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Series GSE287345 Query DataSets for GSE287345
Status Public on Jan 22, 2025
Title Transcriptional analysis of murine biliary atresia identifies macrophage heterogeneity and subset-specific macrophage functions
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Macrophages play an important role in disease progression of pediatric cholestatic liver disease, particularly biliary atresia (BA); however, the restorative versus pathogenic role for precise macrophage subsets remains poorly defined. We aimed to distinguish the transcriptional profiles and roles of defined macrophage subset(s) in murine BA. Ly6c+ macrophages demonstrated the greatest increase in numbers and percent of total macrophages in murine BA versus saline controls whereas MHCII+ macrophages decreased. Transcriptional changes in murine BA MHCII+ macrophages included reduced expression of the Kupffer cell gene signature, lower expression of genes involved in homeostatic processes, and increased expression of genes involved in inflammatory processes. Ly6c+ macrophages in murine BA showed increased expression for Hif1a and other genes involved in the cellular response to hypoxia. Among all subsets, the number of Ly6c+ macrophages exhibited the strongest correlation with severity of histologic liver injury by Ishak score. Our data identify specific pathways upregulated in Ly6c vs MHCII+ macrophage subsets in murine BA. Transcriptional similarities between murine BA and human cholestatic macrophages may enable translation of future mechanistic studies to new macrophage subset-specific therapies.
 
Overall design Bulk RNA-seq of 4 sorted hepatic macrophage populations in RRV mouse model of biliary atresia with saline-treated control.
 
Contributor(s) Taylor S, Winter DR
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Submission date Jan 17, 2025
Last update date Jan 22, 2025
Contact name Deborah R Winter
E-mail(s) deborah.winter@northwestern.edu
Phone 3125030535
Organization name Northwestern University
Street address 240 E. Huron Street, M300
City Chicago
State/province IL
ZIP/Postal code 60611
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (30)
GSM8744691 BALB/c Murine Hepatic Macrophages Ly6c+MHCII+ Controls, Replicate 1
GSM8744692 BALB/c Murine Hepatic Macrophages Ly6c+MHCII+ Controls, Replicate 2
GSM8744693 BALB/c Murine Hepatic Macrophages Ly6c+MHCII+ Controls, Replicate 3
Relations
BioProject PRJNA1212167

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE287345_BA_mouse_macrophages_CPM.txt.gz 3.9 Mb (ftp)(http) TXT
GSE287345_BA_mouse_macrophages_counts.txt.gz 1.1 Mb (ftp)(http) TXT
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