{"id":870,"date":"2023-07-21T17:50:21","date_gmt":"2023-07-22T00:50:21","guid":{"rendered":"https:\/\/depts.washington.edu\/cfar\/wordpress\/?page_id=870"},"modified":"2026-04-16T12:23:42","modified_gmt":"2026-04-16T19:23:42","slug":"immunology-retrovirology-and-cure-core","status":"publish","type":"page","link":"https:\/\/depts.washington.edu\/cfar\/cores\/immunology-retrovirology-and-cure-core\/","title":{"rendered":"Immunology, Retrovirology and Cure Core"},"content":{"rendered":"<p class=\"intro\">The Immunology, Retrovirology and Cure Core provides advanced tools and training for evaluating humoral and cellular responses to HIV infection.<\/p>\n<p>The assays, reagents, technology, and education offered by the Core support CFAR research involved with the prevention, detection, and treatment of HIV infection and AIDS. Most Core services are used by investigators to help quantify immune responses in plasma, serum, secretions, or cells from HIV-infected patients or lentivirus-infected nonhuman primates. The types and levels of support available from Core faculty are flexible\u2014from quick telephone or email troubleshooting consultations to intensive group trainings on specific technologies; from simple cytometry experiments using one to three colors to cutting-edge experiments using up to 18 colors; and from rapid immune analysis of a few samples for a pilot assessment or hypothesis generation to longer-term collaborations involving joint study design and execution. Services are accessible through our four subcores:<\/p>\n<div class=\"tab-tour  vertical-tour\" id=\"tabs-tour-container\">\n<div class=\"screen-reader-text\"><\/div>\n<div class=\"row\">\n<div class=\"col-3\">\n<ul class=\"nav flex-column nav-pills\" id=\"tab-tour\" role=\"tablist\" aria-orientation=\"vertical\">\n<li class=\"nav-item\" role=\"presentation\"><button role=\"tab\" class=\"nav-link active\" type=\"button\" id=\"title-tab-tour-1\" data-toggle=\"tab\" href=\"#tab-tour-1\"  aria-controls=\"tab-tour-1\" aria-selected=\"true\" >Subcores<\/button><\/li>\n<li class=\"nav-item\" role=\"presentation\"><button role=\"tab\" class=\"nav-link\" type=\"button\" id=\"title-tab-tour-2\" data-toggle=\"tab\" href=\"#tab-tour-2\"  aria-controls=\"tab-tour-2\" aria-selected=\"false\" tabindex=\"-1\">Services<\/button><\/li>\n<li class=\"nav-item\" role=\"presentation\"><button role=\"tab\" class=\"nav-link\" type=\"button\" id=\"title-tab-tour-3\" data-toggle=\"tab\" href=\"#tab-tour-3\"  aria-controls=\"tab-tour-3\" aria-selected=\"false\" tabindex=\"-1\">Resources<\/button><\/li>\n<li class=\"nav-item\" role=\"presentation\"><button role=\"tab\" class=\"nav-link\" type=\"button\" id=\"title-tab-tour-4\" data-toggle=\"tab\" href=\"#tab-tour-4\"  aria-controls=\"tab-tour-4\" aria-selected=\"false\" tabindex=\"-1\">People<\/button><\/li>\n<\/ul>\n<\/div>\n<div class=\"col-9\">\n<div class=\"tab-content\" id=\"tab-content-tab-tour\">\n<div class=\"tab-pane fade show active\" id=\"tab-tour-1\" role=\"tabpanel\" aria-labelledby=\"title-tab-tour-1\" tabindex=\"0\">\n<div class=\"content_block\" id=\"custom_post_widget-875\">\n<div class=\"grid row equal   \">\n<div class=\"col-12  pt-3 pr-3 pb-3 pl-3\">\n<div class=\"card text-left white text-button lightgold \" style=\"width:100%\">\n<div class=\"card-body\">\n<h3 class=\"card-title mb-0\">Cellular Immunity and Flow Cytometry Subcore<\/h3>\n<div class=\"udub-slant-divider\"><span><\/span><\/div>\n<div class=\"card-content\">\n<p>The mission of the flow cytometry subcore is to support all phases of experimental studies using flow cytometry including experimental design, staining panel design, laboratory procedures, collection of samples on the instrument, analysis of data and interpretation of results.