Corpus 1,273 assessed · 1,174 scored · 643 reproduced ≥75 · 169 flagged ·∅ 74.1/100
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GSE120454

GEO first seen 2019

m7G methylation by METTL1 regulates let-7 microRNAs [m7G-RIP-Seq Caco2]

Organism
Homo sapiens
Samples
6
Type
Non-coding RNA profiling by...
Submitted
2018-09-25

Methylation of N7-methylguanosine (m7G) is found at mRNA caps and at defined internal positions within abundant tRNAs and rRNAs. However, its detection within low abundance mRNAs and microRNAs (miRNAs) has been hampered by lack of sensitive detection strategies. Here, we adapt a chemical reactivity assay to detect internal m7G in RNA from eukaryotic cells. Using this approach, alongside a confirmational RNA immunoprecipitation assay, we identify m7G within miRNAs inhibiting cell migration, and s...

Provenance — who produced it, who reused it

Linked to 2 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
Luca PandolfiniIsaia Barbieri
Reused by

1 further paper cites this accession but reuse could not be confirmed.

Deep data QC

67/100 · D

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
Illumina HiSeq 4000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
6 / 6 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 7195754100 reported
total reads 143915082 reported
n content pct 0.009 measured
pct q20 bases 99.7 measured
pct q30 bases 99 measured
gc content pct 50.5 measured
mean read length 50 measured
mean base quality 40 measured
adapter content pct 93.85 measured
duplication rate pct 90.63 measured
supplementary file types TXT reported
How this grade was computed
Weighted mean of 4 scored metric(s) → 67/100

The D 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 99 measured ×1 100%
mean base quality 40 measured ×0.6 100%
adapter content pct 93.85 measured ×0.4 0%
duplication rate pct 90.63 measured ×0.4 0%
QC cost 27 s compute

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