16 papers · ranked by Valyu relevance
Hsin-Chou Yang, Pui-Yan Kwok, Ling-Hui Li, Yi-Min Liu + 139 more
The Taiwan Precision Medicine Initiative (TPMI), a project initiated by the Academia Sinica in collaboration with 16 major medical centers around Taiwan, has recruited 565,390 participants who consented to provide DNA samples for genetic profiling and grant access to their electronic medical records (EMR) for studies…
Claire Bellis, Gabriel Kolle, Jacklyn Yong, Maxime Hebrard + 28 more
Precision medicine (PM) research in recent years has witnessed a remarkable surge in large-scale population genomics programs. In 2017, Singapore initiated the National Precision Medicine (NPM) program, a three-phase national strategy driving PM research, innovation, and enterprise capitalizing on Singapore’s unique…
Shunchang Jiao, Yuxian Bai, Chun Dai, Xiaoman Xu + 6 more
Purpose: A number of studies have suggested that high-throughput genomic analyses might improve the outcomes of cancer patients. However, whether integrative information about genomic sequencing and related clinical interpretation may benefit Chinese cancer patients with stage IV disease to date has not investigated.…
Rupam Bhattacharyya, Min Jin Ha, Qingzhi Liu, Rehan Akbani + 2 more
Personalized network inference on diverse clinical and in vitro model systems across cancer types can be used to delineate specific regulatory mechanisms, uncover drug targets and pathways, and develop individualized predictive models in cancer. We developed TransPRECISE, a multi-scale Bayesian network modeling…
Brett E. Johnson, Allison L. Creason, Jayne M. Stommel, Jamie Keck + 34 more
Metastatic cancers often respond to treatment initially but almost universally escape therapeutic control through molecular mechanisms intrinsic to tumor cells, as well as extrinsic influences from immune cells, stroma, and structural microenvironments. We explore the extent to which we can learn these mechanisms and…
Abhisek Saha, Min Jin Ha, Satwik Acharyya, Veerabhadran Baladandayuthapani
The development and clinical implementation of evidence-based precision medicine strategies has become a realistic possibility, primarily due to the rapid accumulation of large-scale genomics and pharmacological data from diverse model systems: patients, cell-lines and drug perturbation studies. We introduce a novel…
Arno Lukas, Andreas Heinzel, Bernd Mayer
Precision of drugs in clinical development but also of approved treatment sees limits, documented as attrition in clinical stage drug testing and suboptimal number needed to treat in clinical practice. Precision medicine aims at approaching a causal relation of disease pathology, treatment mechanism of action and…
Jayaram Kancherla, Shruti Rao, Krithika Bhuvaneshwar, Rebecca B. Riggins + 4 more
In this work, we introduce CDGnet, an evidence-based network approach for recommending targeted cancer therapies, available as a user-friendly informatics tool. Our approach can be used to expand the range of options of targeted therapies for cancer patients who undergo molecular profiling. It considers biological…
Kristi Lin-Rahardja, Jessica Scarborough, Jacob G Scott
Gene expression signatures predictive of chemotherapeutic response have the potential to greatly extend the reach of precision medicine by allowing medical providers to plan treatment regimens on an individual basis for patients with and without actionable mutations. Most published gene signatures are only capable of…
Saba Ahmadi, Pattara Sukprasert, Natalie Artzi, Samir Khuller + 2 more
The availability of single-cell transcriptomics data opens up new opportunities for designing combination cancer treatments. Mining such data, we employed combinatorial optimization to explore the landscape of optimal combination therapies in solid tumors (including brain, head and neck, melanoma, lung, breast and…
Sanju Sinha, Rahulsimham Vegesna, Saugato Rahman Dhruba, Wei Wu + 10 more
Tailoring the best treatments to cancer patients is an important open challenge. Here, we build a precision oncology data science and software framework for PERsonalized single-Cell Expression-based Planning for Treatments In Oncology (PERCEPTION). Our approach capitalizes on recently published matched bulk and…
Lingli Wang, Rumeng Qu, Qialing Huang, Min Hu + 1 more
Tumor heterogeneity highlights the necessity of precision cancer medicine, making the evaluation and screening of anticancer drugs a core challenge in cancer therapy. However, current cell-based efficacy assessment methods struggle to quantify the holistic impact of drugs on cellular behavior through specific target…
Prabhjot S. Mundi, Filemon S. Dela Cruz, Adina Grunn, Daniel Diolaiti + 47 more
Predicting tumor sensitivity to antineoplastics remains an elusive challenge, with no methods demonstrating predictive power. Joint analysis of tumors—from patients with distinct malignancies who had progressed on multiple lines of therapy—and drug perturbation transcriptional profiles predicted sensitivity to 28 of…
Chris Rackauckas, Vaibhav Dixit, Adam R. Gerlach, Vijay Ivaturi
Personalized precision dosing is about mathematically determining effective dosing strategies that optimize the probability of containing a patient’s outcome within a therapeutic window. However, the common Monte Carlo approach for generating patient statistics is computationally expensive because thousands of…
Alex H Wagner, Brian Walsh, Georgia Mayfield, David Tamborero + 33 more
Precision oncology relies on the accurate discovery and interpretation of genomic variants to enable individualized diagnosis, prognosis, and therapy selection. We found that knowledgebases containing clinical interpretations of somatic cancer variants are highly disparate in interpretation content, structure, and…
Inna Y. Gong, Natalie S. Fox, Paul C. Boutros
Biomarkers are a key component of precision medicine. However, full clinical integration of biomarkers has been met with challenges, partly attributed to analytical difficulties. It has been shown that biomarker reproducibility is susceptible to data preprocessing approaches. Here, we systematically evaluated…