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Sample GSM2219778 Query DataSets for GSM2219778
Status Public on Aug 08, 2016
Title Kupffer ID3+/- 3
Sample type SRA
Source name Kupffer cells, ID3 +/-
Organism Mus musculus
Characteristics cell type: Kupffer cell
tissue: liver
genotype: het
Extracted molecule polyA RNA
Extraction protocol Tissues were included in cold PBS and mechanically disrupted under a 100um filter
SMART-seq V4 (Clonetech) ultra low input RNA kit was used for library preparation. 10 ng of amplified cDNA was used to prepare Illumina hiseq libraries with the Kapa DNA library preparation chemistry (Kapa Biosystems) using 8 cycles of PCR.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Data processing alignment using rnaStar
quantification using HTSeq v0.5.4
normalization and differential expression analysis using DESeq v1.18.0 in R v3.1.2
Genome_build: mm9
Supplementary_files_format_and_content: Tab-separated text file
Submission date Jun 29, 2016
Last update date May 15, 2019
Contact name Christoph Bock
Organization name CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
Street address Lazarettgasse 14
City Vienna
ZIP/Postal code 1090
Country Austria
Platform ID GPL17021
Series (2)
GSE81774 Differentiation and specification of resident tissue macrophages
GSE83854 Differentiation and specification of resident tissue macrophages [ID3-KO RNA-seq]
BioSample SAMN05324055
SRA SRX1884804

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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