SRX7700172

SRA 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

81/100 · B

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

What this means

claude:haiku

Senna tora bulk RNA-seq with measured Q30 below benchmark. Q30 bases (82.5%, measured) is the limiting metric; usable for expression quantification but downstream variant analysis may suffer from base-calling errors.

Data type / assay

bulk-RNA-seq

Organism

Senna tora

Instrument

NextSeq 500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 2674523554 reported

total reads 20695536 reported

n content pct 0 measured

pct q20 bases 92.9 measured

pct q30 bases 82.5 measured

gc content pct 44.3 measured

mean read length 133.6 measured

mean base quality 33.3 measured

adapter content pct 0.08 measured

duplication rate pct 8.49 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 81/100

The B 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.

pct q30 bases 82.5 measured ×1 63%

mean base quality 33.3 measured ×0.6 88%

adapter content pct 0.08 measured ×0.4 100%

duplication rate pct 8.49 measured ×0.4 100%

QC cost 11 s compute

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