Corpus 1,276 assessed · 1,177 scored · 644 reproduced ≥75 · 170 flagged ·∅ 74/100
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PRJEB31530

BioProject first seen 2021

Provenance — who produced it, who reused it

Linked to 1 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

1 further paper cites this accession but reuse could not be confirmed.

Deep data QC

93/100 · A

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

What this means
claude:haiku

This Illumina HiSeq 2000 whole-genome sequencing dataset from Arabidopsis thaliana comprises 4.2 billion reads and 1.19 trillion bases at an exceptional 8,840× mean coverage, providing ultra-deep resequencing for rare-variant detection and structural-variant discovery. The exceptional depth enables fine-mapping of quantitative trait loci and de novo mutation validation in mutant screens. Researchers should note that such extreme coverage far exceeds typical population-genomics needs (20–50×) and may indicate specialized applications requiring variant-detection sensitivity.

Data type / assay
WGS
Organism
Arabidopsis thaliana
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads), submitted files
N numbers (samples, groups)
1,400 runs
Metrics (value · how obtained)
checksum ok yes reported
total bases 1193473843934 reported
total reads 4240743140 reported
mean coverage 8840.5 extrapolated
n content pct 0.008 measured
pct q20 bases 98.2 measured
pct q30 bases 95.3 measured
gc content pct 43.4 measured
mean read length 149.5 measured
mean base quality 39.2 measured
adapter content pct 0.78 measured
duplication rate pct 21.67 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 93/100

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

mean coverage 8840.5 extrapolated ×1.2 100%
pct q30 bases 95.3 measured ×1 100%
duplication rate pct 21.67 measured ×0.5 57%
adapter content pct 0.78 measured ×0.4 100%
QC cost 20 s compute

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