Deciphering the interplay between SETD2 mediated H3K36me3 and RNA N6-methyladenosine in clear cell renal cell carcinoma (ccRCC) [RNA-seq]
RNA-seq (gene expression) · human · 20 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
- 20 samples: 10 conditions, mostly in duplicateGroups 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
- Deciphering the interplay between SETD2 mediated H3K36me3 and RNA N6-methyladenosine in clear cell renal cell carcinoma (ccRCC)Epigenetics · 2025
Read the full summary ↓
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 GSE276371_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 PRJNA1156786 and SRA study SRP530769. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 10 replicated groups read from 20 sample titles; they account for 20 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.
- GSM8497251 X786OWT METTL3KO A1 rep 1 X786OWT METTL3KO A1
- GSM8497252 X786OWT METTL3KO A1 rep 2 X786OWT METTL3KO A1
- GSM8497253 X786OWT METTL3KO A2 rep 1 X786OWT METTL3KO A2
- GSM8497254 X786OWT METTL3KO A2 rep 2 X786OWT METTL3KO A2
- GSM8497255 X786OWT sgCas9 CTRL rep 1 X786OWT sgCas9 CTRL
- GSM8497256 X786OWT sgCas9 CTRL rep 2 X786OWT sgCas9 CTRL
- GSM8497257 X786Ocl2 METTL3KO C1 rep 1 X786Ocl2 METTL3KO C1
- GSM8497258 X786Ocl2 METTL3KO C1 rep 2 X786Ocl2 METTL3KO C1
- GSM8497259 X786Ocl2 METTL3KO C2 rep 1 X786Ocl2 METTL3KO C2
- GSM8497260 X786Ocl2 METTL3KO C2 rep 2 X786Ocl2 METTL3KO C2
- GSM8497261 X786Ocl2 sgCas9 CTRL rep 1 X786Ocl2 sgCas9 CTRL
- GSM8497262 X786Ocl2 sgCas9 CTRL rep 2 X786Ocl2 sgCas9 CTRL
- GSM8497263 X786OWT STM2457 rep 1 X786OWT STM2457
- GSM8497264 X786OWT STM2457 rep 2 X786OWT STM2457
- GSM8497265 X786OWT DMSO rep 1 X786OWT DMSO
- GSM8497266 X786OWT DMSO rep 2 X786OWT DMSO
- GSM8497267 X786Ocl2 STM2457 rep 1 X786Ocl2 STM2457
- GSM8497268 X786Ocl2 STM2457 rep 2 X786Ocl2 STM2457
- GSM8497269 X786Ocl2 DMSO rep 1 X786Ocl2 DMSO
- GSM8497270 X786Ocl2 DMSO rep 2 X786Ocl2 DMSO
- GSE279442 SETD2 loss-of-function uniquely sensitizes cells to epigenetic targeting of NSD1-directed H3K36 methylation [RNA-seq] 50 samples shares setd2, rna-seq
- GSE297044 SETD2 Deficiency Drives Mitochondrial DNA Leakage and Creates a Druggable Dependency on BCL-XL in Clear Cell Renal Cell Carcinoma 16 samples shares setd2, clear
- GSE231720 SETD2 Mutations Do Not Contribute to Clonal Fitness in Response to Chemotherapy in Childhood B Acute Lymphoblastic Leukemia (RNA-Seq) 12 samples shares setd2, rna-seq
- GSE271143 METTL3-Mediated N6-methyladenosine mRNA Modification and cGAS-STING Pathway Activity in Kidney Fibrosis 127 samples shares n6-methyladenosine, mediated
- GSE275395 Deciphering Pre-existing and Induced 3D Genome Architecture Changes involved in Constricted Melanoma Migration (RNA-Seq) 30 samples shares deciphering, rna-seq
- GSE254867 Deciphering the novel regulatory mechanisms and biological implications of ARID1A C-terminal missense mutations in cancer [RNA-seq] 27 samples shares deciphering, rna-seq
- GSE248497 Deciphering the heterogeneity of differentiating hPSC-derived corneal limbal stem cells through single-cell RNA-sequencing 19 samples shares deciphering, rna-seq
- GSE280402 Deciphering the Transcriptomic Landscape of Type 2 Diabetes: Insights from Bulk RNA Sequencing and Single-Cell Analysis [RNA-seq] 16 samples shares deciphering, rna-seq
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.