Amplified dosage of the NKX2-1 lineage transcription factor controls its oncogenic role in lung adenocarcinoma [RNA-seq]
RNA-seq (gene expression) · human · 102 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
- 102 samples: 47 conditions, mostly in duplicateGroups 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
- Amplified dosage of the NKX2-1 lineage transcription factor controls its oncogenic role in lung adenocarcinomaMolecular cell · 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 GSE229541_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 PRJNA954856 and SRA study SRP432310. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 100 samples.
How we read this: 47 replicated groups read from 102 sample titles; they account for 100 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.
- GSM7165190 NCI-H358 sgNT RNA-seq Rep1 NCI-H358 sgNT RNA-seq
- GSM7165191 NCI-H358 sgNT RNA-seq Rep2 NCI-H358 sgNT RNA-seq
- GSM7165192 NCI-H358 sgNT RNA-seq Rep3 NCI-H358 sgNT RNA-seq
- GSM7165193 NCI-H358 sgNKX2-1 RNA-seq Rep1 NCI-H358 sgNKX2-1 RNA-s…
- GSM7165194 NCI-H358 sgNKX2-1 RNA-seq Rep2 NCI-H358 sgNKX2-1 RNA-s…
- GSM7165195 NCI-H358 sgNKX2-1 RNA-seq Rep3 NCI-H358 sgNKX2-1 RNA-s…
- GSM7165196 NCI-H2087 sgNT RNA-seq Rep1 NCI-H2087 sgNT RNA-seq
- GSM7165197 NCI-H2087 sgNT RNA-seq Rep2 NCI-H2087 sgNT RNA-seq
- GSM7165198 NCI-H2087 sgNT RNA-seq Rep3 NCI-H2087 sgNT RNA-seq
- GSM7165199 NCI-H2087 sgNKX2-1 RNA-seq Rep1 NCI-H2087 sgNKX2-1 RNA-…
- GSM7165200 NCI-H2087 sgNKX2-1 RNA-seq Rep2 NCI-H2087 sgNKX2-1 RNA-…
- GSM7165201 NCI-H2087 sgNKX2-1 RNA-seq Rep3 NCI-H2087 sgNKX2-1 RNA-…
- GSM7165202 NCI-H441 sgNT RNA-seq Rep1 NCI-H441 sgNT RNA-seq
- GSM7165203 NCI-H441 sgNT RNA-seq Rep2 NCI-H441 sgNT RNA-seq
- GSM7165204 NCI-H441 sgNT RNA-seq Rep3 NCI-H441 sgNT RNA-seq
- GSM7165205 NCI-H441 sgNKX2-1 RNA-seq Rep1 NCI-H441 sgNKX2-1 RNA-s…
- GSM7165206 NCI-H441 sgNKX2-1 RNA-seq Rep2 NCI-H441 sgNKX2-1 RNA-s…
- GSM7165207 NCI-H441 sgNKX2-1 RNA-seq Rep3 NCI-H441 sgNKX2-1 RNA-s…
- GSM7165208 NCI-H441 shLuc RNA-seq Rep1 NCI-H441 shLuc RNA-seq
- GSM7165209 NCI-H441 shLuc RNA-seq Rep2 NCI-H441 shLuc RNA-seq
- GSM7165210 NCI-H441 shNKX2-1(1) RNA-seq Rep1 NCI-H441 shNKX2-1(1) RN…
- GSM7165211 NCI-H441 shNKX2-1(1) RNA-seq Rep2 NCI-H441 shNKX2-1(1) RN…
- GSM7165212 NCI-H441 shNKX2-1(8) RNA-seq Rep1 NCI-H441 shNKX2-1(8) RN…
- GSM7165213 NCI-H441 shNKX2-1(8) RNA-seq Rep2 NCI-H441 shNKX2-1(8) RN…
- GSM7165214 NCI-H2087 shLuc RNA-seq Rep1 NCI-H2087 shLuc RNA-seq
- GSM7165215 NCI-H2087 shLuc RNA-seq Rep2 NCI-H2087 shLuc RNA-seq
- GSM7165216 NCI-H2087 shNKX2-1(1) RNA-seq Rep1 NCI-H2087 shNKX2-1(1) R…
- GSM7165217 NCI-H2087 shNKX2-1(1) RNA-seq Rep2 NCI-H2087 shNKX2-1(1) R…
- GSM7165218 NCI-H2087 shNKX2-1(8) RNA-seq Rep1 NCI-H2087 shNKX2-1(8) R…
- GSM7165219 NCI-H2087 shNKX2-1(8) RNA-seq Rep2 NCI-H2087 shNKX2-1(8) R…
- GSM8269132 PC9 EF1a-GFP RNA-seq Rep1 PC9 EF1a-GFP RNA-seq
- GSM8269133 PC9 EF1a-GFP RNA-seq Rep2 PC9 EF1a-GFP RNA-seq
- GSM8269134 PC9 EF1a-NKX2-1 RNA-seq Rep1 PC9 EF1a-NKX2-1 RNA-seq
- GSM8269135 PC9 EF1a-NKX2-1 RNA-seq Rep2 PC9 EF1a-NKX2-1 RNA-seq
- GSM8269136 PC9 hPGK-NKX2-1 RNA-seq Rep1 PC9 hPGK-NKX2-1 RNA-seq
- GSM8269137 PC9 hPGK-NKX2-1 RNA-seq Rep2 PC9 hPGK-NKX2-1 RNA-seq
- GSM8269138 NCI-H1975 EF1a-GFP RNA-seq Rep1 NCI-H1975 EF1a-GFP RNA-…
- GSM8269139 NCI-H1975 EF1a-GFP RNA-seq Rep2 NCI-H1975 EF1a-GFP RNA-…
- GSM8269140 NCI-H1975 EF1a-NKX2-1 RNA-seq Rep1 NCI-H1975 EF1a-NKX2-1 R…
- GSM8269141 NCI-H1975 EF1a-NKX2-1 RNA-seq Rep2 NCI-H1975 EF1a-NKX2-1 R…
+ 62 more — browse all 102 samples with per-sample file links →
- GSE189357 Spatiotemporal transcriptional atlas of lung adenocarcinoma from adenocarcinoma in situ to invasive carcinoma [scRNA-seq] 9 samples shares adenocarcinoma, transcription, rna-seq
- GSE205154 Bulk RNA-Seq gene expression data for 289 primary and metastatic pancreatic ductal adenocarcinoma (PDAC) tumor samples from FFPE blocks. 289 samples shares adenocarcinoma, rna-seq
- GSE297742 Bulk RNA-seq of primary tumor biopsy samples from prostate adenocarcinoma patients 234 samples shares adenocarcinoma, rna-seq
- GSE269826 Conserved patterns of transcriptional dysregulation, heterogeneity and cell states in clear cell kidney cancer [scRNA-seq] 79 samples shares transcription, rna-seq
- GSE308103 Single-nucleus RNA-sequencing (snRNA-seq) analysis of normal lung tissues, precursor lung lesions and invasive lung adenocarcinomas 75 samples shares adenocarcinoma, rna-seq
- GSE275721 Lineage master regulator and cancer-selective partner transcription factors rewire 3D genome topology for tumor-specific gene control 72 samples shares transcription, lineage
- GSE273326 A trimeric USP11-USP7-TCEAL1 complex stabilizes paused RNAPII to sustain oncogenic transcription 63 samples shares transcription, oncogenic
- GSE293334 Allelic topological centering by transcription factors drives oncogenic multi-enhancer transcriptional regulation [ChIP-seq] 60 samples shares transcription, oncogenic
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.