1036 lines
45 KiB
HTML
1036 lines
45 KiB
HTML
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xmlns:o="urn:schemas-microsoft-com:office:office"
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xmlns:w="urn:schemas-microsoft-com:office:word"
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xmlns:m="http://schemas.microsoft.com/office/2004/12/omml"
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xmlns="http://www.w3.org/TR/REC-html40">
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|
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<head>
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<meta http-equiv=Content-Type content="text/html; charset=windows-1252">
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<meta name=ProgId content=Word.Document>
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<meta name=Generator content="Microsoft Word 12">
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<meta name=Originator content="Microsoft Word 12">
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<link rel=File-List href="supplementary_material_files/filelist.xml">
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<link rel=Edit-Time-Data href="supplementary_material_files/editdata.mso">
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<!--[if !mso]>
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<style>
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v\:* {behavior:url(#default#VML);}
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o\:* {behavior:url(#default#VML);}
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w\:* {behavior:url(#default#VML);}
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.shape {behavior:url(#default#VML);}
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</style>
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<![endif]-->
|
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<title>Supplementary material</title>
|
||
<!--[if gte mso 9]><xml>
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<o:DocumentProperties>
|
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<o:Author>Lakshmin</o:Author>
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<o:Template>Normal</o:Template>
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<o:LastAuthor>lakshmin</o:LastAuthor>
|
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<o:Revision>80</o:Revision>
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<o:TotalTime>1088</o:TotalTime>
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<o:Created>2007-09-20T15:53:00Z</o:Created>
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<o:LastSaved>2010-04-29T17:37:00Z</o:LastSaved>
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<o:Version>12.00</o:Version>
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</o:DocumentProperties>
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</xml><![endif]-->
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<link rel=themeData href="supplementary_material_files/themedata.thmx">
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<link rel=colorSchemeMapping
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href="supplementary_material_files/colorschememapping.xml">
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<!--[if gte mso 9]><xml>
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<w:WordDocument>
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<w:Zoom>102</w:Zoom>
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<w:DontDisplayPageBoundaries/>
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<w:TrackMoves>false</w:TrackMoves>
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<w:TrackFormatting/>
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<w:DisplayHorizontalDrawingGridEvery>2</w:DisplayHorizontalDrawingGridEvery>
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<w:DisplayVerticalDrawingGridEvery>2</w:DisplayVerticalDrawingGridEvery>
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<w:ValidateAgainstSchemas/>
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<w:SaveIfXMLInvalid>false</w:SaveIfXMLInvalid>
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<w:IgnoreMixedContent>false</w:IgnoreMixedContent>
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<w:AlwaysShowPlaceholderText>false</w:AlwaysShowPlaceholderText>
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<w:DoNotPromoteQF/>
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<w:LidThemeOther>EN-US</w:LidThemeOther>
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<w:LidThemeAsian>X-NONE</w:LidThemeAsian>
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<w:LidThemeComplexScript>X-NONE</w:LidThemeComplexScript>
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<w:Compatibility>
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<w:BreakWrappedTables/>
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<w:SnapToGridInCell/>
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<w:WrapTextWithPunct/>
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<w:UseAsianBreakRules/>
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<w:DontGrowAutofit/>
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<w:SplitPgBreakAndParaMark/>
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<w:DontVertAlignCellWithSp/>
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<w:DontBreakConstrainedForcedTables/>
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<w:DontVertAlignInTxbx/>
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<w:Word11KerningPairs/>
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<w:CachedColBalance/>
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</w:Compatibility>
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<w:BrowserLevel>MicrosoftInternetExplorer4</w:BrowserLevel>
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<m:mathPr>
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<m:mathFont m:val="Cambria Math"/>
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<m:dispDef/>
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<m:intLim m:val="subSup"/>
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<m:naryLim m:val="undOvr"/>
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</m:mathPr></w:WordDocument>
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</xml><![endif]--><!--[if gte mso 9]><xml>
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<w:LatentStyles DefLockedState="false" DefUnhideWhenUsed="false"
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DefSemiHidden="false" DefQFormat="false" LatentStyleCount="267">
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<w:LsdException Locked="false" QFormat="true" Name="Normal"/>
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<w:LsdException Locked="false" QFormat="true" Name="heading 1"/>
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<w:LsdException Locked="false" SemiHidden="true" UnhideWhenUsed="true"
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<w:LsdException Locked="false" SemiHidden="true" UnhideWhenUsed="true"
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<w:LsdException Locked="false" SemiHidden="true" UnhideWhenUsed="true"
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<w:LsdException Locked="false" SemiHidden="true" UnhideWhenUsed="true"
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QFormat="true" Name="heading 8"/>
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<w:LsdException Locked="false" SemiHidden="true" UnhideWhenUsed="true"
