<!DOCTYPE HTML PUBLIC "-//W3C//Dtd HTML 4.01 Transitional//EN"> <html> <head>  <script async src="https://www.googletagmanager.com/gtag/js?id=G-9H47X4K6P6"></script> <script> window.dataLayer = window.dataLayer || []; function gtag(){dataLayer.push(arguments);} gtag('js', new Date()); gtag('config', 'G-9H47X4K6P6'); </script> <link href="/css/style.css" type="text/css" rel="stylesheet">  </head> <div id="header"> <body bgcolor="#ffffff" leftmargin=0 topmargin=0 marginwidth="0" marginheight="0" >  <table width="915" cellpadding=0 cellspacing=0> <tr><td colspan=8 > <table cellpadding=2 cellspacing=0 width="100%" border=0> <TR> <td rowspan=2 colspan=8 valign=middle align="left"> <DIV style=" padding: 5px 5px 5px 5px;vertical-align: middle;"> <DIV style="float:left; display:table-cell; vertical-align: middle; text-align: center; padding: 10px 20px 5px 5px;"> <a href="/" target="_top"><img src="/images/logos/Panther_logo.jpg" ></a> </DIV> <p style="overflow:hidden;font-size:14px">The mission of the PANTHER knowledgebase is to support biomedical and other research by providing<BR> <b>comprehensive information about the evolution of protein-coding gene families</b>, particularly<BR> protein phylogeny, function and genetic variation impacting that function. <a href="/about.jsp">Learn more</a></p> </DIV> </td> </TR> </table> </td> </tr> <TR> <TD align = "left"><div><b>PANTHER19.0 Released. <a href="/news/news20240620.jsp"> Click</a> for more details.</b></div></TD> </TR> <TR><TD> </TD></TR> <TR> <TD colspan=8 bgcolor="#F0F2F5" valign=middle align="left" > <form name="quicksearch" method=GET onSubmit="javascript:submitQuickSearch();"> <input type="hidden" name="searchType" value="basic"> <input type="hidden" name="fieldName" value="all"> <input type="hidden" name="organism" value="all"> <table align="left" border="0" cellspacing="0" cellpadding="0" height="100%"> <tr> <td nowrap height=25><input type="text" name="fieldValue" placeholder="search keyword" size=25 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class="formLabel"> Current Release: <a href="/news/news20240620.jsp"><b>PANTHER 19.0</a></b>  |  <b><a href="/panther/index.jsp">15,683</a></b> family phylogenetic trees  |  <b><a href="/panther/summaryStats.jsp">144</a></b> species  |  <a href="/news/news20240620.jsp">News</a>  <br><A href="/servlet/GenomeFunctionChartServlet?chartType=1&listType=1&annotType=5&species=Homo sapiens">Whole genome function views</A>   </TD> </TR> </table> </div>    <div id="mainbody"> <div class="header1">About PANTHER</div><BR> <div style = "margin: 15px;width:875px;"> The PANTHER (<span class="panther">P</span>rotein <span class="panther">AN</span>alysis <span class="panther">TH</span>rough <span class="panther">E</span>volutionary <span class="panther">R</span>elationships) Classification System was designed to classify proteins (and their genes) in order to facilitate high-throughput analysis. The core of PANTHER is a comprehensive, annotated “library” of gene family phylogenetic trees. All nodes in the tree have persistent identifiers that are maintained between versions of PANTHER, providing a stable substrate for annotations of protein properties like subfamily and function. Each phylogenetic tree is used to annotate each protein member of the family by its: <ol> <li>Family and Protein Class (supergrouping of protein families)</li> <li>Subfamily (subgroup within the family phylogenetic tree)</li> <li>Orthologs (genes in other organisms that derive from the same gene in the MRCA)</li> <li>Paralogs (genes in the same organism that are related by gene duplication)</li> <li>Function (using GO terms annotated on the trees by the <a href = "https://wiki.geneontology.org/index.php/Phylogenetic_Annotation_Project">GO Phylogenetic Annotation Project)</a></li> <li>Pathways (curated by PANTHER and by <a href="https://reactome.org/">Reactome)</a></li> </ol> <BR><BR> The protein-coding gene classification information can be searched on the <a href="/">PANTHER website</a>, or downloaded for genes from the 144 genomes included in the PANTHER trees. For classifications of genes not