{"id":2,"date":"2024-01-24T15:58:25","date_gmt":"2024-01-24T15:58:25","guid":{"rendered":"https:\/\/keck.usc.edu\/statistical-genomics-center\/?page_id=2"},"modified":"2025-02-04T12:23:12","modified_gmt":"2025-02-04T20:23:12","slug":"center-for-statistical-genomics","status":"publish","type":"page","link":"https:\/\/keck.usc.edu\/statistical-genomics-center\/","title":{"rendered":"Center for Statistical Genomics"},"content":{"rendered":"\n\n\n\n\n  \n\n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--hero-primary has-image fifty-fifty horizontal-navigation\"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--hero-primary\"\n    \n      >\n\n    \n      <div class=\"image-container\">\n\n                  \n<div class=\"f--field f--image\">\n\n    \n    \n    \n    \n    \n    \n              \n      <img\n                            data-src=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/wp-content\/uploads\/sites\/101\/2024\/01\/genome-768x432.jpg\"\n          data-srcset=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/wp-content\/uploads\/sites\/101\/2024\/01\/genome-1280x720.jpg 1280w,https:\/\/keck.usc.edu\/statistical-genomics-center\/wp-content\/uploads\/sites\/101\/2024\/01\/genome-768x432.jpg 768w\"          data-sizes=\"(min-width:1200px) 75vw, (min-width:768px) 83vw, 100vw\"          class=\"lazyload\"\n        \n        alt=\"Abstract image of blue squares\"\n        \n                                      \/>\n\n    \n    \n  \n  \n\n<\/div>\n      \n                  \n<div class=\"f--field f--link eyebrow-link\">\n\n    \n    \n  \n<a\n  class=\"link \"\n  href=\"https:\/\/github.com\/USCbiostats\/software-dev\/blob\/master\/happy_scientist\/README.md\"\n  target=\"_blank\"  aria-label=\"Read&#x20;more&#x20;about&#x20;Happy&#x20;Scientist&#x20;Seminars\">\n        Happy Scientist Seminars\n    <\/a>\n\n\n<\/div>\n      \n      \n    <\/div>\n  \n  <div class=\"inner-wrapper has-horizontal-nav\">\n\n          <div class=\"title-wrapper\">\n\n                  <div class=\"eyebrow-container\">\n                              \n<div class=\"f--field f--eyebrow\">\n\n    \n  <a href=\"https:\/\/keck.usc.edu\/pphs\"  aria-label=\"Read more about Department of Population and Public Health Sciences\">Department of Population and Public Health Sciences<\/a>\n\n\n\n<\/div>\n                      <\/div>\n        \n                      \n<div class=\"f--field f--page-title has-stripe\">\n\n    \n  <h1>Center for Statistical Genomics<\/h1>\n\n\n<\/div>\n        \n              <\/div>\n    \n    \n    \n      \n              <div class=\"horizontal-nav\">\n                      <div class=\"horizontal-menu-container\">\n              <button class=\"expand-menu\">\n                                  In This Section\n                                <svg class=\"menu\" version=\"1.1\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\" xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" x=\"0px\"\n                  y=\"0px\" viewBox=\"0 0 35 35\" enable-background=\"new 0 0 35 35\" xml:space=\"preserve\">\n                  <path fill-rule=\"evenodd\" clip-rule=\"evenodd\" fill=\"#000\" d=\"M4,23h3v3H4V23z M4,16h3v3H4V16z M10,23\n                  h21v3H10V23z M10,16h21v3H10V16z M10,9h21v3H10V9z M4,9h3v3H4V9z\"\/>\n                <\/svg>\n\n                <svg class=\"close\" version=\"1.1\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\" xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" x=\"0px\" y=\"0px\"\n                  viewBox=\"0 0 35 35\" enable-background=\"new 0 0 35 35\" xml:space=\"preserve\">\n                  <polygon fill=\"#000\" fill-rule=\"evenodd\" clip-rule=\"evenodd\" points=\"26,10.4 24.6,9 17.5,16.1 10.4,9 9,10.4 16.1,17.5\n                  9,24.6 10.4,26 17.5,18.9 24.6,26 26,24.6 18.9,17.5 \"\/>\n                <\/svg>\n              <\/button>\n\n              <nav\n  class=\"mc--menu mc--\"\n  >\n  <ul class=\"m--menu m--\">\n    \n    \n      <li class=\" menu-item menu-item-type-post_type menu-item-object-page menu-item-home menu-item-15\">\n      <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/\" >Center for Statistical Genomics<\/a>\n  \n  \n<\/li>\n\n    \n      <li class=\" menu-item menu-item-type-post_type menu-item-object-page menu-item-16\">\n      <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/faculty\/\" >Faculty<\/a>\n  \n  \n<\/li>\n\n    \n      <li class=\"has-submenu menu-item menu-item-type-post_type menu-item-object-page menu-item-25 menu-item-has-children\">\n      <div class=\"link-arrow-wrapper\">\n      <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/projects\/\" >Projects<\/a>\n\n      <button class=\"expand-children has-submenu arrow-toggle\" aria-expanded=\"false\" aria-haspopup=\"true\" aria-label=\"Display Submenu for Projects\">\n        <svg height=\"35\" viewBox=\"0 0 35 35\" width=\"35\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\">\n          <path d=\"m17.5 20.2142857 6.2142857-6.2142857 1.2857143 1.2857143-7.5 7.5-7.5-7.5 1.2857143-1.2857143z\" fill=\"#000\" fill-rule=\"evenodd\"\/>\n        <\/svg>\n      <\/button>\n    <\/div>\n  \n      <div class=\"submenus-wrapper\">\n      <div class=\"submenus-wrapper-inner\">\n        <ul class=\"submenu\" aria-hidden=\"true\">\n                      <li class=\" menu-item menu-item-type-post_type menu-item-object-page menu-item-28\">\n      <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/projects\/project-1-integration-of-omic-data-to-estimate-mediation-or-latent-structures\/\" >Project 1:\u00a0Integration of Omic Data to Estimate Mediation or Latent Structures<\/a>\n  \n  \n<\/li>\n                      <li class=\" menu-item menu-item-type-post_type menu-item-object-page menu-item-27\">\n      <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/projects\/project-2-integration-of-omic-data-in-the-analysis-of-gene-x-environment-interaction\/\" >Project 2:\u00a0Integration of Omic Data in the Analysis of Gene \u00d7 Environment Interaction<\/a>\n  \n  \n<\/li>\n                      <li class=\" menu-item menu-item-type-post_type menu-item-object-page menu-item-26\">\n      <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/projects\/project-3-statistical-methods-for-genome-characterization\/\" >Project 3:\u00a0Statistical Methods for Genome Characterization<\/a>\n  \n  \n<\/li>\n                  <\/ul>\n      <\/div>\n    <\/div>\n  \n<\/li>\n\n    \n      <li class=\" menu-item menu-item-type-custom menu-item-object-custom menu-item-30\">\n      <a href=\"https:\/\/github.com\/USCbiostats\" >Software<\/a>\n  \n  \n<\/li>\n\n    \n      <li class=\" menu-item menu-item-type-post_type menu-item-object-page menu-item-17\">\n      <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/publications\/\" >Publications<\/a>\n  \n  \n<\/li>\n\n    \n      <li class=\" menu-item menu-item-type-custom menu-item-object-custom menu-item-31\">\n      <a href=\"https:\/\/github.com\/USCbiostats\/software-dev\/blob\/master\/happy_scientist\/README.md\" >Resources and Events<\/a>\n  \n  \n<\/li>\n\n    \n      <li class=\" menu-item menu-item-type-custom menu-item-object-custom menu-item-43\">\n      <a href=\"https:\/\/keck.usc.edu\/news\/tag\/center-for-statistical-genomics\/\" >News<\/a>\n  \n  \n<\/li>\n\n    \n      <li class=\" menu-item menu-item-type-post_type menu-item-object-page menu-item-33\">\n      <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/contact\/\" >Contact<\/a>\n  \n  \n<\/li>\n\n    \n      <\/ul><!-- m--menu -->\n<\/nav>\n\n            <\/div>\n                  <\/div>\n        <\/div>\n\n\n  <\/div><\/div>\n\n\n\n\n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--rich-text white\"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--rich-text\"\n    \n      >\n\n    \n  <div class=\"inner-wrapper\">\n        \n<div class=\"f--field f--wysiwyg\">\n\n    \n  <h2 style=\"text-align: center;\">Overview<\/h2>\n<p>The genetic epidemiology and clinical course of cancer is increasingly being challenged by big data and high complexity. We aim to develop novel statistical methods to address some of the major problems facing cancer genetic epidemiologists in the \u201comic\u201d era and to illustrate their use for novel discovery, characterization, and prediction in various cancer studies. These methods address a wide range of analysis challenges, including feature selection, mediation, interaction, and characterization, all in the context of integrating prior biological knowledge with epidemiological or clinical data. Our goal is to provide tools for evaluating the impact of potential preventive or therapeutic interventions based on modifiable risk factors.