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QFormat="true" Name="heading 9"/>
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<w:LsdException Locked="false" SemiHidden="true" UnhideWhenUsed="true"
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QFormat="true" Name="caption"/>
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<w:LsdException Locked="false" QFormat="true" Name="Title"/>
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<w:LsdException Locked="false" Priority="1" Name="Default Paragraph Font"/>
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<w:LsdException Locked="false" QFormat="true" Name="Subtitle"/>
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<w:LsdException Locked="false" QFormat="true" Name="Strong"/>
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<w:LsdException Locked="false" QFormat="true" Name="Emphasis"/>
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<w:LsdException Locked="false" Priority="99" Name="No List"/>
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<w:LsdException Locked="false" Priority="99" SemiHidden="true"
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Name="Placeholder Text"/>
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<w:LsdException Locked="false" Priority="1" QFormat="true" Name="No Spacing"/>
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<w:LsdException Locked="false" Priority="64" Name="Medium Shading 2"/>
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<w:LsdException Locked="false" Priority="65" Name="Medium List 1"/>
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<w:LsdException Locked="false" Priority="66" Name="Medium List 2"/>
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<w:LsdException Locked="false" Priority="67" Name="Medium Grid 1"/>
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<w:LsdException Locked="false" Priority="68" Name="Medium Grid 2"/>
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<w:LsdException Locked="false" Priority="69" Name="Medium Grid 3"/>
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<w:LsdException Locked="false" Priority="70" Name="Dark List"/>
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<w:LsdException Locked="false" Priority="71" Name="Colorful Shading"/>
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<w:LsdException Locked="false" Priority="72" Name="Colorful List"/>
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<w:LsdException Locked="false" Priority="73" Name="Colorful Grid"/>
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<w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 1"/>
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<w:LsdException Locked="false" Priority="61" Name="Light List Accent 1"/>
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<w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 1"/>
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<w:LsdException Locked="false" Priority="30" QFormat="true"
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<w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 1"/>
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<w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 1"/>
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<w:LsdException Locked="false" Priority="70" Name="Dark List Accent 1"/>
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<w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 1"/>
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<w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 1"/>
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<w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 1"/>
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<w:LsdException Locked="false" Priority="61" Name="Light List Accent 2"/>
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<w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 2"/>
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<w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 2"/>
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<w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 2"/>
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<w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 2"/>
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<w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 2"/>
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<w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 2"/>
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<w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 2"/>
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<w:LsdException Locked="false" Priority="70" Name="Dark List Accent 2"/>
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<w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 2"/>
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<w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 2"/>
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<w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 2"/>
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<w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 3"/>
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<w:LsdException Locked="false" Priority="61" Name="Light List Accent 3"/>
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<w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 3"/>
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<w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 3"/>
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<w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 3"/>
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<w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 3"/>
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<w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 3"/>
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<w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 3"/>
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<w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 3"/>
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<w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 3"/>
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<w:LsdException Locked="false" Priority="70" Name="Dark List Accent 3"/>
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<w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 3"/>
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<w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 3"/>
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<w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 3"/>
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<w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 4"/>
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<w:LsdException Locked="false" Priority="61" Name="Light List Accent 4"/>
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<w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 4"/>
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<w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 4"/>
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<w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 4"/>
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<w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 4"/>
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<w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 4"/>
