{"id":4324,"date":"2015-07-24T17:25:00","date_gmt":"2015-07-24T21:25:00","guid":{"rendered":"https:\/\/www.med.unc.edu\/biochem\/new-antibody-portal-bolsters-biomedical-research-reliability\/"},"modified":"2018-08-01T10:35:33","modified_gmt":"2018-08-01T14:35:33","slug":"new-antibody-portal-bolsters-biomedical-research-reliability","status":"publish","type":"post","link":"https:\/\/www.med.unc.edu\/biochem\/news\/new-antibody-portal-bolsters-biomedical-research-reliability\/","title":{"rendered":"New antibody portal bolsters biomedical research reliability"},"content":{"rendered":"<div>\n<p class=\"lead\">Brian Strahl, PhD at UNC and Scott Rothbart, PhD at Van Andel Research Institute create a robust online interactive database to address science\u2019s \u2018antibody crisis\u2019.<\/p>\n<div class=\"image-section\">\n<figure class=\"thumbnail wp-caption alignright\">\n    <img loading=\"lazy\" decoding=\"async\" class=\"size-medium wp-image-4325\" src=\"https:\/\/www.med.unc.edu\/biochem\/wp-content\/uploads\/sites\/795\/2018\/07\/new-antibody-portal-bolsters-biomedical-research-reliability-image2-254x300.jpeg\" width=\"300\" height=\"200\" alt=\"image2\"\/><figcaption class=\"caption wp-caption-text\">The new portal will help researchers find the right antibody to target their protein of interest (courtesy of Scott Rothbart, PhD)<br \/>\n    <\/figcaption><\/figure>\n<\/div>\n<div>\n<p><span style=\"color: rgb(51, 51, 51); \">July 23, 2015<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">For years, a crisis has been brewing in molecular biology. The problem is that antibodies \u2013 research tools used to identify key proteins at work in a cell \u2013 aren\u2019t always what they seem. Unreliable antibodies have led to numerous instances of false findings, failed experiments, and wasted money and samples.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">Enter the Histone Antibody Specificity Database (<a href=\"http:\/\/www.histoneantibodies.com\/\"><span style=\"color: rgb(51, 51, 51); \">www.histoneantibodies.com<\/span><\/a>), a newly launched online portal that lets scientists find the right antibodies for their research with a much higher degree of confidence than ever before. Rather than relying on the claims of antibody manufacturers, the database is populated with validated test results, allowing researchers to access and compare real-world data and pick the most reliable antibody for each experiment.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">A paper published today in the journal <i>Molecular Cell<\/i> describes the database and the science behind it.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">\u201cI can\u2019t think of any field of biomedical research that doesn\u2019t rely on antibodies; they\u2019re typically the linchpin in many studies,\u201d said Brian D. Strahl, PhD, professor of biochemistry and biophysics in the University of North Carolina School of Medicine and the study\u2019s co-senior author. \u201cBut how reliable are these tools? There\u2019s been a real awakening in the biological community that we need better ways to know if the antibodies are recognizing what they\u2019re intended to recognize. That\u2019s what we aim to accomplish with this portal.\u201d<\/span><\/p>\n<p><img loading=\"lazy\" decoding=\"async\" alt=\"Brian Strahl\" height=\"250\" src=\"http:\/\/news.unchealthcare.org\/images\/portraits\/faculty\/brian-strahl\/@@images\/9ede1b21-3929-4a80-9e7d-88162f398c97.jpeg\" title=\"Brian Strahl\" width=\"250\"\/><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">The web portal focuses on histone antibodies, a subset of antibodies that are central to the fast-growing field of epigenetics. Epigenetics researchers examine how layers of information outside the genome control the \u2018on\u2019 and \u2018off\u2019 state of genes, much like a light switch, that in turn affect all aspects of human health. Scientists use histone antibodies to track the roles of various proteins in this vital process of gene regulation. <\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">\u201cEpigenetic regulation of our genome is at the core of all aspects of biology, and basic research in this area is uncovering key mechanisms that contribute to human health and disease,\u201d said Scott B. Rothbart, PhD, assistant professor in the Center for Epigenetics at Van Andel Research Institute (VARI) and co-corresponding author of the study. \u201cDrugs targeting the epigenetic machinery are being tested in oncology clinics now, and a better understanding of what the antibodies are recognizing will help researchers define more precisely how epigenetics works and ultimately lead to better, stronger conclusions that can make a difference for drug discovery and future therapeutic interventions.\u201d<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \"> Initially developed in the 1970s, laboratory-produced antibodies have been commercially available to scientists for decades. Since then, many researchers have simply ordered antibodies from among the hundreds of thousands on the market, taking their labels at face value. But a growing body of evidence has revealed that an alarming number of antibodies do not perform as advertised.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">Each histone antibody is supposed to bind to a specific protein target, allowing scientists to track where and how that protein is being regulated in healthy and diseased cells. However, some antibodies have been observed binding to other proteins in addition to their primary target while other antibodies have been shown to bind to just one target, but not the target indicated on the product label. In some cases, an antibody\u2019s accuracy and specificity vary from one lot to the next, suggesting quality-control issues in the manufacturing process.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">All of these errors muddy \u2013 and in some cases, completely undermine \u2013 research results.