<\/p>\n<p><span style=\"font-weight: 400;\">The majority of this work was funded by the National Cancer Institute #P01CA196569. <\/span><\/p>\n\n\n\n<\/div>\n  <\/div>\n\n\n  <\/div><\/div>\n\n\n\n  \n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--full-width-cta light-gray\"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--full-width-cta\"\n    \n      >\n\n    \n  <div class=\"inner-wrapper\">\n          <div class=\"header-container\">\n\n                      \n<div class=\"f--field f--section-title has-stripe\">\n\n    \n  <h2>\n          Happy Scientist Seminars\n      <\/h2>\n\n\n<\/div>\n                              \n<div class=\"f--field f--description description-medium\">\n\n    \n  <p>Happy Scientist Seminars are educational seminars sponsored by Core D of the Biostats Program Project award (P01 CA196569). This series, the \u201cHappy Scientist\u201d seminar series, is aimed at providing educational material for members of Biostats, both students and faculty, about a variety of tools and methods that might prove useful to them.<\/p>\n\n\n\n<\/div>\n              <\/div>\n    \n          <div class=\"links-container\">\n        \n              \n<div class=\"f--field f--link\">\n\n    \n    \n  \n<a\n  class=\"link \"\n  href=\"https:\/\/github.com\/USCbiostats\/software-dev\/blob\/master\/happy_scientist\/README.md\"\n  target=\"_blank\"  aria-label=\"Read&#x20;more&#x20;about&#x20;View&#x20;Schedule&#x20;and&#x20;Recordings\">\n        View Schedule and Recordings\n    <\/a>\n\n\n<\/div>\n              <\/div>\n      <\/div>\n\n\n  <\/div><\/div>\n\n\n\n            \n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--stacking-cards \"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--stacking-cards\"\n    \n      >\n\n    \n  <div class=\"outer-wrapper\">\n    <div class=\"inner-wrapper\">\n            <div class=\"header-container\">\n                      \n<div class=\"f--field f--section-title\">\n\n    \n  <h2>\n          Projects\n      <\/h2>\n\n\n<\/div>\n        \n              <\/div>\n      \n                <div class=\"cards-container\">\n              \n                  <div class=\"card\">\n\n                      <div class=\"title-description\">\n\n                                                          \n<div class=\"f--field f--cta-title\">\n\n    \n  <h3>\n          <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/projects\/project-1-integration-of-omic-data-to-estimate-mediation-or-latent-structures\/\" >Project 1: Integration of Omic Data to Estimate Mediation or Latent Structures<\/a>\n      <\/h3>\n\n\n<\/div>\n                          \n                                                            \n<div class=\"f--field f--description\">\n\n    \n  <p>This project will develop statistical approaches leveraging latent structures or mediating relationships for the integration of multiple omics data to better understand gene-to-phenotype relationships. The methods will be applicable to either individual-level data or summary statistics, and they will have a direct impact on applied investigations by facilitating a better understanding of potential mechanisms driving underlying cancer etiology.<\/p>\n\n\n\n<\/div>\n                          \n                      <\/div>\n\n\n                      \n                  <\/div>\n\n              \n                  <div class=\"card\">\n\n                      <div class=\"title-description\">\n\n                                                          \n<div class=\"f--field f--cta-title\">\n\n    \n  <h3>\n          <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/projects\/project-2-integration-of-omic-data-in-the-analysis-of-gene-x-environment-interaction\/\" >Project 2: Integration of Omic Data in the Analysis of Gene \u00d7 Environment Interaction<\/a>\n      <\/h3>\n\n\n<\/div>\n                          \n                                                            \n<div class=\"f--field f--description\">\n\n    \n  <p>The availability of high-volume \u2018omic\u2019 data, including gene expression, metabolome, methylation, and microbiome, provides new opportunities to identify gene-environment (G\u00d7E) and omic \u00d7 E interactions. This project will develop statistical methods to leverage omic data to improve power for identifying novel interactions as well as to inform the biological mechanism by which genes and exposures affect cancer outcomes.