|
Status |
Public on Jan 11, 2022 |
Title |
Western diet fed (36 weeks) Mouse Liver_Mouse_001_Sample_001 |
Sample type |
SRA |
|
|
Source name |
Liver
|
Organism |
Mus musculus |
Characteristics |
shortfilename: JBO009 strain: C57Bl/6 platform: 10x Visium condition: WD number of added abs: 0 number of spots: 2348
|
Extracted molecule |
total RNA |
Extraction protocol |
All Methods listed in Guilliams et al. Spatial proteogenomics reveals distinct and evolutionarily-conserved hepatic macrophage niches. Cell. 2022.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Description |
Whole Liver_WD_36Wks_Visium_Mouse Western diet fed (36 weeks) Mouse Liver_Mouse_001_Sample_001
|
Data processing |
Raw sequencing data for each sample was converted to matrices of expression counts using the Space Ranger software provided by 10X Genomics (version 1.0). Genome_build: mm10 or hg19 Supplementary_files_format_and_content: h5 file including raw gene count (output Space Ranger) or txt file including raw antibody counts Supplementary_files_format_and_content: json file including scale factors (output Space Ranger) Supplementary_files_format_and_content: png file including tissue image (output Space Ranger) Supplementary_files_format_and_content: csv file including tissue positions (output Space Ranger) Supplementary_files_format_and_content: rds file: Seurat object
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|
|
Submission date |
Dec 29, 2021 |
Last update date |
Apr 06, 2024 |
Contact name |
Liesbet Martens |
E-mail(s) |
liesbet.martens@irc.vib-ugent.be
|
Organization name |
VIB-University of Ghent
|
Department |
VIB Inflammation Research Center
|
Street address |
Technologiepark 927
|
City |
Zwijnaarde |
ZIP/Postal code |
9052 |
Country |
Belgium |
|
|
Platform ID |
GPL24247 |
Series (2) |
GSE192741 |
Spatial proteogenomics reveals distinct and evolutionarily-conserved hepatic macrophage niches (spatial) |
GSE192742 |
Spatial proteogenomics reveals distinct and evolutionarily-conserved hepatic macrophage niches |
|
Relations |
BioSample |
SAMN24495436 |
SRA |
SRX13549299 |