The quantification comparison of A-to-I RNA editing between NGS and LRS
RNA-seq (gene expression) · human · 16 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
- Homo sapiens (human)
- Samples
- 16 samples: 6 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
- Short-read RNA-seq yields lower estimates of A-to-I RNA editing levels than long-read cDNA sequencingAdvanced biotechnology · 2026
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE318137_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1416778 and SRA study SRP671631. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 6 replicated groups read from 16 sample titles; they account for 16 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.
- GSM9486966 NGS_polyA_HEK293T_Rep1 NGS_polyA_HEK293T
- GSM9486967 NGS_polyA_HEK293T_Rep2 NGS_polyA_HEK293T
- GSM9486968 NGS_polyA_HEK293T_Rep3 NGS_polyA_HEK293T
- GSM9486969 NGS_rRNA_depleted_HEK293T_Rep1 NGS_rRNA_depleted_HEK29…
- GSM9486970 NGS_rRNA_depleted_HEK293T_Rep2 NGS_rRNA_depleted_HEK29…
- GSM9486971 NGS_rRNA_depleted_HEK293T_Rep3 NGS_rRNA_depleted_HEK29…
- GSM9486972 LRS_polyA_HEK293T_Rep1 LRS_polyA_HEK293T
- GSM9486973 LRS_polyA_HEK293T_Rep2 LRS_polyA_HEK293T
- GSM9486974 NGS_polyA_U2OS_Rep1 NGS_polyA_U2OS
- GSM9486975 NGS_polyA_U2OS_Rep2 NGS_polyA_U2OS
- GSM9486976 NGS_polyA_U2OS_Rep3 NGS_polyA_U2OS
- GSM9486977 NGS_rRNA_depleted_U2OS_Rep1 NGS_rRNA_depleted_U2OS
- GSM9486978 NGS_rRNA_depleted_U2OS_Rep2 NGS_rRNA_depleted_U2OS
- GSM9486979 NGS_rRNA_depleted_U2OS_Rep3 NGS_rRNA_depleted_U2OS
- GSM9486980 LRS_polyA_U2OS_Rep1 LRS_polyA_U2OS
- GSM9486981 LRS_polyA_U2OS_Rep2 LRS_polyA_U2OS
- GSE297435 Systemic comparison of dCas9-based DNA methylation editing systems for specificity and stability [RNAseq_secondRun] 42 samples shares comparison, editing
- GSE297430 Systemic comparison of dCas9-based DNA methylation editing systems for specificity and stability [RNAseq_firstRun] 17 samples shares comparison, editing
- GSE288870 Impact of Life Adversity and Gene Expression on Psychiatric Symptoms in Children and Adolescents: Findings from the Brazilian High Risk Cohort Study 596 samples shares ngs
- GSE270278 Comparative transcriptomic profiling between two radiologic phenotypes in lungs from patients with pulmonary disease caused by Mycobacterium avium complex 42 samples shares ngs
- GSE305372 Human lungs maintain tissue-resident memory T cells against a broad spectrum of pathogens. 91 samples shares ngs
- GSE275792 Modification of Titanium-based implant materials by Zn-doped calcium phosphate coatings improves corrosion resistance, biomineralization, antibacterial efficacy and immunocompatibility 83 samples shares ngs
- GSE263343 Coordinated regulation by lncRNAs results in tight lncRNA–target couplings 80 samples shares ngs
- GSE325674 Leveraging experimental evolution to extract predictive collateral drug response signatures in Ewings Sarcoma 73 samples shares ngs
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.