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">While some vendors have stepped up their testing and quality control efforts, others have not, and few researchers have the resources or time to do the battery of tests recommended to ensure their antibodies are performing as indicated.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">The new database offers an easy way to access detailed information about the accuracy and specificity of more than 100 commonly used and commercially available histone antibodies.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">The testing method used to populate the database is based on custom-designed peptide microarrays that Strahl and his colleagues developed. The arrays present a library of all of the chemical modifications or \u201ctags\u201d known to occur on histone proteins. Analyzing antibodies that are developed to target these different tags on the arrays quickly illuminates the types of tags to which each antibody is capable of binding. This matters a lot. Each tag is thought to have a different function. For example, turning a gene \u2018on\u2019 or \u2018off\u2019.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">Once word got out about the team\u2019s peptide array platform, Strahl and his colleagues started fielding calls from other scientists asking for advice on antibody selection. Such interest from the scientific community sparked the team\u2019s idea to buy all of the most common histone antibodies, test them on the array, and publish the results in an online portal accessible to everyone.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">\u201cWe wanted it to be much more than a simple search-and-go database,\u201d Strahl said. \u201cPeptide arrays like the ones we developed are now available commercially, so any researcher, antibody manufacturer, or pharmaceutical company can run these tests. We built the portal so that people can easily upload their own results and the database can continue to grow.\u201d<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">The portal allows users to search for antibodies using multiple parameters. A quality-control plan is in place to ensure the validity of user-submitted data.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">Strahl said he hoped the database would enable more accurate and reproducible epigenetic findings.<\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \">\u201cYou don\u2019t expect every antibody to be 100% perfect, but we think it\u2019s important for researchers to be able to know what the flaws are,\u201d Strahl said. \u201cThat way, at least people can interpret their results with the right amount of caution based on what the antibodies see \u2013 or don\u2019t see.\u201d <\/span><\/p>\n<p><span style=\"color: rgb(51, 51, 51); \"><i>This work was supported by grants from the NIH and the W.M. Keck Foundation<\/i><\/span><\/p>\n<p><span class=\"discreet\" style=\"color: rgb(51, 51, 51); \">Additional UNC coauthors include Terry R. Magnuson, PhD, the Sarah Graham Kenan Professor and chair of the department of genetics in the UNC School of Medicine; Erin Shanle, PhD, a postdoctoral research associate in Strahl\u2019s lab; Jesse R. Raab, PhD, a postdoctoral fellow in Magnuson\u2019s lab; Krzysztof Krajewski, PhD, research assistant professor; and Angela H. Guo, an undergraduate researcher in Strahl\u2019s lab. Other coauthors include Bradley M. Dickson, PhD, a computational biophysicist in Rothbart\u2019s lab at VARI, graduate student Adrian T. Grzbowski and Alexander J. Ruthenburg, PhD, of the University of Chicago; Steven Z. Josefowicz, PhD, and David Allis, PhD, of The Rockefeller University; and Stephen M. Fuchs, PhD, of Tufts University. <\/span><\/p>\n<p><span class=\"discreet\" style=\"color: rgb(51, 51, 51); \">Van Andel Institute (VAI) is an independent biomedical research and science education organization committed to improving the health and enhancing the lives of current and future generations. Established by Jay and Betty Van Andel in 1996 in Grand Rapids, Michigan, VAI has grown into a premier research and educational institution that supports the work of more than 270 scientists, educators and staff. Van Andel Research Institute (VARI), VAI\u2019s research division, is dedicated to determining the epigenetic, genetic, molecular, and cellular origins of cancer, Parkinson\u2019s, and other diseases, and translating those findings into effective therapies. The Institute\u2019s scientists work in on-site laboratories and participate in collaborative partnerships that span the globe. Learn more about Van Andel Institute or donate by visiting <a href=\"http:\/\/www.vai.org\/\"><span style=\"color: rgb(51, 51, 51); \">www.vai.org<\/span><\/a>. 100% To Research, Discovery &amp; Hope\u00ae<\/span><\/p>\n<hr\/>\n<p><span class=\"discreet\" style=\"color: rgb(51, 51, 51); \"><i>Media contacts: <span>Mark Derewicz, UNC School of Medicine, 919-923-0959, <\/span><a href=\"mailto:mark.derewicz@unch.unc.edu\">mark.derewicz@unch.unc.edu<\/a>; <span>Beth Hinshaw Hall, Van Andel Research Institute, 616-234-5519, <\/span><a href=\"mailto:beth.hinshawhall@vai.org\">beth.hinshawhall@vai.org<\/a><\/i><\/span><\/p>\n<\/div>\n<\/div>\n","protected":false},"excerpt":{"rendered":"<p><!-- description --> <\/p>\n<p class='lead'>Brian Strahl, PhD at UNC and Scott Rothbart, PhD at Van Andel Research Institute create a robust online interactive database to address science\u2019s \u2018antibody crisis\u2019.<\/p>\n","protected":false},"author":12066,"featured_media":4325,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"layout":"","cellInformation":"","apiCallInformation":"","footnotes":"","_links_to":"","_links_to_target":""},"categories":[2],"tags":[22,10,29,3,49,26],"class_list":["post-4324","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-news","tag-news_alum","tag-news_faculty","tag-news_2015","tag-news_dept","tag-news_slider","tag-strahl_news","odd"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v26.8 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>New antibody portal bolsters biomedical research reliability | Biochemistry and Biophysics<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" 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