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Series GSE159794 Query DataSets for GSE159794
Status Public on Dec 01, 2021
Title Age-related changes in blood and spleen-derived immune cells in long and short lived mice strains [ATAC-seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Immune system aging contributes significantly to declining health with age. It is unknown to what extent human and mice immune systems go through similar age-related changes and whether there are conserved biomarkers of aging. We characterized age-related changes in the immune system of long (C57BL/6J) and short-lived (NZO/HILtJ) strains and compared them with blood-driven human aging signatures. Peripheral blood lymphocytes (PBL), spleen cells and spleen-driven naive and memory CD8+ T cells were profiled using flow cytometry, RNA-seq and ATAC-seq from young (3 months) and old (18 months) mice. Pro-inflammatory myeloid genes were activated with age across strains and tissues, echoing human 'inflammaging' signatures. ATAC-seq footprinting analyses uncovered increased binding of pro-inflammatory transcription factors with age (e.g., AP1 complex, NFKB signaling pathway). Machine learning models identified inflammation, cytotoxic, and naive T cell derived genes to be strong signatures of immunosenescence. These data are publicly shared as a resource for immune aging (https://immune-aging.jax.org/mice).
 
Overall design Spleen, PBL and spleen sorted CD8+ T cell profiles of B6 and NZO mice at 3,12 and 18 months
 
Contributor(s) Karakaslar OE, Lachatara E, Sharma S, Ucar D
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Submission date Oct 21, 2020
Last update date Dec 01, 2021
Contact name Duygu Ucar
E-mail(s) duygu.ucar@jax.org
Organization name The Jackson Laboratory
Street address 10 Discovery Drive
City Farmington
State/province Connecticut
ZIP/Postal code 06032
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (90)
GSM4845090 20180125_17-ucar-001-run4_FASTQ_NZO-12mo-F-spleen-89_GT18-00073_TAAGGCGA-AGAGGATA_S5
GSM4845091 20180125_17-ucar-001-run4_FASTQ_NZO-12mo-F-spleen-90_GT18-00074_CGTACTAG-TCTACTCT_S2
GSM4845092 20180125_17-ucar-001-run4_FASTQ_NZO-12mo-F-spleen-94_GT18-00075_AGGCAGAA-CTCCTTAC_S6
This SubSeries is part of SuperSeries:
GSE159798 Age-related changes in blood and spleen-derived immune cells in long and short lived mice strains
Relations
BioProject PRJNA670569
SRA SRP288216

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

Supplementary file Size Download File type/resource
GSE159794_MiceMemoryATACNormalizedCounts.csv.gz 3.1 Mb (ftp)(http) CSV
GSE159794_MiceNaiveATACNormalizedCounts.csv.gz 2.7 Mb (ftp)(http) CSV
GSE159794_MicePBLATACNormalizedCounts.csv.gz 2.8 Mb (ftp)(http) CSV
GSE159794_MiceSpleenATACNormalizedCounts.csv.gz 3.8 Mb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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