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<w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 4"/>
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<w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 4"/>
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<w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 4"/>
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<w:LsdException Locked="false" Priority="70" Name="Dark List Accent 4"/>
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<w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 4"/>
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<w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 4"/>
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<w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 4"/>
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<w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 5"/>
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<w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 5"/>
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<w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 5"/>
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<w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 5"/>
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<w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 5"/>
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<w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 5"/>
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<w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 5"/>
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<w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 5"/>
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<w:LsdException Locked="false" Priority="70" Name="Dark List Accent 5"/>
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<w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 5"/>
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<w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 5"/>
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<w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 5"/>
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<w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 6"/>
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<w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 6"/>
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<w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 6"/>
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Name="Subtle Emphasis"/>
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Name="Intense Emphasis"/>
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Name="Subtle Reference"/>
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Name="Intense Reference"/>
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UnhideWhenUsed="true" Name="Bibliography"/>
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</w:LatentStyles>
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</xml><![endif]-->
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<style>
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<!--
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/* Font Definitions */
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@font-face
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{font-family:"Cambria Math";
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panose-1:2 4 5 3 5 4 6 3 2 4;
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mso-font-charset:0;
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mso-generic-font-family:roman;
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mso-font-pitch:variable;
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mso-font-signature:-1610611985 1107304683 0 0 159 0;}
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@font-face
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{font-family:Tahoma;
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panose-1:2 11 6 4 3 5 4 4 2 4;
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mso-font-charset:0;
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mso-generic-font-family:swiss;
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mso-font-pitch:variable;
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mso-font-signature:1627400839 -2147483648 8 0 66047 0;}
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@font-face
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{font-family:Times;
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panose-1:2 2 6 3 5 4 5 2 3 4;
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mso-font-charset:0;
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mso-generic-font-family:roman;
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mso-font-pitch:variable;
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mso-font-signature:536881799 -2147483648 8 0 511 0;}
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/* Style Definitions */
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p.MsoNormal, li.MsoNormal, div.MsoNormal
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{mso-style-unhide:no;
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mso-style-qformat:yes;
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mso-style-parent:"";
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margin:0in;
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margin-bottom:.0001pt;
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mso-pagination:widow-orphan;
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font-size:12.0pt;
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font-family:"Times New Roman","serif";
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mso-fareast-font-family:"Times New Roman";}
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p.MsoBodyText, li.MsoBodyText, div.MsoBodyText
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{mso-style-unhide:no;
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mso-style-link:"Body Text Char";
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margin-top:0in;
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margin-right:0in;
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margin-bottom:6.0pt;
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margin-left:0in;
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mso-pagination:widow-orphan;
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font-size:12.0pt;
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font-family:"Times New Roman","serif";
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mso-fareast-font-family:"Times New Roman";}
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a:link, span.MsoHyperlink
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{mso-style-unhide:no;
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||
color:blue;
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||
text-decoration:underline;
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||
text-underline:single;}
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a:visited, span.MsoHyperlinkFollowed
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{mso-style-unhide:no;
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color:purple;
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text-decoration:underline;
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text-underline:single;}