<\/p>\n<\/div>\n<p><a href=\"https:\/\/depts.washington.edu\/cfar\/wordpress\/cores\/immunology-retrovirology-and-cure-core\/cellular-immunity-and-flow-cytometry-subcore\/\" class=\"link-arrow-box\"><span>Read more<span class=\"arrow-box\"><span class=\"arrow\"><\/span><\/span><\/a><\/p>\n<\/div>\n<\/div>\n<\/div>\n<div class=\"col-12  pt-3 pr-3 pb-3 pl-3\">\n<div class=\"card text-left white text-button lightgold \" style=\"width:100%\">\n<div class=\"card-body\">\n<h3 class=\"card-title mb-0\">Microbiome Subcore<\/h3>\n<div class=\"udub-slant-divider\"><span><\/span><\/div>\n<div class=\"card-content\">\n<p>The microbiome subcore provides support for all microbiome research including bacterial, viral and fungal components. This includes idea and study development, lab procedures, data\u00a0analysis and interpretation.<\/p>\n<\/div>\n<p><a href=\"https:\/\/depts.washington.edu\/cfar\/cores\/immunology-retrovirology-and-cure-core\/microbiome-subcore\/\" class=\"link-arrow-box\"><span>Read more<span class=\"arrow-box\"><span class=\"arrow\"><\/span><\/span><\/a><\/p>\n<\/div>\n<\/div>\n<\/div>\n<div class=\"col-12  pt-3 pr-3 pb-3 pl-3\">\n<div class=\"card text-left white text-button lightgold \" style=\"width:100%\">\n<div class=\"card-body\">\n<h3 class=\"card-title mb-0\">Mucosal Immunity and Non-Human Primate Immunology Subcore<\/h3>\n<div class=\"udub-slant-divider\"><span><\/span><\/div>\n<div class=\"card-content\">\n<p>Advice in study design and testing of vaccines and therapies in SIV and SHIV monkey models for AIDS and analysis of humoral, cellular, and innate immune responses in the blood and mucosal compartments of nonhuman primates.<\/p>\n<\/div>\n<p><a href=\"https:\/\/depts.washington.edu\/cfar\/wordpress\/cores\/immunology-retrovirology-and-cure-core\/mucosal-immunity-and-non-human-primate-immunology-subcore\/\" class=\"link-arrow-box\"><span>Read more<span class=\"arrow-box\"><span class=\"arrow\"><\/span><\/span><\/a><\/p>\n<\/div>\n<\/div>\n<\/div>\n<\/div>\n<\/div>\n<\/div>\n<div class=\"tab-pane fade show\" id=\"tab-tour-2\" role=\"tabpanel\" aria-labelledby=\"title-tab-tour-2\" tabindex=\"0\">\n<div class=\"content_block\" id=\"custom_post_widget-885\">\n<div class=\"su-spoiler su-spoiler-style-default su-spoiler-icon-caret su-spoiler-closed\" data-scroll-offset=\"0\" data-anchor-in-url=\"no\">\n<div class=\"su-spoiler-title\" role=\"button\"><span class=\"su-spoiler-icon\"><\/span>6-color Naica droplet digital PCR (dPCR) system<\/div>\n<div class=\"su-spoiler-content su-u-clearfix su-u-trim\">\n<p>UW\/Fred Hutch CFAR Immunology Core has used CFAR Administrative Supplement funding to purchase a 6-color Naica droplet digital PCR (dPCR) system. The system provides absolute counts of target copies using up to 6 fluorescent dyes and no standard curve is required.<\/p>\n<p><strong>Workflow<\/strong>: Primers, probes and template are combined with PCR master-mix and transferred to a chip. Partitioning and thermal-cycling, take place in the Geode instrument and the chip is transferred to the Prism instrument for scanning and imaging. Raw data can be viewed and analyzed in the provided Crystal Miner analysis software.<\/p>\n<p><strong>Applications<\/strong>: ddPCR is the ideal technology to quantify nucleic acids with high precision; applications include rare event detection, whole genome amplification and copy number variation. In the Hladik lab, this instrument will allow the team to accurately measure intact HIV proviral reservoirs, get the most HIV-related information from each sample by highly multiplexing, and recover samples after analysis for subsequent sequencing. Multi-color-detection also allows combination of reference assays with assays of interest in the same ddPCR reaction (increasing normalization accuracy), testing of multiple mutational variants in the same reaction, and conservation of limited sample material (e.g., blood from infants or mucosal specimens).