deletions | additions       diff --git a/subsection_Comparison_with_SNP_set__.tex b/subsection_Comparison_with_SNP_set__.tex  new file mode 100644  index 0000000..2102fa2  --- /dev/null  +++ b/subsection_Comparison_with_SNP_set__.tex 
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\subsection{Comparison with SNP set from Literature}  \label{sec:comparison-with-snp}  \begin{table}  \centering  \begin{tabular}{ccc}  \textbf{SNP} & \textbf{Chr Region} \textbf{Gene Locus}\\  rs9270986 & 6q21 & HLA\\  rs6679677 & 1p13 & PHTF1-PTPN22\\  rs17696736 & 12q24 & C12orf30\\  rs2292239 & 12q13 & ERBB3\\  rs12708716 & 16p13 & KIAA0350\\  rs2542151 & 18p11 & PTPN2\\  rs3741208 & 11p15 & INS\\  rs17388568 & 4q27 & Tenr-IL2-IL21\\  rs7722135 & 5q14 & Q8WY63\\  rs9653442 & 2q11 & AFF3-LOC150577\\  rs6546909 & 2p13 & DQX1\\  rs2666236 & 10p11 & NRP1\\  \end{tabular}  \caption[Previous GWAS T1D SNPs]{A list of SNPs found by other  researchers to be associated with T1D risk. The first SNP  (rs9270986) yielded the most extreme statistic in the WTCCC analysis  \cite{wellcome07}. Marker names and locations for the remaining 11  SNPs are from Table 1 of \citet{todd07}.}  \label{tab:t1d-snplist-literature}  \end{table}  % email from Rod, Thursday, 10 April 2008 11:28 (Re: Back to T1D)  \citet{todd07} carried out an analysis of 11 SNPs that were found to  be associated with Type 1 Diabetes in genome-wide association studies.  This group of SNPs, in combination with the most informative SNP from  the WTCCC study \cite{wellcome07}, was selected to be compared with  the signature set of 5 SNPs in the present study (see  Table~\ref{tab:t1d-snplist-literature}). The \textsl{structure}  program was used in combination with an AUC analysis to evaluate the  effectiveness of this group of 12 SNPs for 1963 WTCCC T1D cases and  1458 NBS controls (see Figure~\ref{fig:rod-ref-structure-top12} and  Figure~\ref{fig:literature-ROC-analysis}).