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MBNL1 regulates programmed postnatal switching between regenerative and differentiated cardiac states

GSE246744 Rattus norvegicus (rat) RNA-seq (gene expression) 54 samples Submitted 2024/03/06 Platform GPL24247Platform GPL31008Platform GPL28330
At a glance

RNA-seq (gene expression) · rat · 54 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Rattus norvegicus (rat)
Samples
54 samples: 15 conditions, mostly in triplicateGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Paper
MBNL1 Regulates Programmed Postnatal Switching Between Regenerative and Differentiated Cardiac StatesCirculation · 2024
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
Published in
MBNL1 Regulates Programmed Postnatal Switching Between Regenerative and Differentiated Cardiac States
Bailey LRJ, Bugg D, Reichardt IM et al. · Circulation 2024 · PMID 38426339 · doi:10.1161/CIRCULATIONAHA.123.066860
This dataset
Open GSE246744 in finder → Find more RNA-seq datasets →
Download · which file do I need?

Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE246744_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1034538 and SRA study SRP469640. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 38426339) ↗
Study design
15 conditions, mostly in triplicate
P60_KO ×9 P60_Ctl ×7 P7_Tg ×4 P1_Ctl ×4 P7_Ctl ×3 flag ×3 input ×3 KO_0 ×3 +7 more

Supports a between-group comparison across 54 samples.

How we read this: 15 replicated groups read from 54 sample titles; they account for 54 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.

Samples in this study

+ 14 more — browse all 54 samples with per-sample file links →

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