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p.MsoAcetate, li.MsoAcetate, div.MsoAcetate
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{mso-style-unhide:no;
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mso-style-link:"Balloon Text Char";
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margin:0in;
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margin-bottom:.0001pt;
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mso-pagination:widow-orphan;
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font-size:8.0pt;
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font-family:"Tahoma","sans-serif";
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mso-fareast-font-family:"Times New Roman";}
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p.MsoListParagraph, li.MsoListParagraph, div.MsoListParagraph
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{mso-style-priority:34;
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mso-style-unhide:no;
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mso-style-qformat:yes;
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margin-top:0in;
|
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margin-right:0in;
|
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margin-bottom:0in;
|
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margin-left:.5in;
|
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margin-bottom:.0001pt;
|
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mso-add-space:auto;
|
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mso-pagination:widow-orphan;
|
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font-size:12.0pt;
|
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font-family:"Times New Roman","serif";
|
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mso-fareast-font-family:"Times New Roman";}
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p.MsoListParagraphCxSpFirst, li.MsoListParagraphCxSpFirst, div.MsoListParagraphCxSpFirst
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{mso-style-priority:34;
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mso-style-unhide:no;
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mso-style-qformat:yes;
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mso-style-type:export-only;
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margin-top:0in;
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margin-right:0in;
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margin-bottom:0in;
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margin-left:.5in;
|
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margin-bottom:.0001pt;
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mso-add-space:auto;
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mso-pagination:widow-orphan;
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font-size:12.0pt;
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font-family:"Times New Roman","serif";
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mso-fareast-font-family:"Times New Roman";}
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p.MsoListParagraphCxSpMiddle, li.MsoListParagraphCxSpMiddle, div.MsoListParagraphCxSpMiddle
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{mso-style-priority:34;
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mso-style-unhide:no;
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mso-style-qformat:yes;
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mso-style-type:export-only;
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margin-top:0in;
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margin-right:0in;
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margin-bottom:0in;
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margin-left:.5in;
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margin-bottom:.0001pt;
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mso-add-space:auto;
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mso-pagination:widow-orphan;
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<div class=Section1>
|
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|
||
<p class=MsoNormal align=center style='margin-left:.5in;text-align:center;
|
||
text-indent:-.5in'><b style='mso-bidi-font-weight:normal'><span
|
||
style='font-size:16.0pt'>Supplementary material from different publications<o:p></o:p></span></b></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><o:p> </o:p></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'>Please click on
|
||
the links to access the supplementary information.</p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><o:p> </o:p></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'>2010<o:p></o:p></b></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-indent:-.25in;mso-list:l1 level1 lfo11;
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tab-stops:list .5in'><![if !supportLists]><span style='mso-bidi-font-weight:
|
||
bold'><span style='mso-list:Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></span><![endif]>Iyer LM, Abhiman S, de Souza RF, Aravind L.<span
|
||
style='mso-bidi-font-weight:bold'> (2010). <a
|
||
href="http://nar.oxfordjournals.org/cgi/content/full/gkq265">Origin and
|
||
evolution of peptide-modifying dioxygenases and identification of the
|
||
wybutosine hydroxylase/hydroperoxidase.</a> </span><span class=jrnl><i
|
||
style='mso-bidi-font-style:normal'>Nucleic Acids Res</i></span></span><span
|
||
class=src>. Manuscript accepted for publication. <a
|
||
href="ftp://ftp.ncbi.nih.gov/pub/aravind/WYBUTOSINE/wybutosine.html">Supplementary
|
||
material</a>.</span><span style='mso-bidi-font-weight:bold'><o:p></o:p></span></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'>2009<o:p></o:p></b></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-indent:-.25in;mso-list:l4 level1 lfo13;
|
||
tab-stops:list .5in'><![if !supportLists]><span style='mso-bidi-font-weight:
|
||
bold'><span style='mso-list:Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></span><![endif]><span style='mso-bidi-font-weight:bold'>Iyer,
|
||
L.M., Abhiman, S., Burroughs A.M., Aravind, L. (2009). <a
|
||
href="http://www.rsc.org/delivery/_ArticleLinking/DisplayHTMLArticleforfree.cfm?JournalCode=MB&Year=2009&ManuscriptID=b917682a&Iss=12">Amidoligases
|
||
with ATP-grasp, glutamine synthetase-like and acetyltransferase-like domains:
|
||
synthesis of novel metabolites and peptide modifications of proteins.</a> <i
|
||
style='mso-bidi-font-style:normal'>Mol Biosyst</i>.</span> <span
|
||
style='mso-bidi-font-weight:bold'>5(12):1636-60. <a
|
||
href="ftp://ftp.ncbi.nih.gov/pub/aravind/peptide_ligases/supplementary_material_novel_peptide_synthesis.html">Supplementary
|
||
material</a>.<o:p></o:p></span></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-indent:-.25in;mso-list:l4 level1 lfo13;
|
||
tab-stops:list .5in'><![if !supportLists]><span style='mso-bidi-font-weight:
|
||
bold'><span style='mso-list:Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></span><![endif]><span style='mso-bidi-font-weight:bold'>Iyer,
|
||
L.M., Tahiliani, M., Rao, A., Aravind, L.<span style='mso-spacerun:yes'><EFBFBD>
|
||
</span>(2009). <a
|
||
href="http://www.landesbioscience.com/journals/cc/article/8580/">Prediction of
|
||
novel families of enzymes involved in oxidative and other complex modifications
|
||
of bases in nucleic acids.</a> <i style='mso-bidi-font-style:normal'>Cell Cycle</i>.
