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80 results for “cfDNA”
MTB cfDNA Levels in TBP
ClinicalTrials.gov study NCT05397730. IPD Sharing: NO. Countries: 1. Publications: 0.
CfDNA in Hereditary And High-risk Malignancies 2
ClinicalTrials.gov study NCT06726642. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
CUPiD: A cfDNA methylation-based tissue-of-origin classifier for Cancers of Unknown Primary - figure generation 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 regenerate all the figures in the paper.</p> <p>The code is structured as follows:</p> <ul> <li><strong>figure_inputs</strong>: Inputs required to generate the figures. Some of these are generated as part of the classifier generation/application process, some are additional clinical data. </li> <li><strong>figure_generation</strong>: RMarkdown reports to generate the figures in the paper, given all the inputs in figures_inputs. These are separate RMarkdown files, and should be self-contained, and are able to be ran directly based on the files within `figure_inputs`. They may be ran in any order, except that CUP_mutation_analysis should be ran after CUPiD_cfDNA_application.</li> </ul> <p>The code will generate outputs in two folders, one called <strong>output</strong> and one called <strong>source_data;</strong> these are provided here for completeness. The source_data folder contains data for Nature Communications Source Data files, including data behind the ROC curves that are too large to be included there, while the output folder generates supplementary data tables and copies of the plots.</p> <p>Data and code to generate the classifier is available upon request from <a href="../records/10678015">https://zenodo.org/uploads/10678015</a>.</p>
Reproducibility archive for HCC detection and post-surgery monitoring using cfDNA methylomes
Open the record for dataset details and reuse information.
Measuring Cell-Free DNA (cfDNA) Levels in People With Follicular Lymphoma
ClinicalTrials.gov study NCT04468841. IPD Sharing: YES. Countries: 1. Publications: 0.
Study in Detection cfDNA for the Early-stage Diagnosis of Acute Rejection Post-renal Transplantation
ClinicalTrials.gov study NCT03759535. IPD Sharing: UNDECIDED. Countries: 0. Publications: 2.
Longitudinal analysis of personal cfDNA methylome patterns in metastatic prostate cancer [plasma]
GEO Series GSE157273. Homo sapiens. 48 samples. Type: Methylation profiling by array.
Methylation analysis of serum cfDNA pooled samples for the discovery of non-invasive biomarkers for colorectal cancer
GEO Series GSE186381. Homo sapiens. 28 samples. Type: Methylation profiling by genome tiling array.
Cytokine, cfDNA levels and tumoral DNA profiling in plasma as biomarkers of response to immunotherapy in hepatocellular carcinoma
GEO Series GSE237791. Homo sapiens. 44 samples. Type: Genome variation profiling by high throughput sequencing.
Total plasma cfDNA methylation in kidney transplant recipients provides insight into acute allograft rejection pathophysiology
GEO Series GSE275017. Homo sapiens. 20 samples. Type: Methylation profiling by high throughput sequencing.
Genome-wide DNA methylation analysis in cfDNA from pancreatic cancer patients
GEO Series GSE150468. Homo sapiens. 6 samples. Type: Methylation profiling by high throughput sequencing.
Study on the Relationship Between Plasma MRD and cfDNA HPV and the Efficacy and Prognosis of Locally Advanced Cervical Cancer After Concurrent Chemoradiotherapy
ClinicalTrials.gov study NCT05950087. IPD Sharing: NO. Countries: 1. Publications: 0.
Feasibility and Clinical Utility of Cell-free DNA (cfDNA) in Identifying Actionable Alterations and Minimal Residual Disease for Lymphoma Patients Across Community Centers in Texas
ClinicalTrials.gov study NCT05676450. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Multi-omics Model for Pancreatic Cancer Screening Using cfDNA
ClinicalTrials.gov study NCT06456281. IPD Sharing: NO. Countries: 1. Publications: 0.
Validation of Donor-Derived Cell-Free DNA (Dd-cfDNA) for Kidney Transplant Monitoring
ClinicalTrials.gov study NCT07060716. IPD Sharing: UNDECIDED. Countries: 2. Publications: 0.
Noninvasive Detection of Lung Nodule Malignancy Using cfDNA Fragmentomics
ClinicalTrials.gov study NCT07399210. IPD Sharing: YES. Countries: 1. Publications: 0.
Plasma MTB cfDNA Before Bronchoscopy
ClinicalTrials.gov study NCT07230457. IPD Sharing: NO. Countries: 1. Publications: 0.
Trifecta-Lung cfDNA-MMDx Study
ClinicalTrials.gov study NCT05837663. IPD Sharing: NO. Countries: 5. Publications: 0.
Assessing AlloSure Dd-cfDNA Monitoring Insights of Renal Allografts With Longitudinal Surveillance
ClinicalTrials.gov study NCT04566055. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
cfDNA in Diagnosis and Differential Diagnosis of Ovarian Endometriosis
ClinicalTrials.gov study NCT04220710. IPD Sharing: Not stated. Countries: 1. Publications: 0.
ScienceDex guides
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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.