|
| 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: ko
|
| 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 |
| E-mail(s) |
cbock@cemm.oeaw.ac.at
|
| 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] |
|
| Relations |
| BioSample |
SAMN05324052 |
| SRA |
SRX1884801 |
