Single cell profiling of primary and paired metastatic lymph node tumors and adjacent normal thyroid in a papillary thyroid carcinoma patient
Single-cell RNA-seq · human · 3 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
- 3 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 GSE241184_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 PRJNA1006693. 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.
+ 3 more — browse all 3 samples with per-sample file links →
- 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, adjacent, thyroid, normal
- GSE224357 H3K27ac ChIP-seq and RNA-seq of papillary thyroid carcinoma patient's tissues and paired normal tissues 12 samples same disease briefing · shares papillary, thyroid, paired, normal
- GSE212031 Next Generation translatome Sequencing (Ribo-seq) of Papillary Thyroid Carcinoma tissue sample and adjacent normal tissue 8 samples same disease briefing · shares papillary, adjacent, thyroid, normal
- GSE33630 Normal thyrocytes vs papillary vs anaplastic thyroid carcinomas 105 samples same disease briefing · shares papillary, thyroid, normal
- GSE138198 Differentially expression profiling in Hashimoto's thyroiditis (HT), papillary thyroid carcinoma (PTC) with HT in background, PTC without HT in background, micro PTC (mPTC), and three normal thyroid samples (TN). 36 samples same disease briefing · shares papillary, thyroid, normal
- GSE310793 PRECISE: A prognostic thyroid follicular-cell derived gene signature for papillary thyroid carcinoma 109 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
- GSE288945 Transcriptome Analysis Reveals Sex Disparities in Recurremt and Non-Recurrent Papillary Thyroid Cancer (PTC) 16 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.