Coexpression and functions of the colinear genes CD47 and IFT57 in 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
- CD47 and IFT57 Are Colinear Genes That Are Highly Coexpressed in Most Cancers and Exhibit Parallel Cancer-Specific Correlations with SurvivalInternational journal of molecular sciences · 2024
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 GSE254982_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 PRJNA1072737 and SRA study SRP487830. 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.
- GSM8061707 FKRO202185544-1A
- GSM8061708 FKRO202185545-1A
- GSM8061709 FKRO202185546-1A
- GSM8061710 FKRO202185547-1A
- GSM8061711 FKRO202185548-1A
- GSM8061712 FKRO202185549-1A
- GSM8061713 FKRO202185550-1A
- GSM8061714 FKRO202185551-1A
- GSM8061715 FKRO202185552-1A
- GSM8061716 FKRO202185553-1A
- GSM8061717 FKRO202185554-1A
- GSM8061718 FKRO202185555-1A
- GSM8061719 FKRO202185556-1A
- GSM8061720 FKRO202185557-1A
- GSM8061721 FKRO202185558-1A
- GSM8061722 FKRO202185559-1A
- GSM8061723 FKRO202185560-1A
- GSM8061724 FKRO202185561-1A
- GSM8061725 FKRO202185562-1A
- GSM8061726 FKRO202185563-1A
- GSE223765 Mitochondrial SHMT2 is a crucial therapeutic target in dedifferentiated thyroid cancer (2nd study) 65 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
- GSE239976 Transcriptomic profiling of high-density neutrophils in human 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
- GSE294325 Thyroid cancer-associated EZH1 Q571R mutation drives chromatin compaction and H3K27me3 invasion into active chromatin 18 samples same disease briefing · shares thyroid
- GSE288945 Transcriptome Analysis Reveals Sex Disparities in Recurremt and Non-Recurrent Papillary Thyroid Cancer (PTC) 16 samples same disease briefing · shares thyroid
- GSE327924 CRISPR-Based Gene Dependency Screens reveal Mechanism of BRAF Inhibitor Resistance in Anaplastic Thyroid Cancer 16 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.