{"id":8177,"date":"2019-12-11T09:31:21","date_gmt":"2019-12-11T14:31:21","guid":{"rendered":"https:\/\/www.med.unc.edu\/tarc\/?page_id=8177"},"modified":"2026-01-07T13:11:21","modified_gmt":"2026-01-07T18:11:21","slug":"phenotyping-precision-medicine-resource-core","status":"publish","type":"page","link":"https:\/\/www.med.unc.edu\/tarc\/cccr\/phenotyping-precision-medicine-resource-core\/","title":{"rendered":"Phenotyping &amp; Precision Medicine Resource Core"},"content":{"rendered":"<h3>Purpose<\/h3>\n<figure id=\"attachment_16432\" class=\"thumbnail wp-caption alignright\" style=\"width: 216px\"><img loading=\"lazy\" decoding=\"async\" class=\"wp-image-16432 \" src=\"https:\/\/www.med.unc.edu\/tarc\/wp-content\/uploads\/sites\/802\/2025\/01\/Amanda-E.-Nelson_Headshot-2024.png\" alt=\"Dr. Amanda Nelson\" width=\"206\" height=\"206\" \/><figcaption class=\"caption wp-caption-text\">Dr. Amanda Nelson, Director of the Phenotyping &amp; Precision Medicine Resource Core<\/figcaption><\/figure>\n<p>The Phenotyping and Precision Medicine Resource Core\u00a0<strong>provides critical services<\/strong> to our research community that broadly include:<\/p>\n<ul style=\"list-style-type: circle\">\n<li><strong>Key scientific expertise and analytic resources needed for\u00a0<em>Prognostic and Prescriptive Phenotyping<\/em><\/strong>\n<ul style=\"list-style-type: square\">\n<li>Consultative services for phenotyping and precision medicine analyses for our research community<\/li>\n<li>Providing educational opportunities relevant to data science approaches in rheumatic and musculoskeletal diseases (RMDs)<\/li>\n<\/ul>\n<\/li>\n<\/ul>\n<ul>\n<li style=\"list-style-type: none\">\n<ul>\n<li style=\"list-style-type: none\"><\/li>\n<\/ul>\n<\/li>\n<\/ul>\n<ul style=\"list-style-type: circle\">\n<li><strong>Guidance and advice to investigators on phenotypic considerations<\/strong><\/li>\n<\/ul>\n<ul>\n<li style=\"list-style-type: none\">\n<ul style=\"list-style-type: square\">\n<li>Development of a high value real-world dataset for OA characterization and phenotyping in collaboration with other CCCRs and multiple entities at UNC<\/li>\n<\/ul>\n<\/li>\n<\/ul>\n<h3>Resource Core Team<\/h3>\n<p><a href=\"https:\/\/marron.web.unc.edu\/\">J.S. Marron (Steve Marron), PhD<\/a>&#8211; Amos Hawley Professor of Statistics and Operations Research<\/p>\n<p><a href=\"https:\/\/sph.unc.edu\/adv_profile\/michael-r-kosorok-phd\/\">Michael Kosorok, PhD<\/a> &#8211; W.R. Kenan, Jr. Distinguished Professor of Biostatistics<\/p>\n<p><a href=\"https:\/\/www.med.unc.edu\/oor\/faculty-database\/faculty-databases\/louise-thoma-pt-dpt-phd\/\">Louise Thoma, PT, DPT, PhD<\/a> &#8211; Assistant Professor of Physical Therapy<\/p>\n<p><a href=\"https:\/\/www.med.unc.edu\/medicine\/rheumatology-allergy-immunology\/people\/astia-allenzara-md-2\/\">Astia Allenzara, MD<\/a> &#8211; Assistant Professor of Medicine in the Division of Rheumatology, Allergy, and Immunology<\/p>\n<h3>Internal Advisory Board<\/h3>\n<p><a href=\"https:\/\/datascience.unc.edu\/person\/terry-magnuson\/\">Terry Magnuson, PhD<\/a> &#8211; Chief Research and Strategy Officer for the UNC School of Data Science and Society (SDSS)<\/p>\n<p><a href=\"https:\/\/www.med.unc.edu\/ppmh\/people\/jonathan-berg\/\">Jonathan Berg, MD, PhD<\/a> &#8211; Director of the Program for Precision Medicine in Health Care (PPMH)<\/p>\n<p><a href=\"https:\/\/tracs.unc.edu\/index.php\/leadership\">Nicholas Shaheen, MD, PhD<\/a> &#8211; PI and Director of NC TraCS<\/p>\n<p><a href=\"https:\/\/tracs.unc.edu\/index.php\/services\/informatics-and-data-science\">Emily Pfaff, PhD, MS<\/a> &#8211; Co-Director of Informatics and Data Science (IDSci) at NC TraCS<\/p>\n<p><a href=\"https:\/\/sph.unc.edu\/adv_profile\/kevin-anstrom-phd-ms\/\">Kevin Anstrom, PhD, MS<\/a> &#8211; Director of the Collaborative Studies Coordinating Center<\/p>\n<h3>Setting You Up For Success<\/h3>\n<p><strong>Note:<\/strong> We invite you to view this recorded presentation on Precision Medicine, featuring Dr. Amanda Nelson: <a href=\"https:\/\/www.med.unc.edu\/ppmh\/home-2\/mini-symposia\/\">\u201cMachine Learning for Phenotyping in OA.