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Series GSE135789 Query DataSets for GSE135789
Status Public on Aug 14, 2019
Title Stellate cells, hepatocytes and endothelial cells imprint the Kupffer cell identity on monocytes colonizing the liver macrophage niche (RNA-Seq)
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Macrophages are strongly adapted to their tissue of residence. Yet, we know little about the cell-cell interactions that imprint the tissue-specific identities of macrophages in their respective niches. Using conditional depletion of liver Kupffer cells, we traced the developmental stages of monocytes differentiating into Kupffer cells and mapped the cellular interactions imprinting the Kupffer cell identity. Kupffer cell loss induced the tumor necrosis factor (TNF) and interleukin-1 (IL-1) receptor-dependent activation of stellate cells and endothelial cells, resulting in the transient production of chemokines and adhesion molecules orchestrating monocyte engraftment. Engrafted circulating monocytes transmigrated into the perisinusoidal space, and acquired the liver-associated transcription factors ID3 and LXRα. Coordinated interactions with hepatocytes induced ID3 expression, while endothelial cells and stellate cells induced LXRα via a synergistic NOTCH-BMP pathway. This study shows that the Kupffer cell niche is composed of stellate cells, hepatocytes and endothelial cells that together imprint the liver-specific macrophage identity.
 
Overall design Microarray = different time points during development of Kupffer cells during embryogenesis and after depletion. This data was also compared to other tissue resident macrophages from the Immgen Consortium Database (GSE15907 and GSE37448).
Bulk RNA Seq = Hepatic Stellate Cells (HSCs), Liver Sinusoidal Endothelial Cells (LSECs) and hepatocytes. For each cell type there are 4 replicates from Pbs mice, 12h after DT-injection mice and 36h after DT-injection mice.
 
Contributor(s) Bonnardel J, T’Jonck W, Gaublomme D, Browaeys R, Scott CL, Martens L, Vanneste B, De Prijck S, Nedospasov S, Kremer A, Van Hamme E, Borghgraef P, Toussaint W, De Bleser P, Mannaerts I, Beschin A, van Grunsven L, Lambrecht BN, Taghon T, Lippens S, Elewaut D, Saeys Y, Guilliams M
Citation(s) 31561945
Submission date Aug 13, 2019
Last update date Dec 09, 2019
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
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (36)
GSM4030160 Hepatic Stellate Cells in WT condition HSC-WT-1
GSM4030161 Hepatic Stellate Cells in WT condition HSC-WT-2
GSM4030162 Hepatic Stellate Cells in WT condition HSC-WT-3
This SubSeries is part of SuperSeries:
GSE135790 Stellate cells, hepatocytes and endothelial cells imprint the Kupffer cell identity on monocytes colonizing the liver macrophage niche
Relations
BioProject PRJNA560063
SRA SRP218244

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Supplementary file Size Download File type/resource
GSE135789_RAW.tar 3.4 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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