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SRX11006562: GSM5343404: Lane1_Sample_11; Mus musculus; Bisulfite-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 13.3M spots, 4G bases, 1.3Gb downloads

Submitted by: NCBI (GEO)
Study: Blood DNA methylation altered by Mycobacterium tuberculosis infection in mice
show Abstracthide Abstract
Knowing when a person was infected with Mycobacterium tuberculosis (M.tb) is critical as recent infection is the strongest clinical risk factor for progression to TB disease in immunocompetent individuals. However, time since M.tb infection is very difficult to determine in routine clinical practice. We determined whether DNA methylation patterns in the blood correlate with time since M.tb infection or exposure to develop a biomarker for recent exposure. As proof of concept, we found a DNA methylation signature that is present during early infection of mice that persists for at least 5 months post-infection. Overall design: Blood was collected from 54 C57BL/6 mice and 46 BALB/c mice infected with a low dose of M.tb (Erdman), as well as 23 C57BL/6 mice and 28 BALB/c mice that served as uninfected, age-matched controls. Blood was collected at days 7, 14, 30, 62, 90, 120 and 153 post-infection. Whole blood was subjected to reduced representation bisulfite sequencing. We identify stable DNA methylation changes associated with infection.
Sample: Lane1_Sample_11
SAMN19369699 • SRS9081064 • All experiments • All runs
Organism: Mus musculus
Library:
Instrument: Illumina NovaSeq 6000
Strategy: Bisulfite-Seq
Source: GENOMIC
Selection: Reduced Representation
Layout: PAIRED
Construction protocol: Whole blood was collected, mixed with EDTA, and mixed with Zymo Research DNA/RNA Shield. DNA was isolated using the Zymo Research Quick-DNA kit and Genomic DNA Clean & Concentrator kit. Libraries were prepared using Reduced Representation Bisulfite Sequencing. 52 samples were pooled together using custom synthesized methylated adapters with unique dual indexes (Integrated DNA Technologies).
Experiment attributes:
GEO Accession: GSM5343404
Links:
Runs: 1 run, 13.3M spots, 4G bases, 1.3Gb
Run# of Spots# of BasesSizePublished
SRR1466804213,343,5394G1.3Gb2024-05-24

ID:
14644426

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