Dissecting the transcriptomic landscape of the human papillary thyroid carcinoma by single cell RNA-sequencing
Single-cell RNA-seq · human · 7 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Topic
- Thyroid cancerThis series is part of our curated briefing on it.
- Samples
- 7 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.
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 GSE191288_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA790856 and SRA study SRP351665. 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.
+ 7 more — browse all 7 samples with per-sample file links →
- GSE158291 Single-cell transcriptomic landscape reveals the differences in cell differentiation and immune microenvironment of papillary thyroid carcinoma between male and female patients 3 samples same disease briefing · shares papillary, thyroid
- GSE310793 PRECISE: A prognostic thyroid follicular-cell derived gene signature for papillary thyroid carcinoma 109 samples same disease briefing · shares papillary, thyroid
- GSE165724 Transcriptome analysis discloses dysregulated genes in normal appearing tumor-adjacent thyroid tissues from patients with papillary thyroid carcinoma 74 samples same disease briefing · shares papillary, thyroid
- GSE241184 Single cell profiling of primary and paired metastatic lymph node tumors and adjacent normal thyroid in a papillary thyroid carcinoma patient 3 samples same disease briefing · shares papillary, thyroid
- GSE275666 Genomic Characterization of Papillary Thyroid Carcinoma: Age Differences in Tumor Aggressiveness and Immune Infiltration 22 samples same disease briefing · shares papillary, thyroid
- GSE285016 FN1 Shapes the Behavior of Papillary Thyroid Carcinoma through Alternative Splicing of EDB Region 10 samples same disease briefing · shares papillary, thyroid
- GSE299763 Transcriptome analysis of KRT15 knockdown in lenvatinib-resistant papillary thyroid carcinoma cells 6 samples same disease briefing · shares papillary, thyroid
- GSE309678 Diagnostic Value and Clinical Significance of Potential BRAF-related Genes in Papillary Thyroid Carcinoma 4 samples same disease briefing · shares papillary, thyroid
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.