Transcriptome Analysis of Oral Submucous fibrosis and its Malignant Transformation
RNA-seq (gene expression) · human · 13 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)
- Topic
- Head and neck cancerThis series is part of our curated briefing on it.
- Samples
- 13 samples: 8 × OSCC_denovo_Sample vs 5 × OSMF_OSCC_SampleGroups 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
- Transcriptomic Profiling Identifies a Distinct Molecular Signature in OSMF-Derived Oral Squamous Cell CarcinomaLife (Basel, Switzerland) · 2026
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 GSE319719_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 PRJNA1425000 and SRA study SRP677787. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 13 samples.
How we read this: 2 replicated groups read from 13 sample titles; they account for 13 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.
- GSM9524410 OSMF_OSCC_Sample1 OSMF_OSCC_Sample
- GSM9524411 OSMF_OSCC_Sample2 OSMF_OSCC_Sample
- GSM9524412 OSMF_OSCC_Sample3 OSMF_OSCC_Sample
- GSM9524413 OSMF_OSCC_Sample4 OSMF_OSCC_Sample
- GSM9524414 OSMF_OSCC_Sample5 OSMF_OSCC_Sample
- GSM9524415 OSCC_denovo_Sample1 OSCC_denovo_Sample
- GSM9524416 OSCC_denovo_Sample2 OSCC_denovo_Sample
- GSM9524417 OSCC_denovo_Sample3 OSCC_denovo_Sample
- GSM9524418 OSCC_denovo_Sample4 OSCC_denovo_Sample
- GSM9524419 OSCC_denovo_Sample5 OSCC_denovo_Sample
- GSM9524420 OSCC_denovo_Sample6 OSCC_denovo_Sample
- GSM9524421 OSCC_denovo_Sample7 OSCC_denovo_Sample
- GSM9524422 OSCC_denovo_Sample8 OSCC_denovo_Sample
- GSE176077 RNA-seq profiling of salivary transcriptome reveals potential diagnostic RNAs and oral microbial dysbiosis in oral squamous cell carcinoma 28 samples same disease briefing · shares oral
- GSE103322 Single cell RNA-seq analysis of head and neck cancer 5901 samples same disease briefing
- GSE181919 Single-cell transcriptome profiling of the stepwise progression of head and neck cancer 37 samples same disease briefing
- GSE139324 Immune landscape of viral- and carcinogen-drived head and neck cancer 63 samples same disease briefing
- GSE162738 Immune gene signatures in oropharyngeal cancers are associated with inverse prognosis by HPV-status 51 samples same disease briefing
- GSE164690 Investigating Immune and Non-Immune Cell Interactions in Head and Neck Tumors by Single-Cell RNA Sequencing 51 samples same disease briefing
- GSE114446 Integrated single-cell and bulk gene expression and ATAC-seq reveals heterogeneity and early changes in pathways associated with resistance to cetuximab in HNSCC-sensitive cell lines 33 samples same disease briefing
- GSE145057 Establishment of a human tongue cancer organoid biobank enables early diagnosis, prognosis, and identification of therapeutic targets 25 samples same disease briefing
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.