PRJNA212118

BioProject first seen 2014

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

83/100 · B

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

What this means

claude:haiku

Bulk-RNA-seq on HiSeq 2000 profiling Buchnera aphidicola (pea-aphid endosymbiont) transcriptome with high quality (96.9% Q20, 90.8% Q30). This bacterial symbiont RNA-seq supports host-microbe interaction studies and elucidates metabolic dependencies in the obligate mutualism.

Data type / assay

bulk-RNA-seq

Organism

Buchnera aphidicola str. 5A (Acyrthosiphon pisum)

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

5 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 6171513600 reported

total reads 176328960 reported

n content pct 0.003 measured

pct q20 bases 96.9 measured

pct q30 bases 90.8 measured

gc content pct 45.8 measured

mean read length 35 measured

mean base quality 36.2 measured

adapter content pct 0 measured

duplication rate pct 91.41 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 83/100

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 90.8 measured ×1 100%

mean base quality 36.2 measured ×0.6 100%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 91.41 measured ×0.4 0%

QC cost 39 s compute

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