Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE43857

GEO first seen 2015

Patterns of Population Epigenomic Diversity in Arabidopsis thaliana (Methyl-Seq)

Organism
Arabidopsis thaliana
Samples
927
Type
Methylation profiling by hig...
Submitted
2013-01-29

Natural epigenetic variation provides a source for the generation of phenotypic diversity, but to understand its contribution to phenotypic diversity, its interaction with genetic variation requires further investigation.

Provenance — who produced it, who reused it

Linked to 14 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.

Deposited / produced by
Robert J SchmitzTaiji KawakatsuMark A UrichRosa CastanonJoseph R NeryCesar BarraganYupeng HeMatthew D SchultzHuaming ChenJoseph R Ecker
Reused by

12 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
Arabidopsis thaliana
Metrics (value · how obtained)
n content pct 0.044 measured
pct q20 bases 94.7 measured
pct q30 bases 86.7 measured
gc content pct 19.9 measured
mean read length 100 measured
mean base quality 34.5 measured
adapter content pct 0.02 measured
duplication rate pct 4.28 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 86.7 measured ×1 84%
QC cost 33 s compute

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