GSE147087

Analyses of methylomes of multiple tissues in cattle

Organism

Bos taurus

Samples

25

Type

Methylation profiling by hig...

Submitted

2020-03-17

In this study, we generated whole genome bisulfite sequencing data of 19 samples for 13 tissues in Holstein cattle. We analyzed the variations of DNA methylation among tissues. In this study, we generated whole genome bisulfite sequencing data of 6 samples for 5 tissues in Hereford cattle. We analyzed the variations of DNA methylation among tissues.

Provenance — who produced it, who reused it

Linked to 6 papers in the literature. Roles are inferred factual signals (who deposited the data vs who reused it), with counts — never a judgement about any author.

Reused by

Comprehensive analyses of 723 transcriptomes enhance genetic and... 2020 · 232 cites
A mammalian methylation array for profiling methylation levels a... 2022 · 214 cites

4 further papers cite this accession but reuse could not be confirmed.

Deep data QC

insufficient data to score

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained

Data type / assay

methylation

Organism

Bos taurus

Metrics (value · how obtained)

n content pct 0.003 measured

pct q20 bases 92.5 measured

pct q30 bases 82.6 measured

gc content pct 21.4 measured

mean read length 147 measured

mean base quality 35.4 measured

adapter content pct 0 measured

duplication rate pct 3.95 measured

How this grade was computed

The insufficient grade is a transparent weighted average. Each metric below scored from 0–100% against the published methylation thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 82.6 measured ×1 63%

QC cost 25 s compute

measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0