|
||
27;8(11). <a
|
||
href="ftp://ftp.ncbi.nih.gov/pub/aravind/DONS/supplementary_material_DONS.html">Supplementary
|
||
Material</a>.<o:p></o:p></span></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'><o:p> </o:p></b></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'>2008<o:p></o:p></b></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l3 level1 lfo2'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]>Burroughs AM, Iyer LM, Aravind L (2008/2009).Natural history
|
||
of the E1-like superfamily: Implication for adenylation, sulfur transfer, and
|
||
ubiquitin conjugation. Proteins. Oct 15. [Epub ahead of print]. <a
|
||
href="http://www.ncbi.nlm.nih.gov/CBBresearch/Lakshmin/E1/">Supplementary
|
||
material in html format</a>.</p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l3 level1 lfo2'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]>Iyer LM, Burroughs AM, Aravind L. (2008). Unraveling
|
||
the biochemistry and provenance of pupylation: a prokaryotic analog of
|
||
ubiquitination. Biol Direct. 2008 3;3:45. <a
|
||
href="http://www.biology-direct.com/content/3/1/45">Open access article.</a> <a
|
||
href="ftp://ftp.ncbi.nih.gov/pub/aravind/PUP/PafA.html">Supplementary material</a>.</p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l3 level1 lfo2'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>3.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]>Iyer LM, Abhiman S, Aravind L. (2008). A new family of
|
||
polymerases related to superfamily A DNA polymerases and T7-like DNA-dependent
|
||
RNA polymerases. <span class=journalname>Biol Direct</span>. 2008 4;3:39. <a
|
||
href="http://www.biology-direct.com/content/3/1/39">Open access article</a>. <a
|
||
href="ftp://ftp.ncbi.nih.gov/pub/aravind/TV_pol/TV_Pol.html">Supplementary
|
||
material</a>.</p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l3 level1 lfo2'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>4.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]>Iyer LM, Abhiman S, Aravind L. (2008). MutL homologs in
|
||
restriction-modification systems and the origin of eukaryotic MORC ATPases.
|
||
Biol Direct. 2008 17;3:8. <a href="http://www.biology-direct.com/content/3/1/8">Open
|
||
Access article</a>. <a
|
||
href="ftp://ftp.ncbi.nih.gov/pub/aravind/temp/MORC/MORC_supplementary.html">Supplementary
|
||
material</a></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l3 level1 lfo2'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>5.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]>Burroughs AM, Jaffee M, Iyer LM, Aravind L. (2008).
|
||
Anatomy of the E2 ligase fold: Implications for enzymology and evolution of
|
||
ubiquitin/Ub-like protein conjugation. J Struct Biol. <i style='mso-bidi-font-style:
|
||
normal'>In Press. </i><span style='mso-spacerun:yes'><EFBFBD></span><a
|
||
href="E2/index.html">Supplementary material</a>.</p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l3 level1 lfo2'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>6.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]>Abhiman S, Iyer LM, Aravind L. (2008) BEN: a novel
|
||
domain in chromatin factors and DNA viral proteins.
|
||
Bioinformatics;24(4):458-61.<span style='mso-spacerun:yes'><EFBFBD> </span><a
|
||
href="http://bioinformatics.oxfordjournals.org/cgi/content/full/24/4/458">Open
|
||
Access article</a>, <a href="BEN/index.html">Supplementary material</a></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l3 level1 lfo2'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>7.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]><a href="chromatin/index.html">Iyer L.M., Anantharaman
|
||
V., Wolf M.Y., Aravind L. (2008). Comparative genomics of transcription factors
|
||
and chromatin proteins in parasitic protists and other eukaryotes.<span
|
||
style='mso-spacerun:yes'><EFBFBD> </span>Int J Parasitol. </a><span class=volume>38</span>(<span
|
||
class=issue>1</span>):<span class=pages>1-31</span>.</p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'>2007<o:p></o:p></b></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l2 level1 lfo4'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]>Burroughs, A.M., Iyer, L.M., Aravind, L. (2007)
|
||
Comparative Genomics and Evolutionary Trajectories of Viral ATP Dependent
|
||