\u201d<\/a><\/p>\n<p><img loading=\"lazy\" decoding=\"async\" class=\"wp-image-14717 aligncenter\" src=\"https:\/\/www.med.unc.edu\/tarc\/wp-content\/uploads\/sites\/802\/2023\/01\/Infographic-12623-new.png\" alt=\"Infographic\" width=\"804\" height=\"452\" srcset=\"https:\/\/www.med.unc.edu\/tarc\/wp-content\/uploads\/sites\/802\/2023\/01\/Infographic-12623-new.png 1600w, https:\/\/www.med.unc.edu\/tarc\/wp-content\/uploads\/sites\/802\/2023\/01\/Infographic-12623-new-300x169.png 300w, https:\/\/www.med.unc.edu\/tarc\/wp-content\/uploads\/sites\/802\/2023\/01\/Infographic-12623-new-1024x576.png 1024w, https:\/\/www.med.unc.edu\/tarc\/wp-content\/uploads\/sites\/802\/2023\/01\/Infographic-12623-new-768x432.png 768w, https:\/\/www.med.unc.edu\/tarc\/wp-content\/uploads\/sites\/802\/2023\/01\/Infographic-12623-new-1536x864.png 1536w, https:\/\/www.med.unc.edu\/tarc\/wp-content\/uploads\/sites\/802\/2023\/01\/Infographic-12623-new-600x338.png 600w\" sizes=\"auto, (max-width: 804px) 100vw, 804px\" \/><\/p>\n<h4><\/h4>\n<h3>Resource Core Limitations and Proposed Solutions to Big Data Challenges<\/h3>\n<table style=\"height: 246px;width: 100%;border-collapse: collapse;border-style: solid;border-color: #8babf0\" border=\"2%\">\n<tbody>\n<tr style=\"height: 22px\">\n<td style=\"width: 50%;height: 22px;text-align: center\"><em><strong>Limitations<\/strong><\/em><\/td>\n<td style=\"width: 50%;height: 22px;text-align: center\"><em><strong>Solutions<\/strong><\/em><\/td>\n<\/tr>\n<tr style=\"height: 32px\">\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"315\">Inter-institutional differences (EHR, analytics)<\/td>\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"344\">Obtain and characterize an integrated, multi-practice dataset<\/td>\n<\/tr>\n<tr style=\"height: 32px\">\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"315\">Lack of open-source tools, reporting transparency<\/td>\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"344\">Utilize and develop all tools for open-access use<\/td>\n<\/tr>\n<tr style=\"height: 32px\">\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"315\">Lack of entry points for Early Stage Investigators (ESI)<\/td>\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"344\">Encourage early and ongoing involvement by ESIs<\/td>\n<\/tr>\n<tr style=\"height: 32px\">\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"315\">Insufficient data science workforce<\/td>\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"344\">Provide didactic and hands-on research training in data science<\/td>\n<\/tr>\n<tr style=\"height: 32px\">\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"315\">Limited interpretability\/generalizability of results<\/td>\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"344\">Utilize a real world dataset and ask clinically relevant questions<\/td>\n<\/tr>\n<tr style=\"height: 32px\">\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"315\">Incomplete, missing, fractured data<\/td>\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"344\">Study missingness to understand potential bias, data fusion<\/td>\n<\/tr>\n<tr style=\"height: 32px\">\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"315\">Bias and privacy concerns<\/td>\n<td style=\"width: 50%;height: 32px;text-align: center\" width=\"344\">Utilize a deidentified dataset from a consented population<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<h3>Key Publications<\/h3>\n<ol>\n<li>PMID: 35609053 <a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/35609053\/\">Biclustering reveals potential knee OA phenotypes in exploratory analyses: Data from the Osteoarthritis Initiative. <\/a>Nelson AE, Keefe TH, Schwartz TA, Callahan LF, Loeser RF, Golightly YM, Arbeeva L, Marron JS. PLoS One. 2022 May 24;17(5):e0266964. doi: 10.1371\/journal.pone.0266964. eCollection 2022.PMID: 35609053\u00a0<strong>Free PMC article.<\/strong><\/li>\n<li>PMID: 37527856 <a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/37527856\/\">Precision Medicine-Based Machine Learning Analyses to Explore Optimal Exercise Therapies for Individuals With Knee Osteoarthritis: Random Forest-Informed Tree-Based Learning. <\/a>Kim S, Kosorok MR, Arbeeva L, Schwartz TA, Callahan LF, Golightly YM, Nelson AE, Allen KD. J Rheumatol. 