Glucose deprivation regulates the expression of BACH1-upregulated pro-metastatic genes
RNA-seq (gene expression) · human · 10 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
- 10 samples: 10 samples, each with a distinct title — no replicated groupsGroups 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
- An unexpected role for the ketogenic diet in triggering tumor metastasis by modulating BACH1-mediated transcriptionScience advances · 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 GSE246170_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 PRJNA1031959 and SRA study SRP468275. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 10 sample titles: 10 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.
- GSM7864398 MDA-MB-231 Ctrl#1, 4.5g/L Glc
- GSM7864399 MDA-MB-231 Ctrl#1, 0g/L Glc
- GSM7864400 MDA-MB-231 Ctrl#2, 4.5g/L Glc
- GSM7864401 MDA-MB-231 Ctrl#2, 0g/L Glc
- GSM7864402 MDA-MB-231 BACH1 KO#1, 4.5g/L Glc
- GSM7864403 MDA-MB-231 BACH1 KO#1, 0g/L Glc
- GSM7864404 MDA-MB-231 BACH1 KO#2, 4.5g/L Glc
- GSM7864405 MDA-MB-231 BACH1 KO#2, 0g/L Glc
- GSM7864406 MDA-MB-231 BACH1 KO#3, 4.5g/L Glc
- GSM7864407 MDA-MB-231 BACH1 KO#3, 0g/L Glc
- GSE317139 Effect of glucose deprivation and silencing of transcription factors ATF4 and ATF6 on gene expression in human lung adenocarcinoma cell line A549 36 samples shares deprivation, glucose
- GSE303528 RNA Sequencing Reveals Differential Gene Expression in Human Brain Microvascular Endothelial Cells (HBMECs) Subjected to Oxygen-Glucose Deprivation/Reperfusion (OGD/R) 6 samples shares deprivation, glucose
- GSE309724 Transcriptome profiling of 95D cells in response to glucose or glutamine deprivation. 6 samples shares deprivation, glucose
- GSE234716 KMT2D regulates gene expression through regulating promoters/enhances upon glucose deprivation. 29 samples shares deprivation, glucose
- GSE234640 KMT2D regulates Fanconi anemia pathway genes through regulating promoters/enhances upon glucose deprivation (CHIPseq) 14 samples shares deprivation, glucose
- GSE319878 Interrogating the mechanistic link between neighborhood deprivation and colorectal cancer risk through gene expression analysis of normal colorectal biopsies 171 samples shares deprivation
- GSE271991 Effect of red meat metabolites and nutrient deprivation on gene expression of HCT116 colorectal cancer cells 60 samples shares deprivation
- GSE154938 Glucose-6-Phosphate Dehydrogenase as a Prognostic Predictor Correlates with the Tumor Immune Activity Including Programmed Death Ligand-1 Expression in Merkel Cell Carcinoma 41 samples shares glucose
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.