<\/p>\n<p><strong>Use<\/strong>: The equipment is now available for use in the Center for Reproductive Sciences in the UW SLU Campus (850 Republican St), building S, room 220. The accompanying analysis software (Crystal Miner) can be installed on a separate PC for post-run analysis outside the lab. The Hladik group has extensive experience running routine ddPCR assays, using ddPCR equipment creatively to design and optimize specialized assays, as well as analyze and visualize raw results using R or excel.<\/p>\n<p>Interested CFAR users will either contract with us to design and run assays for them (clinical scientists), or we will train them to use the equipment, with ongoing technical and assay design assistance (laboratory scientists).<\/p>\n<p>interested parties should contact Florian Hladik at fhladik@fredhutch.org\n<\/p>\n<\/div>\n<\/div>\n<div class=\"su-spoiler su-spoiler-style-default su-spoiler-icon-caret su-spoiler-closed\" data-scroll-offset=\"0\" data-anchor-in-url=\"no\">\n<div class=\"su-spoiler-title\" role=\"button\"><span class=\"su-spoiler-icon\"><\/span>Genome Sequence Analysis<\/div>\n<div class=\"su-spoiler-content su-u-clearfix su-u-trim\">\nWe provide researchers consultation access to Core scientists with leading edge expertise in all current nucleic acid sequencing methodologies, including Sanger, Illumina, PacBio, and Oxford Nanopore platforms. We also provide legacy support for the 454\/pyrosequencing platform. Consulting on HIV genome sequence analysis includes bioinformatic pipeline development, high-performance computing power, and interpretive support from Core staff.\n<\/div>\n<\/div>\n<div class=\"su-spoiler su-spoiler-style-default su-spoiler-icon-caret su-spoiler-closed\" data-scroll-offset=\"0\" data-anchor-in-url=\"no\">\n<div class=\"su-spoiler-title\" role=\"button\"><span class=\"su-spoiler-icon\"><\/span>Retrovirology and Molecular Data Science Core Consulting<\/div>\n<div class=\"su-spoiler-content su-u-clearfix su-u-trim\">\nOur scientists offer consulting to investigators on the experimental design, optimal specimen acquisition, collection and processing, experimental aspects of clinical trial development, data processing and data interpretation, focusing on experiments that acquire molecular sequence data. Areas of expertise include virologic assays, nucleic acid sequence analysis (see below), phylogenetics, molecular epidemiology, viral integration site analysis, and more.<\/p>\n<p>&nbsp;<\/p>\n<p>For General Retrovirology, contact: Alex Greninger, <a href=\"mailto:agrening@uw.edu\">agrening@uw.edu, <\/a>and Pavritra Roychoudhury, <a href=\"mailto:proychou@uw.edu\">proychou@uw.edu<\/a><\/p>\n<p>For HIV Cure, contact: Keith Jerome, <a href=\"mailto:kjerome@uw.edu\">kjerome@uw.edu<\/a>, and Lillian Cohn Cohn, <a href=\"mailto:lcohn@fredhutch.org\">lcohn@fredhutch.org<\/a><\/p>\n<p>For HIV Reservoir Assays, contact: Dara Lehman, <a href=\"mailto:dlehman@uw.edu\">dlehman@uw.edu<\/a>, and Florian Hladik, <a href=\"mailto:fhladik@fredhutch.org\">fhladik@fredhutch.org<\/a><\/p>\n<\/div>\n<\/div>\n<div class=\"su-spoiler su-spoiler-style-default su-spoiler-icon-caret su-spoiler-closed\" data-scroll-offset=\"0\" data-anchor-in-url=\"no\">\n<div class=\"su-spoiler-title\" role=\"button\"><span class=\"su-spoiler-icon\"><\/span>Grants Mentoring and Consulting<\/div>\n<div class=\"su-spoiler-content su-u-clearfix su-u-trim\">\n<p>IRC core members are happy to provide consulting on grant proposals, summary statement review, reviewer comments on manuscripts and experimental design\/methodology. For consultation on a draft grant application, feedback should be solicited at least 2 months prior to the submission deadline. The application does not need to be complete; a draft of specific aims is sufficient. For initial inquiries, contact the IRC Core Administrator (Claire Levy, <a href=\"mailto:clairel@uw.edu\">clairel@uw.edu<\/a>) and she will work with CFAR members to find the right expertise for your needs.