src/hg/makeDb/trackDb/rgdRatQtl.html 1.2

Index: src/hg/makeDb/trackDb/rgdRatQtl.html
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RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/trackDb/rgdRatQtl.html,v
retrieving revision 1.1
retrieving revision 1.2
diff -b -B -U 1000000 -r1.1 -r1.2
--- src/hg/makeDb/trackDb/rgdRatQtl.html	27 Sep 2007 18:22:02 -0000	1.1
+++ src/hg/makeDb/trackDb/rgdRatQtl.html	21 May 2010 18:52:21 -0000	1.2
@@ -1,48 +1,48 @@
 <H2>Description</H2>
 <P>
 This track shows Rat quantitative trait loci (QTLs) from the 
 <A HREF="http://rgd.mcw.edu" TARGET=_BLANK>Rat Genome Database (RGD)</A> 
 that have been coarsely mapped by UCSC to the $Organism genome using 
 stringently filtered cross-species alignments.  
 A quantitative trait locus (QTL) is a polymorphic locus that contains alleles
 which differentially affect the expression of a continuously distributed 
 phenotypic trait. Usually a QTL is a marker described by statistical 
 association to quantitative variation in the particular phenotypic trait that
 is thought to be controlled by the cumulative action of alleles at multiple 
 loci.</P>
 <P>
 For a comprehensive review of QTL mapping techniques in the rat, see Rapp, 
 J.P. (2000) in the References section below. </P>
 <P>
 To map the Rat QTLs to $Organism, UCSC's chained and netted blastz
 alignments of Rat to $Organism were filtered to retain only those with
 high chain scores (>=500,000).  This removed many valid-but-short
 alignments and in general retained only very long chains (>10,000,
-usually >100,000bp), so that only large regions could be mapped.  This
+usually >100,000 bp), so that only large regions could be mapped.  This
 choice was made because QTLs in general are extremely large and
 approximate regions.  After the alignment filtering, UCSC's liftOver
 program was used to map Rat regions to $Organism via the filtered
 alignments.</P>
 <P>
 To get a sense of how many genomic rearrangments between Rat and
 $Organism are in the region of a particular Rat QTL, you may want to
 view the $Organism Nets track in the Rat $o_date genome browser.  
 In the position/search box, enter the name of the Rat QTL of interest.
 </P>
 
 <H2>Credits</H2>
 <P>
 Thanks to the <A HREF="http://rgd.mcw.edu" TARGET=_blank>RGD</A> for 
 providing the Rat QTLs. RGD is funded by grant HL64541 entitled "Rat 
 Genome Database", awarded to Dr. Howard J Jacob, Medical College of 
 Wisconsin, from the National Heart Lung and Blood Institute 
 (<A HREF="http://www.nhlbi.nih.gov" TARGET=_blank>NHLBI</A>) of the National 
 Institutes of Health (<A HREF="http://www.nih.gov" TARGET =_blank>NIH</A>).
 </P>
 
 <H2>References</H2>
 <P>
 Rapp JP.
 <A HREF="http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=10617767&ordinalpos=3&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum"
 TARGET=_BLANK>Genetic analysis of inherited hypertension in the rat.</A>
 <em>Physiol Rev.</em> 2000 Jan;80(1):135-72.</P>