RNA exonuclease REXO4 resolves m6A-marked R-loops and suppresses anti-tumor immunity [MRC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 16 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Samples
- 16 samples: 8 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.
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 GSE313848_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1381671 and SRA study SRP655435. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 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.
- GSM9376452 MRC_seq_Ctrl_Rep1 MRC_seq_Ctrl
- GSM9376453 MRC_seq_Ctrl_Rep2 MRC_seq_Ctrl
- GSM9376454 MRC_seq_IgG_Rep1 MRC_seq_IgG
- GSM9376455 MRC_seq_IgG_Rep2 MRC_seq_IgG
- GSM9376456 MRC_seq_RNaseH_Rep1 MRC_seq_RNaseH
- GSM9376457 MRC_seq_RNaseH_Rep2 MRC_seq_RNaseH
- GSM9376458 MRC_seq_siControl_Rep1 MRC_seq_siControl
- GSM9376459 MRC_seq_siControl_Rep2 MRC_seq_siControl
- GSM9376460 MRC_seq_siMETTL3_Rep1 MRC_seq_siMETTL3
- GSM9376461 MRC_seq_siMETTL3_Rep2 MRC_seq_siMETTL3
- GSM9376462 MRC_seq_siREXO4_1_Rep1 MRC_seq_siREXO4_1
- GSM9376463 MRC_seq_siREXO4_1_Rep2 MRC_seq_siREXO4_1
- GSM9376464 MRC_seq_siREXO4_2_Rep1 MRC_seq_siREXO4_2
- GSM9376465 MRC_seq_siREXO4_2_Rep2 MRC_seq_siREXO4_2
- GSM9376466 MRC_seq_STM2457_Rep1 MRC_seq_STM2457
- GSM9376467 MRC_seq_STM2457_Rep2 MRC_seq_STM2457
- GSE313850 RNA exonuclease REXO4 resolves m6A-marked R-loops and suppresses anti-tumor immunity [CUT&Tag-seq] 44 samples shares m6a-marked, rexo4, exonuclease, suppresses, anti-tumor, resolves, immunity, r-loops
- GSE313845 RNA exonuclease REXO4 resolves m6A-marked R-loops and suppresses anti-tumor immunity [ChIP-Rx] 24 samples shares m6a-marked, rexo4, exonuclease, suppresses, anti-tumor, resolves, immunity, r-loops
- GSE306391 G-Quadruplex DNA suppresses Transcription during DNA Replication [CUT&Tag] 264 samples shares suppresses
- GSE299672 PHIP suppresses NuRD to enable the growth of SWI/SNF-mutant cancers [ChIP-seq] 132 samples shares suppresses
- GSE245925 A potent and selective small-molecule degrader of ENL suppresses leukemia progression in vivo (ChIP-Seq) 63 samples shares suppresses
- GSE215023 Targeting DCAF5 suppresses SMARCB1-mutant cancer via stabilizing SWI/SNF 58 samples shares suppresses
- GSE307716 Small interfering RNA-mediated silencing of mutant NPM1 suppresses acute myeloid leukemia via reversing KAT7 and p300-mediated histone acetylation [CUT&Tag] 52 samples shares suppresses
- GSE269555 Targeting the oncohistone-ASCL1 axis disrupts plasticity and suppresses pediatric gliomas [CUT&RUN] 39 samples shares suppresses
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.