Mechanistic deconvolution reveals DHODH as the key target of the KDM4 inhibitor QC6352 [RNA-Seq]
RNA-seq (gene expression) · human · 14 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
- 14 samples: 5 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.
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 GSE292934_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 PRJNA1242181 and SRA study SRP573188. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 5 replicated groups read from 14 sample titles; they account for 14 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.
- GSM8869721 UT_24hr_n1 UT_24hr_n
- GSM8869722 UT_24hr_n2 UT_24hr_n
- GSM8869723 UT_24hr_n3 UT_24hr_n
- GSM8869724 QC_24hr_n1 QC_24hr_n
- GSM8869725 QC_24hr_n2 QC_24hr_n
- GSM8869726 QC_24hr_n3 QC_24hr_n
- GSM8869727 UT_72_120hr_n1 UT_72_120hr_n
- GSM8869728 UT_72_120hr_n2 UT_72_120hr_n
- GSM8869729 UT_72_120hr_n3 UT_72_120hr_n
- GSM8869730 QC_72hr_n1 QC_72hr_n
- GSM8869731 QC_72hr_n2 QC_72hr_n
- GSM8869732 QC_120hr_n1 QC_120hr_n
- GSM8869733 QC_120hr_n2 QC_120hr_n
- GSM8869734 QC_120hr_n3 QC_120hr_n
- GSE164455 KDM4 inhibition disrupts the core regulatory transcriptional circuitry in MYCN-driven neuroblastoma [RNA-seq] 33 samples shares kdm4, rna-seq
- GSE207013 RNA-seq of KDM4A, B and C siRNA knockdown in NB cells 24 samples shares kdm4, rna-seq
- GSE300083 The Lysine Demethylase Kdm4C is an Oncogenic Driver and Regulates ERK Activity in KRAS Mutant Pancreatic Ductal Adenocarcinoma [RNA-Seq] 12 samples shares kdm4, rna-seq
- GSE139183 KDM4A/KDM4C lysine demethylases sustain an oncogenic transcriptional program in diffuse large B-cell lymphoma [RNA-Seq] 9 samples shares kdm4, rna-seq
- GSE245684 Iron-Dependent KDM4D Activity Controls the Quiescence-Activity Balance of MSCs via the PI3K-Akt-Foxo1 Pathway [RNA-Seq] 9 samples shares kdm4, rna-seq
- GSE220895 Effect of DHODH inhibitor on gene expression in Panc1 cells 6 samples shares dhodh, inhibitor
- GSE220892 Effect of DHODH inhibitor on gene expression in A549 cells 6 samples shares dhodh, inhibitor
- GSE286115 DHODH as a Targetable Metabolic Achilles' Heel for chemo-resistant B-ALL 6 samples shares dhodh, target
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.