Transcriptomic characterization of paired primary and recurrent HNSCC tumors
RNA-seq (gene expression) · human · 68 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
- 68 samples
- 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 GSE173855_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 PRJNA727315 and SRA study SRP318532. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 68 more — browse all 68 samples with per-sample file links →
- GSE339484 RNA-seq profiling of 14 paired primary and recurrent glioma cases 28 samples shares recurrent, primary, paired
- GSE286234 Bulk RNA-seq profiling of human head and neck squamous cell carcinoma (HNSCC) with primary tumors and metastatic lymph nodes 10 samples shares hnscc, primary
- GSE254145 Multidimensional analysis of patient-matched primary and recurrent glioblastoma identifies microglial FCGR1A (CD64) and other FCGRs as contributors of tumor recurrence [seq] 79 samples shares recurrent, primary
- GSE221608 Transcriptome sequencing of normal intestinal mucosal tissues, paired primary CRC tissues and liver metastases lesions in participants of CRC 52 samples shares primary, paired
- GSE296345 Paired-end RNA Sequencing on primary human umbilical endothelial cells (HUVEC) exposed to uninfected or bacterially-infected PMA-differentiated macrophage-like U937 for 8 or 24 h 24 samples shares primary, paired
- GSE315534 Single-cell RNA sequencing of primary colorectal cancer, matched adjacent normal tissues, and paired liver metastases 15 samples shares primary, paired
- GSE287301 Single-cell RNA-sequencing of HNSCC-infiltrating T cells 48 samples shares hnscc
- GSE296867 Post-treatment peripheral-blood T cells from HNSCC patients undergoing neoadjuvant immunotherapy treatment. 22 samples shares hnscc
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.