DNA-Packaging Systems. <i style='mso-bidi-font-style:normal'>In</i> Gene and
|
||
Protein Evolution, Genome dynamics. Basel, Karger, Editor: Volff, J.N.; 3:
|
||
48-65. <a
|
||
href="http://content.karger.com/ProdukteDB/produkte.asp?Aktion=ShowPDF&ArtikelNr=000107603&Ausgabe=0&ProduktNr=233258&filename=000107603.pdf">Open
|
||
Access Article</a>. <a
|
||
href="http://www.ncbi.nlm.nih.gov/CBBresearch/Lakshmin/viral_packaging/viral_packaging_supplementary_material.pdf">Supplementary
|
||
Material</a>. </p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l2 level1 lfo4'><![if !supportLists]><span style='mso-list:
|
||
Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]>Iyer L.M., Anantharaman V., Aravind L. (2007)<a
|
||
href="domon/domon_supplementary_material.html">The DOMON domains are involved
|
||
in heme and sugar recognition</a>. Bioinformatics</abbr>;<span class=volume>23</span>(<span
|
||
class=issue>20</span>):<span class=pages>2660-4</span>. </p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l2 level1 lfo4'><![if !supportLists]><b><span style='mso-list:
|
||
Ignore'>3.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></b><![endif]>Anantharaman V, Iyer L.M., Balaji S., Aravind
|
||
L.(2007) <a
|
||
href="apicomplexan_adhesion/apicomplexa_adhesion_2007_supp_material.html">Adhesion
|
||
molecules and other secreted host-interaction determinants in apicomplexa: insights
|
||
from comparative genomics.</a> Int Rev Cytol;262:1-74. <b><o:p></o:p></b></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.5in'><b>2006<o:p></o:p></b></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><b><span style='mso-list:
|
||
Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></b><![endif]><span style='mso-bidi-font-weight:bold'>Iyer, L.M.<b>,</b>
|
||
Burroughs, A.M., Aravind, L. (2006) The prokaryotic antecedents of the
|
||
ubiquitin-signaling system and the early evolution of ubiquitin-like beta-grasp
|
||
domains. Genome Biol.: 7(7):R60. <a href="UB/prok_ub_supplement_file_1.html">Supp
|
||
file 1</a>, <a href="UB/prok_ub_supplement_file_2.html">Supp file 2</a> <a
|
||
href="UB/prok_ub_supplement_file_3.html">Supp file3</a>.<b><o:p></o:p></b></span></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><span style='mso-bidi-font-weight:
|
||
bold'><span style='mso-list:Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></span><![endif]><b><a href="orc2/orc2_alignment.pdf"><span
|
||
style='font-weight:normal;mso-bidi-font-weight:bold'>Iyer, L.M.</span>, <span
|
||
style='font-weight:normal;mso-bidi-font-weight:bold'>Aravind, L. (2006). </span><span
|
||
style='font-weight:normal'>Phyletic Distribution And Evolutionary Relatedness
|
||
Of Proteins Involved In Prereplication Complex Assembly. </span><span
|
||
style='font-weight:normal;mso-bidi-font-weight:bold'><span
|
||
style='mso-spacerun:yes'><EFBFBD></span><i style='mso-bidi-font-style:normal'>In</i> </span><span
|
||
style='font-weight:normal'>DNA Replication and Human Disease Cold Spring Harbor
|
||
Laboratory Press, Cold Spring Harbor , NY.</span></a></b><span
|
||
style='mso-bidi-font-weight:bold'><o:p></o:p></span></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><b><span style='mso-list:
|
||
Ignore'>3.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></b><![endif]><b><a
|
||
href="hiran_supp/hiran_supplementary_material.pdf"><span style='font-weight:
|
||
normal;mso-bidi-font-weight:bold'>Iyer, L.M</span>., <span style='font-weight:
|
||
normal;mso-bidi-font-weight:bold'>Babu, M.M., Aravind, L.</span> <span
|
||
style='font-weight:normal;mso-bidi-font-weight:bold'>(2006)</span>. <span
|
||
style='font-weight:normal;mso-bidi-font-weight:bold'>The HIRAN domain and
|
||
recruitment of chromatin remodeling and repair activities to damaged DNA.</span>
|
||
<i style='mso-bidi-font-style:normal'><span style='font-weight:normal;
|
||
mso-bidi-font-weight:bold'>Cell Cycle</span></i><span style='font-weight:normal;
|
||
mso-bidi-font-weight:bold'>: 5(7):775-82.</span></a><o:p></o:p></b></p>
|
||
|
||
<p class=MsoListParagraph style='text-indent:-.25in;mso-list:l0 level1 lfo6'><![if !supportLists]><span
|
||
style='mso-list:Ignore'>4.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]><a href="aschsupplementary.html">Iyer LM, Burroughs AM,
|
||
Aravind L. (2006). The ASCH superfamily: novel domains with a fold related to
|
