Derepressing nuclear pyruvate dehydrogenase induces therapeutic cancer cell reprogramming
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 64 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
- 64 samples: 55 distinct titles, 9 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
- Derepressing nuclear pyruvate dehydrogenase induces therapeutic cancer cell reprogrammingCell metabolism · 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 GSE240355_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 PRJNA1003417 and SRA study SRP454008. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 64 sample titles: 55 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.
- GSM7696623 PDXC-OS052 DMSO-1
- GSM7696624 PDXC-OS052 DMSO-2
- GSM7696631 PDXC-OS052 M+I -1
- GSM7696632 PDXC-OS052 M+I -2
- GSM7696635 HOS DMSO
- GSM7696636 HOS M+I
- GSM7696637 MG-63 DMSO
- GSM7696638 MG-63 M+I
- GSM7696639 Saos-2 DMSO
- GSM7696640 Saos-2 M+I
- GSM7696641 U-2 OS DMSO
- GSM7696642 U-2 OS M+I
- GSM7696643 KOS7 DMSO
- GSM7696644 KOS7 M+I
- GSM7696645 KOS8 DMSO
- GSM7696646 KOS8 M+I
- GSM7696647 Hs 819.T DMSO
- GSM7696648 Hs 819.T M+I
- GSM7696649 SW1353 DMSO
- GSM7696650 SW1533 M+I
- GSM7696651 Rh30 DMSO
- GSM7696652 Rh30 M+I
- GSM7696654 PDXC-OS052 DMSO-1 [ATAC-seq]
- GSM7696655 PDXC-OS052 DMSO-2 [ATAC-seq]
- GSM7696662 Rh30 DMSO-1 [ATAC-seq]
- GSM7696663 Rh30 DMSO-2 [ATAC-seq]
- GSM7696664 Rh30 M+I -1 [ATAC-seq]
- GSM7696665 Rh30 M+I -2 [ATAC-seq]
- GSM7711033 143B cells, shRenilla -1
- GSM7711034 143B cells, shRenilla -2
- GSM7711035 143B cells, shELMSAN1-1 -1
- GSM7711036 143B cells, shELMSAN1-1 -2
- GSM7711037 143B cells, sgGal4 -1
- GSM7711038 143B cells, sgGal4 -2
- GSM7711039 143B cells, sgaELMSAN1 -1
- GSM7711040 143B cells, sgaELMSAN1 -2
- GSM7711047 143B cells, DMSO -1
- GSM7711048 143B cells, DMSO -2
- GSM7711049 143B cells, ISX9 -1
- GSM7711050 143B cells, ISX9 -2
+ 24 more — browse all 64 samples with per-sample file links →
- GSE286057 Ovarian cancer metastasis to the human omentum disrupts organ homeostasis and induces fundamental tissue reprogramming 36 samples shares reprogramming, induces
- GSE280564 Reprogramming of normal fibroblasts into ovarian cancer-associated fibroblasts via non-vesicular paracrine signaling induces an activated fibroblast phenotype 12 samples shares reprogramming, induces
- GSE236589 Enhancer reprogramming underlies therapeutic utility of a SMARCA2 degrader in SMARCA4 mutant cancer [ChIP-Seq] 12 samples shares reprogramming, therapeutic
- GSE314430 HDAC4 myonuclear reprogramming underlies denervation and weakness following musculoskeletal trauma 43 samples shares reprogramming, nuclear
- GSE307326 Continuous NRTI-based antiretroviral therapy induces progressive senescence-like reprogramming of alveolar macrophages [snMultiomics] 32 samples shares reprogramming, induces
- GSE303051 Prolonged KRAS-MAPK Inhibition Induces Interferon-mediated Epithelial-to-Mesenchymal Transition and Reveals Therapeutic Opportunities. 30 samples shares therapeutic, induces
- GSE292538 KRAS-Dependent Metabolic Reprogramming of Endothelial Cells as a Therapeutic Vulnerability in Brain Arteriovenous Malformations 18 samples shares reprogramming, therapeutic
- GSE282387 Temozolomide Induces Glioblastoma Dedifferentiation into Highly Malignant Stem-like Cells Through Senescence-Associated Reprogramming via HIF1α/HIF2α Regulation [RNA-seq] 12 samples shares reprogramming, induces
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.