ArticleJCO clinical cancer informatics2019
OCTANE: Oncology Clinical Trial Annotation Engine.
Article in JCO clinical cancer informatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis that pooled it.
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
14 citing papers in PubMed, 1 synthesis or guideline pooled it, 34 citations in OpenAlex.
- Genetically guided precision medicine clinical decision support tools: a systematic review.Journal of the American Medical Informatics Association : JAMIA · 2024Pooled it
- Need Analysis of Clinician-Oriented Integrated Precision Oncology Decision Support Tools: Qualitative Descriptive Study.JMIR human factors · 2025Article
- OncoCTMiner: streamlining precision oncology trial matching via molecular profile analysis.Database : the journal of biological databases and curation · 2023Article
- Implementation and Clinical Adoption of Precision Oncology Workflows Across a Healthcare Network.The oncologist · 2022Article
- MatchMiner: an open-source platform for cancer precision medicine.NPJ precision oncology · 2022Article
- Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles.Applied clinical informatics · 2022Article
- Natural Language Processing-Assisted Literature Retrieval and Analysis for Combination Therapy in Cancer.JCO clinical cancer informatics · 2022Article
- Molecular-based precision oncology clinical decision making augmented by artificial intelligence.Emerging topics in life sciences · 2021Review
- The Future of Clinical Trial Design in Oncology.Cancer discovery · 2021Review
- Using a Personal Health Library-Enabled mHealth Recommender System for Self-Management of Diabetes Among Underserved Populations: Use Case for Knowledge Graphs and Linked Data.JMIR formative research · 2021Article
- Rate of change in investigational treatment options: An analysis of reports from a large precision oncology decision support effort.International journal of medical informatics · 2020Article
- Molecular profiling for precision cancer therapies.Genome medicine · 2020Review
- Operationalization of Next-Generation Sequencing and Decision Support for Precision Oncology.JCO clinical cancer informatics · 2019Review
- OCTANE: Oncology Clinical Trial Annotation Engine.JCO clinical cancer informatics · 2019Article
Corrections and comments
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Authors and funding
11 authors at 2 institutions in 1 country.
Funding
Abstract
purposeMany targeted therapies are currently available only via clinical trials. Therefore, routine precision oncology using biomarker-based assignment to drug depends on matching patients to clinical trials. A comprehensive and up-to-date trial database is necessary for optimal patient-trial matching.
methodsWe describe processes for establishing and maintaining a clinical trial database, focusing on genomically informed trials. Furthermore, we present OCTANE (Oncology Clinical Trial Annotation Engine), an informatics framework supporting these processes in a scalable fashion. To illustrate how the framework can be applied at an institution, we describe how we implemented an instance of OCTANE at a large cancer center. OCTANE consists of three modules. The data aggregation module automates retrieval, aggregation, and update of trial information. The annotation module establishes the database schema, implements data integration necessary for automation, and provides an annotation interface. The update module monitors trial change logs, identifies critical change events, and alerts the annotators when manual intervention may be needed.
resultsUsing OCTANE, we annotated 5,439 oncology clinical trials (4,438 genomically informed trials) that collectively were associated with 1,453 drugs, 779 genes, and 252 cancer types. To date, we have used the database to screen 4,220 patients for trial eligibility. We compared the update module with expert review, and the module achieved 98.5% accuracy, 0% false-negative rate, and 2.3% false-positive rate.
conclusionOCTANE is a general informatics framework that can be helpful for establishing and maintaining a comprehensive database necessary for automating patient-trial matching, which facilitates the successful delivery of personalized cancer care on a routine basis. Several OCTANE components are publically available and may be useful to other precision oncology programs.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.