Integrated multi-omics analysis of zinc finger proteins uncovers roles in RNA regulation.
RNA-seq (gene expression) · synthetic construct; Homo sapiens · 630 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
- synthetic construct; Homo sapiens
- Samples
- 630 samples: 292 distinct titles, 68 of them repeatedGroups 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
- Integrated multi-omics analysis of zinc-finger proteins uncovers roles in RNA regulationMolecular cell · 2024
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 GSE249247_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 PRJNA1048308 and SRA study SRP475585. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 120 samples read as cases, 8 as controls.
How we read this: Read from the first 400 of 630 sample titles: 292 distinct titles with little repetition. 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.
- GSM7931961 APEX2 replicate 1 Cut&Run
- GSM7931962 APEX2 replicate 2 Cut&Run
- GSM7931963 BRCA1 replicate 1 Cut&Run
- GSM7931964 BRCA1 replicate 2 Cut&Run
- GSM7931965 CISD1 replicate 1 Cut&Run
- GSM7931966 CISD1 replicate 2 Cut&Run
- GSM7931967 CISD2 replicate 1 Cut&Run
- GSM7931968 CISD2 replicate 2 Cut&Run
- GSM7931969 CNBP replicate 1 Cut&Run
- GSM7931970 CNBP replicate 2 Cut&Run
- GSM7931971 CNOT4 replicate 1 Cut&Run
- GSM7931972 CNOT4 replicate 2 Cut&Run
- GSM7931973 CPSF4L replicate 1 Cut&Run
- GSM7931974 CPSF4L replicate 2 Cut&Run
- GSM7931975 CPSF4 replicate 1 Cut&Run
- GSM7931976 CPSF4 replicate 2 Cut&Run
- GSM7931977 CTCF replicate 1 Cut&Run
- GSM7931978 CTCF replicate 2 Cut&Run
- GSM7931979 ERI2 replicate 1 Cut&Run
- GSM7931980 ERI2 replicate 2 Cut&Run
- GSM7931981 FUS replicate 1 Cut&Run
- GSM7931982 FUS replicate 2 Cut&Run
- GSM7931983 G2E3 replicate 1 Cut&Run
- GSM7931984 G2E3 replicate 2 Cut&Run
- GSM7931985 GIN1 replicate 1 Cut&Run
- GSM7931986 GIN1 replicate 2 Cut&Run
- GSM7931987 GTF3C4 replicate 1 Cut&Run
- GSM7931988 GTF3C4 replicate 2 Cut&Run
- GSM7931989 IGHMBP2 replicate 1 Cut&Run
- GSM7931990 IGHMBP2 replicate 2 Cut&Run
- GSM7931991 LIN28B replicate 1 Cut&Run
- GSM7931992 LIN28B replicate 2 Cut&Run
- GSM7931993 MAZ replicate 1 Cut&Run
- GSM7931994 MAZ replicate 2 Cut&Run
- GSM7931995 MBNL1 replicate 1 Cut&Run
- GSM7931996 MBNL1 replicate 2 Cut&Run
- GSM7931997 NANOS2 replicate 1 Cut&Run
- GSM7931998 NANOS2 replicate 2 Cut&Run
- GSM7931999 PHF7 replicate 1 Cut&Run
- GSM7932000 PHF7 replicate 2 Cut&Run
+ 590 more — browse all 630 samples with per-sample file links →
No close match found for this topic, so these are simply the most-viewed datasets of the same kind.
- GSE47774 A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequence Quality Control consortium 3396 samples
- GSE293001 Spatial transcriptomics signatures in COPD 917 samples
- GSE304327 Transcriptomic analysis of BPA alternative chemicals in primary human mammary epithelial cells 666 samples
- GSE300453 Sequence-specific RNA recognition drives Restrictor-mediated termination of extragenic transcription 163 samples
- GSE224204 Functional investigation of inherited noncoding genetic variation impacting the pharmacogenomics of childhood acute lymphoblastic leukemia treatment 117 samples
- GSE302375 Splicing fidelity infuences the fate of mRNA molecules 101 samples
- GSE283210 MicroRNA-directed control of complex mRNA stability patterns across cell types 98 samples
- GSE303138 HNRNPH controls alternative splicing cooperatively on a transcriptome-wide scale 63 samples
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.