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Series GSE254999 Query DataSets for GSE254999
Status Public on Jun 26, 2024
Title Loss of Inpp5d has disease-relevant and sex-specific effects on glial transcriptomes
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary INTRODUCTION: INPP5D is genetically associated with Alzheimer’s disease risk. Loss of Inpp5d alters amyloid pathology in models of amyloidosis. Inpp5d is predominantly expressed in microglia but its function in brain is poorly understood. METHODS: We performed single-cell RNA-sequencing to study the effect of Inpp5d loss on wild-type mouse brain transcriptomes. RESULTS: Loss of Inpp5d has sex-specific effects on the brain transcriptome. Affected genes are enriched for multiple neurodegeneration terms. Network analyses reveal a gene co-expression module centered around Inpp5d in female mice. Inpp5d loss alters PTN, PSAP, and VEGFA signaling probability between cell types. DISCUSSION: Our data suggest Inpp5d’s normal function is entangled with mechanisms involved in neurodegeneration. We report the effect of Inpp5d loss without pathology and show that this has dramatic effects on gene expression. Our study provides a critical reference for researchers of neurodegeneration, allowing separation of disease-specific changes mediated by Inpp5d in disease from baseline effects of Inpp5d loss.
 
Overall design Data contains single-cell RNA-sequencing data from two female and male wildtype, two female and male Inpp5d hetereozygous knockout, two female and male Inpp5d homozygous knockout mice, all six weeks of age.
Web link https://alz-journals.onlinelibrary.wiley.com/doi/full/10.1002/alz.13901
 
Contributor(s) Dabin LC, Kersey H, Kim B, Acri DJ, Sharify AD, Lee-Gosselin A, Lasagna-Reeves CA, Oblak A, Lamb BT, Kim J
Citation(s) 38923164
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 AG077829 Molecular genetic analyses of transcriptional dysregulation in Alzheimers disease INDIANA UNIVERSITY Jungsu Kim
Submission date Feb 03, 2024
Last update date Sep 26, 2024
Contact name Luke Child Dabin
Organization name Indiana University
Department Medical and Molecular Genetics
Lab Jungsu Kim
Street address 320 W 15th St #414
City Indianapolis
State/province Indiana
ZIP/Postal code 46202
Country USA
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (12)
GSM8062049 Brain, homozygous knockout female 2
GSM8062050 Brain, homozygous knockout male 1
GSM8062051 Brain, wildtype female 1
Relations
BioProject PRJNA1072999

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Supplementary file Size Download File type/resource
GSE254999_RAW.tar 2.4 Gb (http)(custom) TAR (of TAR)
SRA Run SelectorHelp
Raw data are available in SRA

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