ERR418081

ENA first seen 2020

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

71/100 · C

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

What this means

claude:haiku

WGS on HiSeq 2000 for Solanum pimpinellifolium (wild tomato relative) with good quality (95.3% Q20, 88.8% Q30). Wild-species genome enables comparative genomics, domestication-locus identification, and plant genetic diversity assessment versus cultivated S. lycopersicum.

Data type / assay

WGS

Organism

Solanum pimpinellifolium

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), BAM/CRAM (aligned)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 35069092300 reported

total reads 175360443 reported

n content pct 0 measured

pct q20 bases 95.3 measured

pct q30 bases 88.8 measured

gc content pct 45.4 measured

mean read length 100 measured

mean base quality 34.6 measured

adapter content pct 0 measured

duplication rate pct 76.41 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 71/100

The C 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.

pct q30 bases 88.8 measured ×1 94%

duplication rate pct 76.41 measured ×0.5 0%

adapter content pct 0 measured ×0.4 100%

QC cost 3 s compute

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