data file information
File nameFile size (MB)
CRR401364 CRR401364_f1.fastq.gz
CRR401364_r2.fastq.gz 		3,348.44
2,799.68
CRR401365 CRR401365_f1.fastq.gz
CRR401365_r2.fastq.gz 		3,257.63
2,692.29
CRR401366 CRR401366_f1.fastq.gz
CRR401366_r2.fastq.gz 		3,349.66
2,769.63
CRR401367 CRR401367_f1.fastq.gz
CRR401367_r2.fastq.gz 		3,337.4
2,781.75
CRR401368 CRR401368_f1.fastq.gz
CRR401368_r2.fastq.gz 		3,591.83
2,985.6
CRR401369 CRR401369_f1.fastq.gz
CRR401369_r2.fastq.gz 		3,478.72
2,862.31
CRR401370 CRR401370_f1.fastq.gz
CRR401370_r2.fastq.gz 		3,589.4
2,952.73
CRR401371 CRR401371_f1.fastq.gz
CRR401371_r2.fastq.gz 		3,577.73
2,967.35
CRR401372 CRR401372_f1.fastq.gz
CRR401372_r2.fastq.gz 		3,547.79
2,955.62
CRR401373 CRR401373_f1.fastq.gz
CRR401373_r2.fastq.gz 		3,443.91
2,838.84
CRR401374 CRR401374_f1.fastq.gz
CRR401374_r2.fastq.gz 		3,551.38
2,928.17
CRR401375 CRR401375_f1.fastq.gz
CRR401375_r2.fastq.gz 		3,538.48
2,940.95
CRR401376 CRR401376_f1.fastq.gz
CRR401376_r2.fastq.gz 		3,371.49
2,782.82
CRR401377 CRR401377_f1.fastq.gz
CRR401377_r2.fastq.gz 		3,281.79
2,683.02
CRR401378 CRR401378_f1.fastq.gz
CRR401378_r2.fastq.gz 		3,362.62
2,750.01
CRR401379 CRR401379_f1.fastq.gz
CRR401379_r2.fastq.gz 		3,352.61
2,764.16
SubmitterMin Zhang (mzhangcool@yeah.net)
Organizationthe Fifth Medical Center of PLA General Hospital
Date submitted2022-03-07
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Experiments(3)