[{"data":1,"prerenderedAt":-1},["ShallowReactive",2],{"doc-detail-119065-en":3,"doc-seo-119065-105":30,"detail-sidebar-cat-0-en-105":91},{"code":4,"msg":5,"data":6},0,"success",{"doc_id":7,"user_id":8,"nickname":9,"user_avatar":10,"doc_module":4,"category_id":11,"category_name":12,"doc_title":13,"doc_description":14,"doc_content":15,"file_id":16,"file_url":17,"file_type":18,"file_size":19,"view_count":4,"is_deleted":4,"is_public":20,"is_downloadable":20,"audit_status":20,"page_count":21,"language":22,"language_code":23,"site_id":24,"html_lang":23,"table_of_contents":25,"faqs":26,"seo_title":27,"seo_description":14,"update_tm":28,"read_time":29},119065,4398048950312,"Violet","https://ap-avatar.wpscdn.com/avatar/400002538284de19e3c?_k=1778320343897328908",8,"Research & Report","Machine Learning Insights into the 3D Genome - Diversity and Gene Regulation in Human Populations","The dissertation investigates how machine learning can reveal insights from the three-dimensional genome, focusing on population-level diversity and gene regulation in human groups. It connects computational genomic approaches with spatial genome organization to better understand regulatory variation across populations. Research methods and findings are framed within a formal UCSF graduate thesis context, with contributions shaped through mentorship, program guidance, and iterative academic development. The work culminates in a peer-reviewed thesis/dissertation submission at the University of California, San Francisco.","UCSF  \nUC San Francisco Electronic Theses and Dissertations  \nTitle  \nMachine Learning Insights into the 3D Genome: Diversity and Gene Regulation in Human Populations  \nPermalink  \n[https://escholarship.org/uc/item/7zk8d4rk](https://escholarship.org/uc/item/7zk8d4rk)  \nAuthor  \nGilbertson, Erin Nicole  \nPublication Date  \n2024  \nPeer reviewed|Thesis/dissertation  \n[eScholarship.org](eScholarship.org) Powered by the California Digital Library  \nUniversity of California  \n􀀑􀀙􀀛 !$􀀝 􀀐􀀝􀀙'$!$ 􀀍$(! )( !$)% ) 􀀝 􀀃􀀈 􀀋􀀝$%\\#􀀝􀀄  \n􀀈!+􀀝'(!), 􀀙$􀀜 􀀋􀀝$􀀝 􀀕􀀝 *\"􀀙)!%$ !$ 􀀌*\\#􀀙$ 􀀔%&*\"􀀙)!%$(  \nby  \n􀀉'!$ 􀀒!􀀛%\"􀀝 􀀋!\"􀀚􀀝')(%$  \n􀀈􀀍􀀖􀀖􀀉􀀕􀀗􀀅􀀗􀀍􀀓􀀒  \nSubmitted in partial satisfaction of the requirements for degree of 􀀈􀀓􀀇􀀗􀀓􀀕 􀀓􀀊 􀀔􀀌􀀍􀀐􀀓􀀖􀀓􀀔􀀌􀀘  \nin  \n􀀆!%\"% !􀀛􀀙\" 􀀙$􀀜 􀀑􀀝􀀜!􀀛􀀙\" 􀀍$􀀞%'\\#􀀙)!􀀛( in the  \nGRADUATE DIVISION of the  \nUNIVERSITY OF CALIFORNIA, SAN FRANCISCO  \nApproved:  \n􀀎% $ 􀀅􀀂 􀀇􀀙&'􀀙  \n\n| Chair\u003Cbr>􀀏􀀙) 􀀝'!$􀀝 􀀖􀀂 􀀔%\"\"􀀙'􀀜 |\n| --- |\n| 􀀉\"& 􀀝 􀀝 􀀔􀀂 􀀒%'􀀙 |\n|  |\n\n______________________________________________________________________________  \nCommittee Members  \nCopyright 2024 by Erin Nicole Gilbertson  \nii  \nFor Grandma Vicki  \niii  \nACKNOWLEDGEMENTS  \nWriting this acknowledgments section has been, in some ways, both the most challenging and meaningful part of my dissertation. Each time I've attempted to put my gratitude into words over the past two months, I’ve been overwhelmed by memories of the incredible people who have made this journey possible. Now, in this final week, I’m filled with deep appreciation for those without whom I would not have reached this point.  \nFirst and foremost, I’d like to thank my incredible support system at UCSF in the Capra Lab. Dr. Tony Capra, you have been an exceptional mentor and advisor these past three years. After finding myself lab-less following my second year at UCSF, you welcomed me into your lab and guided me through the challenge of completing my qualifying exam on time with the rest of my cohort. Together, we developed a project I’m truly proud of, and I’ve learned so much from the experience. You foster an incredible lab environment filled with some of the best people I know.  \nA heartfelt thank you to Evonne McArthur, Sarah Fong, Keila Velázquez-Arcelay, David Rinker, and all the Vanderbilt folks who welcomed me so warmly as the first UCSF student in your lab. Your mentorship and inspiration have been invaluable over the years. Colin Brand, I couldn’t have asked for a better labmate to join at the same time. You are an outstanding postdoc, an incredible friend, an amazing mentor, and simply one of the best people I know.  \nTo Manu, Oge, and Chimno—I wish I’d had more time with you, but I know the lab is fortunate to have you all! And to my fellow grad students—Grace, Seb, Ava, Hannah, Yaen, Allison, Gyasu, and Ashvin—you are all brilliant, kind, and thoughtful. I can’t wait to see the amazing things you’ll continue to accomplish!  \nI’m incredibly grateful to my committee members, Katie Pollard and Elphege Nora, whose support and feedback made our meetings something I actually looked forward to. Your insights and encouragement have been essential in shaping my research and helping me grow as a scientist.  \nA big thank you to Ryan Hernandez and Tony Capra, the directors of the Biological and Medical Informatics program, for your leadership and guidance throughout my PhD. Your dedication to the program and your students has been truly inspiring, and I’m so thankful for the opportunities you’ve provided.  \nRebecca Dawson, our amazing program manager, deserves a special shoutout for keeping everything running smoothly—which is honestly nothing short of a miracle. Your organizational skills and constant support have been a lifesaver.  \nAnd to my cohort—Laura Shub, Scott Nanda, Zach Cutts, Tianna Grant, Aiden Winters, and Hasuni Alkhairo—thank you for the laughs, camaraderie, and shared experiences that made this journey so much more enjoyable. I’m so lucky to have gone through this with such an awesome group of people.  \nThis journe","cbCaidaI43309Jr7","https://ap.wps.com/l/cbCaidaI43309Jr7","pdf",14137018,1,180,"English","en",105,"# Acknowledgements","[{\"question\":\"Who is acknowledged for mentorship and lab support?\",\"answer\":\"The acknowledgements thank UCSF support in the Capra Lab, including Dr. Tony Capra and other lab and program members who provided mentorship, guidance, and a welcoming research environment.\"},{\"question\":\"What is the main research focus of the dissertation?\",\"answer\":\"The dissertation centers on using machine learning to gain insights into the 3D genome, especially regarding diversity and gene regulation across human populations.\"},{\"question\":\"What institutions and academic collaborators are mentioned?\",\"answer\":\"The document references UCSF and earlier academic work at the University of Minnesota, including supervisors and committee members involved in early training and thesis-related guidance.\"}]","Machine Learning Insights into the 3D Genome - Diversity and Gene Regulation in Human Populations | PDF",1785722163,454,{"code":4,"msg":31,"data":32},"ok",{"site_id":24,"language":23,"slug":33,"title":13,"keywords":34,"description":14,"schema_data":35,"social_meta":86,"head_meta":88,"extra_data":90,"updated_unix":28},"machine-learning-insights-into-the-3d-genome-diversity-and-gene-regulation-in-human-populations","",{"@graph":36,"@context":85},[37,54,68],{"@type":38,"itemListElement":39},"BreadcrumbList",[40,44,48,51],{"item":41,"name":42,"@type":43,"position":20},"https://docshare.wps.com","Home","ListItem",{"item":45,"name":46,"@type":43,"position":47},"https://docshare.wps.com/document/","Document",2,{"item":49,"name":12,"@type":43,"position":50},"https://docshare.wps.com/document/research-report/",3,{"item":52,"name":13,"@type":43,"position":53},"https://docshare.wps.com/document/machine-learning-insights-into-the-3d-genome-diversity-and-gene-regulation-in-human-populations/119065/",4,{"url":52,"name":13,"@type":55,"author":56,"headline":13,"publisher":58,"fileFormat":61,"inLanguage":23,"description":14,"dateModified":62,"datePublished":62,"encodingFormat":61,"isAccessibleForFree":63,"interactionStatistic":64},"DigitalDocument",{"name":9,"@type":57},"Person",{"url":41,"name":59,"@type":60},"DocShare","Organization","application/pdf","2026-08-03",true,{"@type":65,"interactionType":66,"userInteractionCount":4},"InteractionCounter",{"@type":67},"ViewAction",{"@type":69,"mainEntity":70},"FAQPage",[71,77,81],{"name":72,"@type":73,"acceptedAnswer":74},"Who is acknowledged for mentorship and lab support?","Question",{"text":75,"@type":76},"The acknowledgements thank UCSF support in the Capra Lab, including Dr. Tony Capra and other lab and program members who provided mentorship, guidance, and a welcoming research environment.","Answer",{"name":78,"@type":73,"acceptedAnswer":79},"What is the main research focus of the dissertation?",{"text":80,"@type":76},"The dissertation centers on using machine learning to gain insights into the 3D genome, especially regarding diversity and gene regulation across human populations.",{"name":82,"@type":73,"acceptedAnswer":83},"What institutions and academic collaborators are mentioned?",{"text":84,"@type":76},"The document references UCSF and earlier academic work at the University of Minnesota, including supervisors and committee members involved in early training and thesis-related guidance.","https://schema.org",{"og:url":52,"og:type":87,"og:title":13,"og:site_name":59,"og:description":14},"article",{"robots":89,"canonical":52},"index,follow",{"doc_id":7,"site_id":24},{"code":4,"msg":5,"data":92},[93,97,101,105,110,115,120,123,128,131,135],{"id":20,"doc_module":4,"doc_module_name":46,"category_name":94,"show_sort_weight":95,"slug":96},"Story & Novel",90,"story-novel",{"id":47,"doc_module":4,"doc_module_name":46,"category_name":98,"show_sort_weight":99,"slug":100},"Literature",80,"literature",{"id":53,"doc_module":4,"doc_module_name":46,"category_name":102,"show_sort_weight":103,"slug":104},"Exam",70,"exam",{"id":106,"doc_module":4,"doc_module_name":46,"category_name":107,"show_sort_weight":108,"slug":109},5,"Comic",60,"comic",{"id":111,"doc_module":4,"doc_module_name":46,"category_name":112,"show_sort_weight":113,"slug":114},6,"Technology",50,"technology",{"id":116,"doc_module":4,"doc_module_name":46,"category_name":117,"show_sort_weight":118,"slug":119},7,"Healthcare",40,"healthcare",{"id":11,"doc_module":4,"doc_module_name":46,"category_name":12,"show_sort_weight":121,"slug":122},30,"research-report",{"id":124,"doc_module":4,"doc_module_name":46,"category_name":125,"show_sort_weight":126,"slug":127},9,"Religion & Spirituality",20,"religion-spirituality",{"id":126,"doc_module":4,"doc_module_name":46,"category_name":129,"show_sort_weight":126,"slug":130},"World Cup","world-cup",{"id":132,"doc_module":4,"doc_module_name":46,"category_name":133,"show_sort_weight":132,"slug":134},10,"Lifestyle","lifestyle",{"id":136,"doc_module":4,"doc_module_name":46,"category_name":137,"show_sort_weight":106,"slug":138},19,"General","general"]