Trancriptome analysis of tumor tissue to search for the associations between USP8 mutation status, molecular markers of pituitary adenomas, and clinical, and diagnostic parametres of Cushing disease
RNA-seq (gene expression) · human · 16 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
- 16 samples: 14 × pituitary, patient vs 2 × pituitary, patient 29,Groups 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
- Cushing's Disease Manifestation in USP8-Mutated Corticotropinoma May Be Mediated by Interactions Between WNT Signaling and SST TraffickingInternational journal of molecular sciences · 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 GSE263206_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 PRJNA1096270 and SRA study SRP499735. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 2 replicated groups read from 16 sample titles; they account for 16 of them. 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.
- GSM8187601 pituitary, patient 112 pituitary, patient
- GSM8187602 pituitary, patient 29, rep1 pituitary, patient 29,
- GSM8187603 pituitary, patient 61 pituitary, patient
- GSM8187604 pituitary, patient 65 pituitary, patient
- GSM8187605 pituitary, patient 87 pituitary, patient
- GSM8187606 pituitary, patient 126 pituitary, patient
- GSM8187607 pituitary, patient 135 pituitary, patient
- GSM8187608 pituitary, patient 139 pituitary, patient
- GSM8187609 pituitary, patient 144 pituitary, patient
- GSM8187610 pituitary, patient 150 pituitary, patient
- GSM8187611 pituitary, patient 29, rep2 pituitary, patient 29,
- GSM8187612 pituitary, patient 73 pituitary, patient
- GSM8187613 pituitary, patient 77 pituitary, patient
- GSM8187614 pituitary, patient 81 pituitary, patient
- GSM8187615 pituitary, patient 117 pituitary, patient
- GSM8187616 pituitary, patient 120 pituitary, patient
- GSE132982 USP8 mutations determine genes’ expression profile of pituitary corticotroph adenomas, regardless of tumor functional status. 20 samples shares usp8, pituitary, mutation, adenomas
- GSE273150 Targeting USP8 Causes Synthetic Lethality through Degradation of FGFR2 in ARID1A-Deficient Ovarian Clear Cell Carcinoma 12 samples shares usp8
- GSE285943 A reference model for circulating hematopoietic stem cells with applications to diagnostics 299 samples shares diagnostic
- GSE68086 RNA-seq of tumor-educated platelets enables blood-based pan-cancer, multiclass and molecular pathway cancer diagnostics 285 samples shares diagnostic
- GSE279069 The diagnostic and prognostic value of pulmonary virome and its host response for ARDS 209 samples shares diagnostic
- GSE295399 Diagnostic and prognostic biomarkers associated with histotype in advanced epithelial ovarian cancer 146 samples shares diagnostic
- GSE314218 Incorporation of genomic determinants improves diagnostic accuracy of oligomonocytic chronic myelomonocytic leukemia 47 samples shares diagnostic
- GSE271168 irCLIP-RNP reveals patterns of dynamic protein associations on RNA [RNA-seq] 40 samples shares associations
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.