in the trees, we recommend downloading the <a href="https://github.com/pantherdb/TreeGrafter">TreeGrafter tool</a>, and running it on your own computer. <BR><BR> The PANTHER Classifications are the result of human curation as well as sophisticated bioinformatics algorithms. Details of the methods can be found in (<A target="_blank" href="https://www.ncbi.nlm.nih.gov/pubmed/23193289">Mi et al. NAR 2013</A>; <A href="https://doi.org/10.1002/pro.4218" target="_blank">Thomas et al., Protein Science 2022</A>). <BR><BR> For more information about the data on PANTHER and the relationships between data types, see the <A href="/overview.jsp">"PANTHER Data Overview"</A> figure. PANTHER families and trees are recomputed yearly, to reflect updates in curated PANTHER family boundaries, and updates to the repertoire of protein-coding genes in each genome, and their protein sequences, as represented in <a href="https://www.uniprot.org/help/reference_proteome">UniProt Reference Proteomes</a>. For a detailed description, please refer to the <a href="/dataFlow.jsp"> dataflow document</a> and also the <a href="/inputDataStandards.jsp"> data sources and standards document</a>. <BR><BR> PANTHER receives valuable input from an independent Scientific Advisory Board, consisting of: <ul> <li>Helen Berman (chair), Rutgers University</li> <li>Alex Bateman, European Bioinformatics Institute</li> <li>Christophe Dessimoz, University of Lausanne</li> <li>Peter D'Eustachio, New York University</li> <li>Christine Orengo, University College London</li> </ul> <BR><BR> PANTHER is supported by the National Science Foundation, and maintained by the <a href="https://sites.google.com/usc.edu/thomaslab" target="_blank">Thomas lab at the University of Southern California</a>. Previous versions of PANTHER have been supported by Celera Genomics, and research grants from the National Institute of General Medical Sciences and National Science Foundation. <BR><BR> Version 19.0 (released 2024-06-20) contains 15683 protein families, divided into 128012 functionally distinct protein subfamilies. <BR><BR> <a href="/tou.jsp">PANTHER license and terms of use</a> <BR><BR> </div> </div>   <div id="footer"> <table width="915" cellpadding="0" cellspacing="0" border="0" width="100%"> <tr> <td align="center"> <span class="legal"> <DIV style=" padding: 0px 5px 0px 5px;text-align:center;vertical-align:middle;"> <a href="/about.jsp">About</a>   |   <a href="/releaseInfo.jsp">Release Information</a>   |   <a href="/feedback.jsp">Contact Us</a>   |   <a href="/systemRequirements.jsp">System Requirements</a>   |   <a href="/terms/privacyPolicy.jsp">Privacy Policy</a>   |   <a href="/terms/disclaimer.jsp">Disclaimer</a>     <a href="http://geneontology.org/" target="_top"><img src="/images/logos/go-logo.mini.png" border=0 style="padding: 0px 5px 0px 5px;vertical-align: middle;border:0px"></a> <a href="https://globalbiodata.org/scientific-activities/global-core-biodata-resources" target="_top"><img src="/images/logos/GCBR-Logo-RGB.svg" border=0 width="94px" height="40px" style="vertical-align: middle;border:0px"></a> </DIV> </span> </td> </TR> <TR> <td align="center"> <span class="legal"> © Copyright 2025 Paul Thomas All Rights Reserved.</span> </td> </TR> </table> <br>  </td></tr></table> <script language="JavaScript" type="text/javascript"> if (null === window.name || undefined === window.name) { window.name="panthermain"; } </script> <script language="JavaScript" type="text/javascript" src="/js/popout_window.js"></script> <script language="JavaScript" type="text/javascript" src="/js/cookie.js"></script> <script language="JavaScript" type="text/javascript" src="/js/pubPantherCommon.js"></script> <script language="JavaScript" type="text/javascript" src="/js/pathway.js"></script> <script language="JavaScript" type="text/javascript" src="/js/quicksearch.js"></script> <script language="JavaScript" type="text/javascript" src="/js/registration.js"></script> <script language="JavaScript" type="text/javascript" src="/js/subscription.js"></script> </div>  </body> </html>

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