1. A multi-analyte panel consisting of extracellular vesicle miRNAs and mRNAs, cfDNA, and CA19-9 shows utility for diagnosis and staging of pancreatic adenocarcinoma
- Author
-
Jina Ko, Neha Bhagwat, David Issadore, Erica L. Carpenter, Hanfei Shen, Andrew Adallah, Jacob Till, Taylor A. Black, Kyle Tien, Andrew Lin, Charles M. Vollmer, Zijian Yang, Bryson W. Katona, Daniel S. Herman, Ben Z. Stanger, Michael J. LaRiviere, Stephanie S. Yee, Theresa Christensen, and Mark H. O'Hara
- Subjects
0301 basic medicine ,Oncology ,Adult ,Male ,Cancer Research ,medicine.medical_specialty ,Pancreatic disease ,endocrine system diseases ,CA-19-9 Antigen ,Adenocarcinoma ,medicine.disease_cause ,Article ,Metastasis ,Machine Learning ,Proto-Oncogene Proteins p21(ras) ,03 medical and health sciences ,Extracellular Vesicles ,0302 clinical medicine ,Internal medicine ,medicine ,Biomarkers, Tumor ,Humans ,Digital polymerase chain reaction ,RNA, Messenger ,Liquid biopsy ,Aged ,Neoplasm Staging ,Aged, 80 and over ,business.industry ,Liquid Biopsy ,Computational Biology ,Extracellular vesicle ,Middle Aged ,medicine.disease ,digestive system diseases ,Pancreatic Neoplasms ,MicroRNAs ,030104 developmental biology ,ROC Curve ,030220 oncology & carcinogenesis ,Mutation ,Biomarker (medicine) ,CA19-9 ,Female ,KRAS ,business ,Cell-Free Nucleic Acids - Abstract
Purpose: To determine whether a multianalyte liquid biopsy can improve the detection and staging of pancreatic ductal adenocarcinoma (PDAC). Experimental Design: We analyzed plasma from 204 subjects (71 healthy, 44 non-PDAC pancreatic disease, and 89 PDAC) for the following biomarkers: tumor-associated extracellular vesicle miRNA and mRNA isolated on a nanomagnetic platform that we developed and measured by next-generation sequencing or qPCR, circulating cell-free DNA (ccfDNA) concentration measured by qPCR, ccfDNA KRAS G12D/V/R mutations detected by droplet digital PCR, and CA19-9 measured by electrochemiluminescence immunoassay. We applied machine learning to training sets and subsequently evaluated model performance in independent, user-blinded test sets. Results: To identify patients with PDAC versus those without, we generated a classification model using a training set of 47 subjects (20 PDAC and 27 noncancer). When applied to a blinded test set (N = 136), the model achieved an AUC of 0.95 and accuracy of 92%, superior to the best individual biomarker, CA19-9 (89%). We next used a cohort of 20 patients with PDAC to train our model for disease staging and applied it to a blinded test set of 25 patients clinically staged by imaging as metastasis-free, including 9 subsequently determined to have had occult metastasis. Our workflow achieved significantly higher accuracy for disease staging (84%) than imaging alone (accuracy = 64%; P < 0.05). Conclusions: Algorithmically combining blood-based biomarkers may improve PDAC diagnostic accuracy and preoperative identification of nonmetastatic patients best suited for surgery, although larger validation studies are necessary.
- Published
- 2020