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40
datasets available to search
ShareScore release 0.9.0
Dataset results
40 results for “Cancer of Unknown Primary”
Gemcitabine, Docetaxel, and Capecitabine in Treating Patients With Cancer of Unknown Primary Origin
ClinicalTrials.gov study NCT00119314. IPD Sharing: Not stated. Countries: 1. Publications: 0.
18F-FAPI PET in Cancers of Unknown Primary Site
ClinicalTrials.gov study NCT07372963. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Enabling Genomic Testing in Cancer of Unknown Primary
ClinicalTrials.gov study NCT06695494. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Surgeon-performed Intraoperative Transoral Ultrasound for Cancer of Unknown Primary
ClinicalTrials.gov study NCT05841966. IPD Sharing: NO. Countries: 1. Publications: 0.
Gemcitabine in Treating Patients With Metastatic Cancer of Unknown Primary
ClinicalTrials.gov study NCT00357630. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Contrast Enhanced Mammography in the Evaluation of Cancer of Unknown Primary Syndrome
ClinicalTrials.gov study NCT06843096. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Real-time Targeted Fluorescence Endoscopy for Detection of the Primary Cancer Lesion in Patients With a Metastasis of Unknown Primary Tumor in the Head and Neck
ClinicalTrials.gov study NCT06100081. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Review of Molecular Profiling-Real Time Polymerase Chain Reaction (Rt-Pcr) in Unknown Primary Cancer
ClinicalTrials.gov study NCT00876408. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Pucotenlimab Combined with MRG002 for HER2-positive Cancer of Unknown Primary
ClinicalTrials.gov study NCT06869174. IPD Sharing: NO. Countries: 1. Publications: 0.
Cost-effectiveness Study of miRview™ Mets in Patients With Cancer of Unknown Primary (CUP)
ClinicalTrials.gov study NCT01202786. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Chemotherapy in Treating Patients With Cancer of Unknown Primary Origin
ClinicalTrials.gov study NCT00003558. IPD Sharing: Not stated. Countries: 1. Publications: 0.
FAPI-CUP- Evaluating FAPI as a Novel Radiopharmaceutical for Cancer of Unknown Primary
ClinicalTrials.gov study NCT05263700. IPD Sharing: NO. Countries: 1. Publications: 0.
A Study of Nab-paclitaxel-based Doublet as First Line Therapy in Patients With Cancer of Unknown Primary (CUP)
ClinicalTrials.gov study NCT02607202. IPD Sharing: Not stated. Countries: 1. Publications: 0.
The NorCUP Trial: Improving Prognosis and Personalized Treatment in Cancer of Unknown Primary (CUP)
ClinicalTrials.gov study NCT07366008. IPD Sharing: Not stated. Countries: 1. Publications: 0.
PET/CT: Role in Detecting Unknown Primary Head and Neck Cancer
ClinicalTrials.gov study NCT00656760. IPD Sharing: Not stated. Countries: 1. Publications: 0.
DNA methylation profiles of lymph node tissue of head and neck cancer of unknown primary
GEO Series GSE256413. Homo sapiens. 28 samples. Type: Methylation profiling by genome tiling array.
Expression analysis of cancer of unknown primary (CUP) 1
GEO Series GSE42392. Homo sapiens. 60 samples. Type: Expression profiling by array.
CUPiD, A cfDNA methylation-based tissue-of-origin classifier for Cancers of Unknown Primary - classifier data and code
<p>This repository holds code behind the article "A cfDNA methylation-based tissue-of-origin classifier for Cancers of Unknown Primary" by Conway, Pearce, Clipson et al, <a href="https://www.nature.com/articles/s41467-024-47195-7">published in Nature Communications</a>. This contains the code and data required to generate the CUPiD classifier itself.</p> <p>Data and code to reproduce the figures in the paper are available from <a href="../records/10684337">https://zenodo.org/uploads/10684337</a> (unrestricted).</p> <p>Methyl-Binding Domain protein sequencing (MBD-Seq) was applied to circulating cell-free DNA (cfDNA) samples derived from patients with a range of known cancer types (143 patients), as well as 106 non-cancerous controls (79 used in training). </p> <p>The objects deposited here include R data files containing qseaSets from the R package qsea, which includes the read counts per sample per 300 base pair window across the genome, as well as information on copy number variation and metadata tables. These are provided in the <code>inputFiles/nextflowOutput</code> folder, and are some of the outputs of the nextflow pipeline.</p> <p>The scripts folder contains numbered sub-folders, with numbered scripts within them, which should be ran in order. The scripts are setup to be run on a PBS-Torque system; files ending ".pbs" should be submitted via qsub, files ending ".sh" should be ran on a node and will submit individual jobs within a loop. R scripts without an associated .pbs or .sh file should just be ran directly. All files should be submitted from the base of the repository (e.g. <code>qsub scripts/01-downloadData/01-getRawData.pbs</code>) to set the paths appropriately via the environment variable <code>PBS_O_WORKDIR</code>. </p> <ul> <li><code>01-downloadData</code> contains scripts to download and preprocess all the required data.</li> <li><code>02-qseaSetNextFlowPipeline</code> contains our custom in-house DSL2 Nextflow pipeline which takes fastq files to processed qseaSets, including QC checks. This requires the fastq files which will be deposited in EGA.</li> <li><code>03-convertArrays</code> converts downloaded (pre-processed) arrays into estimated qseaSets (containing solely the array sample), and then mixes each array with each NCC cfDNA at varying proportions.</li> <li><code>04-DMRs</code> calculates pairwise DMRs between each class.</li> <li><code>05-prepForClassifier</code> selects up to 10000 mixture sets per class, and generates a large table suitable for input into the ML model.</li> <li><code>06-fitClassifier</code> fits the ML model using <code>xgboost</code> within the <code>tidymodels</code> framework. This is repeated 100 times with different subsets of the mixture sets as input.</li> <li><code>07-applyClassifier</code> applies these classifiers to the "independent test cohort" - the set of 143 known tumour types, 27 additional NCCs and the 41 patients with CUP. These have been ran through the Nextflow pipeline separately to the 79 NCCs used to derive CUPiD, and have not been used to derive the classifier.</li> <li><code>08-UMAPs</code> generates some UMAPs on the array data.</li> </ul> <p>A subset of these output files are provided in <a href="../records/10684337">https://zenodo.org/uploads/10684337</a> , along with the code to reproduce the figures.</p>
Expression analysis of cancer of unknown primary (CUP) 2
GEO Series GSE125908. Homo sapiens. 74 samples. Type: Expression profiling by array.
Expression analysis of cancer of unknown primary (CUP)
GEO Series GSE125915. Homo sapiens. 134 samples. Type: Expression profiling by array.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.