<\/p>\n\n\n\n<\/div>\n                          \n                      <\/div>\n\n\n                      \n                  <\/div>\n\n              \n                  <div class=\"card\">\n\n                      <div class=\"title-description\">\n\n                                                          \n<div class=\"f--field f--cta-title\">\n\n    \n  <h3>\n          <a href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/projects\/project-3-statistical-methods-for-genome-characterization\/\" >Project 3: Statistical Methods for Genome Characterization<\/a>\n      <\/h3>\n\n\n<\/div>\n                          \n                                                            \n<div class=\"f--field f--description\">\n\n    \n  <p>Understanding the role that genes play in life is a key issue in biomedical sciences, yet the overwhelming majority of sequences in public databases remain uncharacterized. Functional annotation is important for a variety of downstream analyses of genetic data, yet experimental characterization of function remains costly and slow. This project therefore proposes three Aims focused on improving our understanding of functional genomics, thereby allowing better translation of data to knowledge impacting human health.<\/p>\n\n\n\n<\/div>\n                          \n                      <\/div>\n\n\n                      \n                  <\/div>\n\n              \n          <\/div>\n      \n      \n    <\/div>\n\n  <\/div>\n\n\n\n\n\n  <\/div><\/div>\n\n\n\n  \n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--full-width-cta light-gray\"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--full-width-cta\"\n    \n      >\n\n    \n  <div class=\"inner-wrapper\">\n          <div class=\"header-container\">\n\n                      \n<div class=\"f--field f--section-title has-stripe\">\n\n    \n  <h2>\n          View Faculty\n      <\/h2>\n\n\n<\/div>\n                      <\/div>\n    \n          <div class=\"links-container\">\n        \n              \n<div class=\"f--field f--link\">\n\n    \n    \n  \n<a\n  class=\"link \"\n  href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/faculty\/\"\n    aria-label=\"Read&#x20;more&#x20;about&#x20;Faculty\">\n        Faculty\n    <\/a>\n\n\n<\/div>\n              <\/div>\n      <\/div>\n\n\n  <\/div><\/div>\n\n\n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--spacer \"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--spacer\"\n    \n      >\n\n    \n\n  <\/div><\/div>\n\n\n\n        \n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--cta-cards-collection \"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--cta-cards-collection\"\n    \n      >\n\n    \n<div class=\"inner-wrapper\">\n      <div class=\"header-container\">\n                  \n<div class=\"f--field f--section-title\">\n\n    \n  <h2>\n          Cores\n      <\/h2>\n\n\n<\/div>\n      \n      \n      \n    <\/div>\n  \n      <div class=\"cards-container\">\n      \n        <div class=\"card\">\n\n                            <span>\n            \n                                    <h3>Core A: Administrative Core<\/h3>\n                \n                                    <span class=\"card-description\">The administrative core provides scientific oversight, enhances communications among investigators, and supports all of the activities of this program. It works proactively to assure complete synergy across the Research Projects and Cores around the theme of \u201cintegrative genomics\u201d that is the focus of the program.\r\n\r\nLed by Jim Gauderman, PhD and Kimberly Siegmund, PhD\r\n\r\n<\/span>\n                \n                            <\/span>\n                    <\/div>\n      \n        <div class=\"card\">\n\n                            <a href=\"http:\/\/annoq.org\/\" target=\"_blank\">\n            \n                                    <h3>Core B: Annotation Core<\/h3>\n                \n                                    <span class=\"card-description\">Functional annotations of the various omics datasets will be crucial for each project to properly analyze the data and interpret the results. This Core will continue to improve the Annotation Query (AnnoQ) system, the large-scale variant annotation tool and \u201cone-stop-shop\u201d for retrieving external resources (e.g. ENCODE, TCGA, GTEx, etc.), by improving the quality and performance of the system.\r\n\r\nPI: Huaiyu Mi, PhD<\/span>\n                \n                            <\/a>\n                    <\/div>\n      \n        <div class=\"card\">\n\n                            <a href=\"https:\/\/github.com\/USCbiostats\/software-dev\" target=\"_blank\">\n            \n                                    <h3>Core C: Computation and Software Development Core<\/h3>\n                \n                                    <span class=\"card-description\">This Core has the overall goal of providing the Program with support and guidance for all their computational needs as Project investigators develop code for simulation studies and software packages. Attention will be paid to scientific code development, using high-performance computing resources, and adapting research computing code into user friendly software, all adhering to best practices related to reliability, reproducibility, and scalability.