Transcriptomic profiling of high-density neutrophils in human thyroid cancer.
RNA-seq (gene expression) · human · 20 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
- Thyroid cancerThis series is part of our curated briefing on it.
- Samples
- 20 samples: 20 samples, each with a distinct title — no replicated groupsGroups 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
- Neutrophil diversity is associated with T-cell immunity and clinical relevance in patients with thyroid cancerCell death discovery · 2024
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 GSE239976_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 PRJNA1001861 and SRA study SRP453151. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 20 sample titles: 20 distinct titles with little repetition. 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.
- GSM7679371 C1_h
- GSM7679372 C2_h
- GSM7679373 C3_h
- GSM7679374 C4_h
- GSM7679375 C5_h
- GSM7679376 C6_h
- GSM7679377 C7_h
- GSM7679378 D3_h
- GSM7679379 D6_h
- GSM7679380 D1_h
- GSM7679381 D2_h
- GSM7679382 HC1_h
- GSM7679383 HC2_h
- GSM7679384 HC4_h
- GSM7679385 HC5_h
- GSM7679386 HC6_h
- GSM7679387 HC7_h
- GSM7679388 HC8_h
- GSM7679389 HC9_h
- GSM7679390 HC10_h
- GSE313389 Single-cell transcriptomic analysis reveals tumor-immune determinants of lymph node colonization and progression in thyroid cancer 10 samples same disease briefing · shares thyroid
- GSE297164 RNA-seq profiling of radioiodine-treated differentiated thyroid cancer cells reveals DDR pathway regulation during iodine tolerance 8 samples same disease briefing · shares thyroid
- GSE223765 Mitochondrial SHMT2 is a crucial therapeutic target in dedifferentiated thyroid cancer (2nd study) 65 samples same disease briefing · shares thyroid
- GSE235216 Single cell RNA sequencing of In vivo mouse xenograft tissues from two human TRa1 anaplastic thyroid cancer cell line 4 samples same disease briefing · shares thyroid
- GSE193581 Anaplastic Transformation Model in Thyroid Cancer Revealed by Single Cell Lineage and Fate Analysis 32 samples same disease briefing · shares thyroid
- GSE254982 Coexpression and functions of the colinear genes CD47 and IFT57 in thyroid cancer 20 samples same disease briefing · shares thyroid
- GSE305211 Carbonic Anhydrase 12 is a Novel Prognostic Biomarker and Therapeutic Target for High-Risk Follicular Thyroid Cancer 19 samples same disease briefing · shares thyroid
- GSE284824 CRISPR/Cas9-mediated deletion of MADD induces cell cycle arrest and apoptosis in anaplastic thyroid cancer cells 18 samples same disease briefing · shares 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.