Effect of SLC25A1 knockdown on gene expression during differentiation of human airway basal cells
RNA-seq (gene expression) · human · 30 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
- 30 samples: 6 conditions, mostly with about 5 replicates eachGroups 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
- The oxygen level in air directs airway epithelial cell differentiation by controlling mitochondrial citrate exportScience advances · 2025
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 GSE282141_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 PRJNA1187457 and SRA study SRP545822. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 30 samples.
How we read this: 6 replicated groups read from 30 sample titles; they account for 30 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.
- GSM8636741 shControl, Day 0, 1 shControl, Day 0,
- GSM8636742 shControl, Day 0, 2 shControl, Day 0,
- GSM8636743 shControl, Day 0, 3 shControl, Day 0,
- GSM8636744 shControl, Day 0, 4 shControl, Day 0,
- GSM8636745 shControl, Day 0, 5 shControl, Day 0,
- GSM8636746 shSLC25A1, Day 0, 6 shSLC25A1, Day 0,
- GSM8636747 shSLC25A1, Day 0, 7 shSLC25A1, Day 0,
- GSM8636748 shSLC25A1, Day 0, 8 shSLC25A1, Day 0,
- GSM8636749 shSLC25A1, Day 0, 9 shSLC25A1, Day 0,
- GSM8636750 shSLC25A1, Day 0, 10 shSLC25A1, Day 0,
- GSM8636751 shControl, Day 1, 11 shControl, Day 1,
- GSM8636752 shControl, Day 1, 12 shControl, Day 1,
- GSM8636753 shControl, Day 1, 13 shControl, Day 1,
- GSM8636754 shControl, Day 1, 14 shControl, Day 1,
- GSM8636755 shControl, Day 1, 15 shControl, Day 1,
- GSM8636756 shSLC25A1, Day 1, 16 shSLC25A1, Day 1,
- GSM8636757 shSLC25A1, Day 1, 17 shSLC25A1, Day 1,
- GSM8636758 shSLC25A1, Day 1, 18 shSLC25A1, Day 1,
- GSM8636759 shSLC25A1, Day 1, 19 shSLC25A1, Day 1,
- GSM8636760 shSLC25A1, Day 1, 20 shSLC25A1, Day 1,
- GSM8636761 shControl, Day 2, 21 shControl, Day 2,
- GSM8636762 shControl, Day 2, 22 shControl, Day 2,
- GSM8636763 shControl, Day 2, 23 shControl, Day 2,
- GSM8636764 shControl, Day 2, 24 shControl, Day 2,
- GSM8636765 shControl, Day 2, 25 shControl, Day 2,
- GSM8636766 shSLC25A1, Day 2, 26 shSLC25A1, Day 2,
- GSM8636767 shSLC25A1, Day 2, 27 shSLC25A1, Day 2,
- GSM8636768 shSLC25A1, Day 2, 28 shSLC25A1, Day 2,
- GSM8636769 shSLC25A1, Day 2, 29 shSLC25A1, Day 2,
- GSM8636770 shSLC25A1, Day 2, 30 shSLC25A1, Day 2,
- GSE272860 Hypoxia promotes airway differentiation in the human lung epithelium [Bulk RNA-seq] 18 samples shares airway
- GSE288172 Influence of NIPBL Knockdown-Induced Alterations in Cohesin Loop Extrusion on CTCF Loops, Enhancer-Promoter Connectivity, and PRC Domain Contacts During hESC Differentiation into Pancreatic Lineages 263 samples shares knockdown
- GSE302095 Validation of bronchial airway gene expression associated with bronchiectasis in nasal epithelium 132 samples shares airway
- GSE318547 Infants who develop BPD have an airway endotype defined by vimentin expression and ciliary loss 116 samples shares airway
- GSE242048 The effects of inhaled corticosteroids on healthy airways 116 samples shares airway
- GSE278671 Effect of ATP7A knockdown on gene expression in glioma stem cells 12 samples shares knockdown
- GSE203625 Effect of knockdown of CENPU on gene expression of Huh-7 and MHCC-97H hepatoma cells 12 samples shares knockdown
- GSE279390 Basal/squamous and mixed subtype bladder cancers present poor outcomes after neoadjuvant chemotherapy in the VESPER trial 540 samples shares basal
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.