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Sample GSM4081535 Query DataSets for GSM4081535
Status Public on May 26, 2020
Title 20170926_MB3_XZ4704-1_S3
Sample type SRA
 
Source name Bone marrow neutrophil
Organism Mus musculus
Characteristics strain/background: C57BL/6
cell type: MB neutrophils
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from those populations using QIAGEN RNeasy Mini Kit. RNA quality was evaluated spectrophotometrically, and the quality was assessed with the Agilent 2100 Bioanalyzer.
RNA-sequencing libraries were prepared using KAPA mRNA HyperPrep Kit (Illumina Platforms). Once prepared, indexed cDNA libraries were pooled in equimolar amounts and were sequenced with paired-end on an Illumina HiSeq2500.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description processed data file: 2019Granulocyte_bulk_matrix.csv
Data processing QC were performed using MultiQC. Adaptor sequences and low quality score bases were trimmed using trimmomatic/0.36.
The resulting reads were then mapped to the mouse genome references sequence (GRCm38/mm10 Ensemble release 81) and counted using alignment software STAR2.5.2b.
Gene differential expression analysis were using EdgeR.
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: 2019Granulocyte_bulk_matrix.csv: Comma-separated text file.
 
Submission date Sep 16, 2019
Last update date May 26, 2020
Contact name Xuemei Xie
E-mail(s) xiexuemei.fiona@gmail.com
Organization name Boston Children's Hospital
Department Transfusion Medicine
Lab Luo's Lab
Street address 811 Enders Building, 320 Longwood Ave.
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL17021
Series (2)
GSE137538 RNA sequencing of different neutrophil subpopulations from bone marrow
GSE137540 Single-cell transcriptome profiling reveals neutrophil heterogeneity in homeostasis and infection
Relations
BioSample SAMN12769001
SRA SRX6855607

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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