108a8292fcf88caf44d11cc9b3dc3b9d1b3b8b29
donnak
  Mon Apr 14 09:38:32 2014 -0700
Updated Miga et al., Raney et al., and a few other references to reflect latest publication status.
diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html
index 670e115..32f4f4b 100755
--- src/hg/htdocs/indexNews.html
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@@ -84,31 +84,31 @@
 	<ul>
 	<li>
 	<b>Alternate sequences</b> - Several human chromosomal regions exhibit sufficient 
 	variability to prevent adequate representation by a single sequence. To address this, the 
 	GRCh38 assembly provides alternate sequence for selected variant regions through the 
 	inclusion of  <em>alternate loci scaffolds</em> (or <em>alt loci</em>). Alt loci are 
 	separate accessioned sequences that are aligned to reference chromosomes. This assembly 
 	contains 261 alt loci, many of which are associated with the LRC/KIR area of chr19 and the 
 	MHC region on chr6. (See the 
 	<a href="../cgi-bin/hgTracks?chromInfoPage=">sequences</a> page for a complete list of the 
 	reference chromosomes and alternate sequences in GRCh38.)
 	<li>
 	<b>Centromere representation</b> - Debuting in this release, the large megabase-sized gaps 
 	that were previously used to represent centromeric regions in human assemblies have been 
 	replaced by sequences from centromere models created by 
-	<a href="http://genome.cshlp.org/content/early/2014/02/05/gr.159624.113.abstract"
+	<a href="http://genome.cshlp.org/content/24/4/697.abstract"
 	target="_blank">Karen Miga et al.</a>, using centromere databases developed during her 
 	work in the <a href="http://www.genome.duke.edu/labs/WillardLab/" 
 	target="_blank">Willard lab</a> at 
 	Duke University and analysis software developed while working in the 
 	<a href="http://cbse.soe.ucsc.edu/people/kent" target="_blank">Kent lab</a> at UCSC.
 	The models, which provide the 
 	approximate repeat number and order for each centromere, will be useful for read mapping 
 	and variation studies. 
 	<li>
 	<b>Mitochondrial genome</b> - The mitochondrial reference sequence included in the GRCh38 
 	assembly and hg38 Genome Browser (termed &quot;chrM&quot; in the browser) is the 
 	<a href="http://mitomap.org/bin/view.pl/MITOMAP/HumanMitoSeq" 
 	target="_blank">Revised Cambridge Reference Sequence</a> (rCRS) from 
 	<a href="http://mitomap.org/MITOMAP" target="_blank">MITOMAP</a> with GenBank accession 
 	number J01415.2 and RefSeq accession number NC_012920.1. This differs from the chrM