Corpus 1,285 assessed · 1,186 scored · 647 reproduced ≥75 · 174 flagged ·∅ 73.9/100
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PRJDB8685

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

51/100 · F

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

What this means
claude:haiku

Ophiorrhiza pumila bulk RNA-seq hybrid-read dataset completely failed quality thresholds with zero Q30 and Q20 bases and base quality 9.6 (effectively random); failed sequencing run unsuitable for any downstream analysis and requiring resequencing.

Data type / assay
bulk-RNA-seq
Organism
Ophiorrhiza pumila
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
Read type
long-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
34 runs
Metrics (value · how obtained)
gc sd 4.64 measured
checksum ok yes reported
total bases 141511326912 reported
total reads 339570060 reported
n content pct 0 measured
sampled bases 59332297 measured
sampled reads 6843 measured
gc content pct 36.7 measured
polyg tail pct 0 measured
read length sd 5661.2 measured
quality dropoff 1.1 measured
read length max 41201 measured
read length min 42 measured
read length n50 11862 measured
max base quality 15 measured
mean read length 8670.5 measured
max n pct per pos 0 measured
mean base quality 9.6 measured
pct reads lt 100bp 0.19 measured
read length median 8045 measured
adapter content pct 0 measured
median read quality 9.6 measured
duplication rate pct 0 measured
overrepresented top pct 0.01 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 51/100

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

read length n50 11862 measured ×1 52%
mean base quality 9.6 measured ×0.8 0%
adapter content pct 0 measured ×0.4 100%
duplication rate pct 0 measured ×0.4 100%
QC cost 36 s compute

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