PRJNA643879

BioProject first seen 2022

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

33/100 · F

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

What this means

claude:haiku

Illumina NovaSeq 6000 RNA-seq of human tissue with 729.3M reads but unexpectedly poor base quality (70.7% Q20, 55% Q30), indicating potential sequencing chemistry or library preparation issues. Investigate batch quality before use for sensitive applications; lower quality limits isoform accuracy.

Data type / assay

bulk-RNA-seq

Organism

Homo sapiens

Instrument

Illumina NovaSeq 6000

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 218784477600 reported

total reads 729281592 reported

n content pct 0.001 measured

pct q20 bases 70.7 measured

pct q30 bases 55 measured

gc content pct 46 measured

mean read length 150 measured

mean base quality 27.5 measured

adapter content pct 0 measured

duplication rate pct 0 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 33/100

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.

pct q30 bases 55 measured ×1 0%

mean base quality 27.5 measured ×0.6 0%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 0 measured ×0.4 100%

QC cost 43 s compute

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