Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE81547

GEO first seen 2017

Single cell transcriptome analysis of human pancreas reveals transcriptional signatures of aging and somatic mutation patterns.

Organism
Homo sapiens
Samples
2,544
Type
Expression profiling by high...
Submitted
2016-05-18

As organisms age, cells accumulate genetic and epigenetic changes that eventually lead to impaired organ function or catastrophic failure such as cancer. Here we describe a single-cell transcriptome analysis of 2544 human pancreas cells from donors, spanning six decades of life. We find that islet cells from older donors have increased levels of disorder as measured both by noise in the transcriptome and by the number of cells which display inappropriate hormone expression, revealing a transcrip...

Provenance — who produced it, who reused it

Linked to 23 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.

Deposited / produced by
Martin EngeEfsun Arda
Reused by

20 further papers cite this accession but reuse could not be confirmed.

Deep data QC

92/100 · A

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

Data type / assay
bulk-RNA-seq
Organism
Homo sapiens
Instrument
NextSeq 500
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
2,544 / 2,544 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 600667535757 reported
total reads 4694380055 reported
n content pct 0.003 measured
pct q20 bases 94.4 measured
pct q30 bases 90.4 measured
gc content pct 43.2 measured
mean read length 63.9 measured
mean base quality 34.9 measured
adapter content pct 0.01 measured
duplication rate pct 52.59 measured
supplementary file types CSV reported
How this grade was computed
Weighted mean of 4 scored metric(s) → 92/100

The A 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 90.4 measured ×1 100%
mean base quality 34.9 measured ×0.6 100%
adapter content pct 0.01 measured ×0.4 100%
duplication rate pct 52.59 measured ×0.4 50%
QC cost 16 s compute

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