\r\n\r\nPI: Paul Marjoram, PhD<\/span>\n                \n                            <\/a>\n                    <\/div>\n      \n        <div class=\"card\">\n\n                            <a href=\"https:\/\/github.com\/USCbiostats\/software-dev\/tree\/master\/happy_scientist\" target=\"_blank\">\n            \n                                    <h3>Core D: Data Analysis and Research Translation Core<\/h3>\n                \n                                    <span class=\"card-description\">The Data Analysis and Research Translation Core will facilitate the application of novel methods developed in this Program to the analysis of complex datasets, accelerating discoveries of genetic and environmental causes of cancer. This Core will also develop educational material for public distribution and run in-person and online training bootcamps to teach investigators use of the methods, software tools, and datasets generated from this program.\r\n\r\nPI: Kim Siegmund, PhD<\/span>\n                \n                            <\/a>\n                    <\/div>\n          <\/div>\n  \n<\/div>\n\n\n\n\n  <\/div><\/div>\n\n\n\n  \n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--full-width-cta white\"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--full-width-cta\"\n    \n      >\n\n    \n  <div class=\"inner-wrapper\">\n          <div class=\"header-container\">\n\n                      \n<div class=\"f--field f--section-title has-stripe\">\n\n    \n  <h2>\n          Publications\n      <\/h2>\n\n\n<\/div>\n                      <\/div>\n    \n          <div class=\"links-container\">\n        \n              \n<div class=\"f--field f--link\">\n\n    \n    \n  \n<a\n  class=\"link \"\n  href=\"https:\/\/keck.usc.edu\/statistical-genomics-center\/publications\/\"\n    aria-label=\"Read&#x20;more&#x20;about&#x20;View&#x20;Our&#x20;Publications\">\n        View Our Publications\n    <\/a>\n\n\n<\/div>\n              <\/div>\n      <\/div>\n\n\n  <\/div><\/div>\n\n\n\n  \n  \n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--featured-articles \"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--featured-articles\"\n    \n      >\n\n    \n<div class=\"inner-wrapper\">\n      <div class=\"header-container\">\n                  \n<div class=\"f--field f--section-title\">\n\n    \n  <h2>\n          News\n      <\/h2>\n\n\n<\/div>\n      \n          <\/div>\n  \n  <div class=\"flex-container \">\n          \n          \n  <\/div>\n<\/div>\n\n\n  <\/div><\/div>\n\n\n\n  \n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--full-width-cta light-gray\"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--full-width-cta\"\n    \n      >\n\n    \n  <div class=\"inner-wrapper\">\n          <div class=\"header-container\">\n\n                      \n<div class=\"f--field f--section-title has-stripe\">\n\n    \n  <h2>\n          Recent Seminars\n      <\/h2>\n\n\n<\/div>\n                      <\/div>\n    \n          <div class=\"links-container\">\n        \n              \n<div class=\"f--field f--link\">\n\n    \n    \n  \n<a\n  class=\"link \"\n  href=\"https:\/\/github.com\/USCbiostats\/software-dev\/tree\/master\/happy_scientist\"\n  target=\"_blank\"  aria-label=\"Read&#x20;more&#x20;about&#x20;view&#x20;seminars\">\n        view seminars\n    <\/a>\n\n\n<\/div>\n              <\/div>\n      <\/div>\n\n\n  <\/div><\/div>\n\n\n\n\n  \n    \n\n\n\n\n\n\n<div\n  class=\"cc--component-container cc--rich-text white\"\n\n  \n  \n  \n  \n  \n  \n  >\n  <div class=\"c--component c--rich-text\"\n    \n      >\n\n    \n  <div class=\"inner-wrapper\">\n        \n<div class=\"f--field f--wysiwyg\">\n\n    \n  <p><strong>Funding by the National Cancer Institute P01 CA196569-07.<\/strong><\/p>\n\n\n\n<\/div>\n  <\/div>\n\n\n  <\/div><\/div>\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":5,"featured_media":6,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":true,"footnotes":""},"class_list":["post-2","page","type-page","status-publish","has-post-thumbnail","hentry"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO Premium plugin v27.3 (Yoast SEO v27.3) - 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