5709a7858d5c197721be66d5218a79124abadb70 lrnassar Tue Mar 17 08:46:31 2026 -0700 Adding alt text to images across static documentation pages, CGI headers, markdown docs, and Pandoc templates. Content images receive AI-generated descriptive alt text; decorative images (icons, spacers, toggles) receive alt="" per WCAG best practice. Also adds Image Descriptions section to the accessibility page, and fixes Pandoc Lua writers to output alt attributes. 67 files, covering help docs, news archive, ENCODE pages, portal pages, and session examples. refs #37254 diff --git src/hg/htdocs/ENCODE/aboutScaleup.html src/hg/htdocs/ENCODE/aboutScaleup.html index 9f9aea30674..e969f40a563 100755 --- src/hg/htdocs/ENCODE/aboutScaleup.html +++ src/hg/htdocs/ENCODE/aboutScaleup.html @@ -1,85 +1,85 @@ <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN"> <HTML> <HEAD> <META HTTP-EQUIV="Content-Type" CONTENT="text/html;CHARSET=iso-8859-1"> <META name="description" content="ENCODE Project at UCSC - About ENCODE Data"> <META name="keywords" content="ENCODE, project, ENCODE project, genome, genome browser, human genome, Blat, UCSC, bioinformatics, gene prediction, SNP, EST, mRNA, NHGRI, NISC"> <TITLE>About ENCODE Data at UCSC</TITLE> <LINK REL="STYLESHEET" HREF="../style/HGStyle.css"> </HEAD> <BODY BGCOLOR="FFF9D2" LINK="0000CC" VLINK="#330066" ALINK="#6600FF"> <A NAME="TOP"></A> <!-- Header Images and links --> <TABLE BORDER=0 CELLPADDING=0 CELLSPACING=0 WIDTH="100%"> <TR> <TH COLSPAN=2 ALIGN="left"> <A HREF="http://www.genome.gov/10005107" TARGET=_BLANK><IMG SRC="../images/ENCODE_scaleup_logo.png" height=50 ALT="ENCODE Project at NHGRI"></A> <A HREF="/ENCODE/"><IMG SRC="../images/encodeAtUcsc.png" ALT="ENCODE Data Coordination Center at UCSC"></A> </TH> </TR> <TR><TD COLSPAN=2 HEIGHT=40><!--#include virtual="../inc/encode.topbar.html"--></TD></TR> <TR HEIGHT="100%" VALIGN="top"><TD VALIGN="top"> <!--outer table is for border purposes--> <TABLE WIDTH="100%" BGCOLOR="#888888" BORDER="0" CELLSPACING="0" CELLPADDING="1"> <TR><TD> <TABLE BGCOLOR="fffee8" WIDTH="100%" BORDER="0" CELLSPACING="0" CELLPADDING="0"> <TR><TD> <TABLE BGCOLOR="fffee8" WIDTH="100%" CELLPADDING=0> <TR><TH HEIGHT=3></TH></TR> <TR><TD WIDTH=10></TD><TD> <br> ENCODE investigators employ a variety of assays and methods to identify functional elements. The discovery and annotation of gene elements is accomplished primarily by sequencing RNA from a diverse range of sources, comparative genomics, integrative bioinformatic methods, and human curation. Regulatory elements are typically investigated through DNA hypersensitivity assays, assays of DNA methylation, and chromatin immunoprecipitation (ChIP) of proteins that interact with DNA, including modified histones and transcription factors, followed by sequencing (ChIP-Seq).</p> <p> <table><tr> -<td><img border=1 src="../images/EncodeDatatypes2013.png" alt="" height="430"></td> +<td><img border=1 src="../images/EncodeDatatypes2013.png" alt="Chart of ENCODE data types and experiments produced through 2013" height="430"></td> </tr><tr> <td><font size=-1>Credits: Darryl Leja (NHGRI), Ian Dunham (EBI), Michael Pazin (NHGRI)</font></td> </tr></table></p> <p> To visualise human ENCODE data at UCSC, open the <a href="../cgi-bin/hgGateway?org=human" target="_blank">Genome Browser</a>, select the February 2009 assembly (GRCh37/hg19) or the March 2006 assembly (NCBI36/hg18) of the human genome, and go to your region of interest. The bulk of the ENCODE data can be found in the <em>Expression</em> and <em>Regulation</em> track groups, with a few in the <em>Mapping</em>, <em>Genes</em>, and <em>Variation</em> groups. Although most participating research groups have provided several tracks, generally only selected data from each research group are displayed by default. Click the hyperlinked name of a particular track to display a page containing configuration options and details about the methods used to generate the data. See the Genome Browser <a href="../goldenPath/help/hgTracksHelp.html" target="_blank">User's Guide</a> for further information about displaying tracks and navigating in the Genome Browser.</p> <p> Data from the earlier ENCODE project pilot phase, which covered approximately 1% of the genome, are available on the March 2006 (NCBI36/hg18), May 2004 (NCBI35/hg17), and July 2003 (NCBI34/hg16) human genome assemblies. The <a href="pilot.html">ENCODE Pilot Project</a> web pages provide convenient browser access to these regions. </P> </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE> <BR> </TD></TR></TABLE> </BODY></HTML>