<\/p>\n<\/div>\n<\/div>\n<\/div>\n<\/div>\n<div class=\"tab-pane fade show\" id=\"tab-tour-3\" role=\"tabpanel\" aria-labelledby=\"title-tab-tour-3\" tabindex=\"0\">\nEarly Stage Investigator Group<\/p>\n<p>Contact: Claire Levy, <a href=\"mailto:clairel@uw.edu\">clairel@uw.edu<\/a><\/p>\n<\/div>\n<div class=\"tab-pane fade show\" id=\"tab-tour-4\" role=\"tabpanel\" aria-labelledby=\"title-tab-tour-4\" tabindex=\"0\">\n<p><a href=\"https:\/\/www.fredhutch.org\/en\/labs\/profiles\/hladik-florian.html\"><strong>Florian Hladik, PhD<\/strong><\/a><br \/>\nCore Director<\/p>\n<p>Mucosal Immunity and Non-Human Primate Immunology Subcore Director<br \/>\nEmail: fhladik at fredhutch.org<\/p>\n<p><a href=\"https:\/\/www.fredhutch.org\/en\/labs\/profiles\/derosa-stephen.html\"><strong>Stephen De Rosa, MD<\/strong><\/a><br \/>\nCellular Immunity and Flow Cytometry Subcore Director<br \/>\nEmail: sderosa\u00a0at\u00a0fredhutch.org<br \/>\nTelephone: 206-667-1681<\/p>\n<p><strong><a href=\"https:\/\/microbiology.washington.edu\/people\/faculty\/deborah-fuller\" target=\"_blank\" rel=\"noopener\">Deborah Fuller, PhD<\/a><\/strong><br \/>\nNon-Human Primate Immunology Subcore Director<br \/>\nEmail: fullerdh at wanprc.org<\/p>\n<p><a href=\"https:\/\/www.linkedin.com\/in\/sandra-dross-2600b627\"><strong>Sandra Dross, PhD<\/strong><\/a><br \/>\nNon-Human Primate Immunology Subcore Co-Director<br \/>\nEmail: sdross at uw.edu<\/p>\n<p><a href=\"https:\/\/obgyn.uw.edu\/people-of-obgyn\/research-staff\"><b>Claire Levy<\/b><\/a><br \/>\nResearch Scientist, Hladik Lab &amp; Administrative Contact for IRC<br \/>\nEmail: <a href=\"mailto:clairel@uw.edu\">clairel@uw.edu<\/a><\/p>\n<\/div>\n<\/div>\n<\/div>\n<\/div>\n<\/div>\n","protected":false},"excerpt":{"rendered":"<p>The assays, reagents, technology, and education offered by the Core support CFAR research involved with the prevention, detection, and treatment of HIV infection and AIDS. Most Core services are used by investigators to help quantify immune responses in plasma, serum, secretions, or cells from HIV-infected patients or lentivirus-infected nonhuman primates. The types and levels of support available from Core faculty are flexible\u2014from quick telephone or email troubleshooting consultations to intensive group trainings on specific technologies; from simple cytometry experiments using&#8230;<\/p>\n","protected":false},"author":2,"featured_media":871,"parent":109,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"templates\/template-small-hero.php","meta":{"footnotes":""},"class_list":["post-870","page","type-page","status-publish","has-post-thumbnail","hentry"],"_links":{"self":[{"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/pages\/870","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/comments?post=870"}],"version-history":[{"count":10,"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/pages\/870\/revisions"}],"predecessor-version":[{"id":2652,"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/pages\/870\/revisions\/2652"}],"up":[{"embeddable":true,"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/pages\/109"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/media\/871"}],"wp:attachment":[{"href":"https:\/\/depts.washington.edu\/cfar\/wp-json\/wp\/v2\/media?parent=870"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}