2023 Oct;50(10):1341-1345. doi: 10.3899\/jrheum.2022-1039. Epub 2023 Aug 1.PMID: 37527856\u00a0<strong>Free PMC article.<\/strong><\/li>\n<li>PMID: 31002938 <a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/31002938\/\">A machine learning approach to knee osteoarthritis phenotyping: data from the FNIH Biomarkers Consortium. <\/a>Nelson AE, Fang F, Arbeeva L, Cleveland RJ, Schwartz TA, Callahan LF, Marron JS, Loeser RF. Osteoarthritis Cartilage. 2019 Jul;27(7):994-1001. doi: 10.1016\/j.joca.2018.12.027. Epub 2019 Apr 16.PMID: 31002938\u00a0<strong>Free PMC article.<\/strong><\/li>\n<li>PMID: 36817090 <a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/36817090\/\">Patterns of variation among baseline femoral and tibial cartilage thickness and clinical features: Data from the osteoarthritis initiative. <\/a>Keefe TH, Minnig MC, Arbeeva L, Niethammer M, Xu Z, Shen Z, Chen B, Nissman DB, Golightly YM, Marron JS, Nelson AE. Osteoarthr Cartil Open. 2023 Jan 24;5(1):100334. doi: 10.1016\/j.ocarto.2023.100334. eCollection 2023 Mar.PMID: 36817090\u00a0<strong>Free PMC article.<\/strong><\/li>\n<li>PMID: 32144896 <a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/32144896\/\">Precision Medicine Approach to Develop and Internally Validate Optimal Exercise and Weight-Loss Treatments for Overweight and Obese Adults With Knee Osteoarthritis: Data From a Single-Center Randomized Trial. <\/a>Jiang X, Nelson AE, Cleveland RJ, Beavers DP, Schwartz TA, Arbeeva L, Alvarez C, Callahan LF, Messier S, Loeser R, Kosorok MR. Arthritis Care Res (Hoboken). 2021 May;73(5):693-701. doi: 10.1002\/acr.24179.PMID: 32144896\u00a0<strong>Free PMC article.<\/strong>\u00a0Clinical Trial.<\/li>\n<li>PMID: 35840150\u00a0<a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/35840150\/\">Narrative Review of Machine Learning in Rheumatic and Musculoskeletal Diseases for Clinicians and Researchers: Biases, Goals, and Future Directions. <\/a>Nelson AE, Arbeeva L. J Rheumatol. 2022 Nov;49(11):1191-1200. doi: 10.3899\/jrheum.220326. Epub 2022 Jul 15.PMID: 35840150\u00a0<strong>Free PMC article.<\/strong>\u00a0Review.<\/li>\n<\/ol>\n<hr \/>\n<p><strong><em>For more information, or to speak with someone regarding our Phenotyping and Precision Medicine Core, please contact Amanda Nelson, MD:\u00a0<a href=\"mailto:Amanda_Nelson@med.unc.edu\">Amanda_Nelson@med.unc.edu<\/a>.<\/em><\/strong><\/p>\n<p><strong><em>To initiate the process of requesting information, data, and\/or collaboration from UNC\u2019s CCCR, please complete and submit\u00a0<a href=\"https:\/\/redcap.unc.edu\/surveys\/?s=HR7M8F8A8A\">this form<\/a>.\u00a0<\/em><\/strong><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Purpose The Phenotyping and Precision Medicine Resource Core\u00a0provides critical services to our research community that broadly include: Key scientific expertise and analytic resources needed for\u00a0Prognostic and Prescriptive Phenotyping Consultative services for phenotyping and precision medicine analyses for our research community Providing educational opportunities relevant to data science approaches in rheumatic and musculoskeletal diseases (RMDs) Guidance &hellip; <a href=\"https:\/\/www.med.unc.edu\/tarc\/cccr\/phenotyping-precision-medicine-resource-core\/\" aria-label=\"Read more about Phenotyping &amp; Precision Medicine Resource Core\">Read more<\/a><\/p>\n","protected":false},"author":58060,"featured_media":0,"parent":8173,"menu_order":7,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":false,"layout":"","cellInformation":"","apiCallInformation":"","footnotes":"","_links_to":"","_links_to_target":""},"class_list":["post-8177","page","type-page","status-publish","hentry","odd"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v26.8 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Phenotyping &amp; Precision Medicine Resource Core | Thurston Arthritis Research Center<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.med.unc.edu\/tarc\/cccr\/phenotyping-precision-medicine-resource-core\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Phenotyping &amp; 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