||
the PUA domain and a potential role in RNA metabolism. Bioinformatics. 2006 Feb
|
||
1;22(3):257-63.</a></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'>2005<o:p></o:p></b></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l5 level1 lfo8'><![if !supportLists]><span style='mso-bidi-font-weight:
|
||
bold'><span style='mso-list:Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></span><![endif]><b><a href="primase_supplementary_material.html"><span
|
||
style='font-weight:normal;mso-bidi-font-weight:bold'>Iyer L.M., Koonin E.V.,
|
||
Leipe D.D., Aravind L. (2005). Origin and evolution of the archaeo-eukaryotic
|
||
primase superfamily and related palm-domain proteins: structural insights and
|
||
new members.. <i style='mso-bidi-font-style:normal'>Nucleic Acids Res.</i>
|
||
33(12):3875-3896</span></a></b><span style='mso-bidi-font-weight:bold'><o:p></o:p></span></p>
|
||
|
||
<p class=MsoBodyText style='margin-left:.5in;text-align:justify;text-indent:
|
||
-.25in;mso-list:l5 level1 lfo8'><![if !supportLists]><span style='mso-bidi-font-weight:
|
||
bold'><span style='mso-list:Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></span><![endif]><span style='mso-bidi-font-weight:bold'>L. Aravind,
|
||
Anantharaman, V., Balaji, S., Babu, M.M., Iyer, L.M. (2005). The many faces of
|
||
the helix-turn-helix domain: Transcription regulation and beyond. <i
|
||
style='mso-bidi-font-style:normal'>FEMS Micr. Rev. 2005 </i>Apr;29(2):231-262<i
|
||
style='mso-bidi-font-style:normal'>. </i><span
|
||
style='mso-spacerun:yes'><EFBFBD></span><a href="hth_gis_supplementalmaterial.html">Supp(gis)</a>,
|
||
<a href="hthalignments.txt">Supp (alignments)</a>.<o:p></o:p></span></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'>2004<o:p></o:p></b></p>
|
||
|
||
<p class=MsoListParagraph style='text-indent:-.25in;mso-list:l6 level1 lfo10'><![if !supportLists]><span
|
||
style='mso-list:Ignore'>1.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span><![endif]><b style='mso-bidi-font-weight:normal'><a
|
||
href="aaaplus_supp/AAA+supplementary.html"><span style='font-weight:normal'>Iyer,
|
||
L.M., Leipe, D.D., Koonin, E.V. Aravind, L. (2004).<span
|
||
style='mso-spacerun:yes'><EFBFBD> </span>Evolutionary history and higher order
|
||
classification of AAA+ ATPases. <i style='mso-bidi-font-style:normal'>J Str.
|
||
Biol.</i> 146(1-2):11-31</span></a></b></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'><o:p> </o:p></b></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'>2002<o:p></o:p></b></p>
|
||
|
||
<p class=MsoListParagraphCxSpFirst style='text-indent:-.25in;mso-list:l6 level1 lfo10'><![if !supportLists]><span
|
||
class=MsoHyperlink><span style='text-decoration:none;text-underline:none'><span
|
||
style='mso-list:Ignore'>2.<span style='font:7.0pt "Times New Roman"'>
|
||
</span></span></span></span><![endif]><span lang=NO-BOK style='mso-ansi-language:
|
||
NO-BOK'><a href="kilA_supplementary.html">Iyer LM, Koonin EV, Aravind L.
|
||
(2002). <span lang=EN-US style='mso-ansi-language:EN-US'>Extensive domain
|
||
shuffling in transcription regulators of DNA viruses and implications for the
|
||
origin of fungal APSES transcription factors.</span></a></span><span
|
||
class=MsoHyperlink><o:p></o:p></span></p>
|
||
|
||
<p class=MsoListParagraphCxSpLast><span class=MsoHyperlink><a
|
||
href="kilA_supplementary.html">Genome Biol. 3(3):RESEARCH0012.</a><o:p></o:p></span></p>
|
||
|
||
<p class=MsoNormal style='margin-left:.5in;text-indent:-.5in'><b
|
||
style='mso-bidi-font-weight:normal'>2001<o:p></o:p></b></p>
|
||
|
||
<p class=MsoListParagraph style='text-indent:-.25in;mso-list:l6 level1 lfo10'><![if !supportLists]><span
|
||
style='mso-bidi-font-weight:bold'><span style='mso-list:Ignore'>3.<span
|
||
style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><b
|
||
style='mso-bidi-font-weight:normal'><a href="START_domain_supplementary.html"><span
|
||
style='font-weight:normal'>Iyer, L.M.<span style='mso-bidi-font-weight:bold'>,
|
||
Koonin, E.V., and Aravind, L (2001). Adaptations of the helix-grip fold for
|
||
ligand binding and catalysis in the START domain superfamily. <i>Proteins</i>.
|
||
43(2):134-44.</span></span></a></b><span style='mso-bidi-font-weight:bold'><o:p></o:p></span></p>
|
||
|
||
<p class=MsoNormal><o:p> </o:p></p>
|
||
|
||
<p class=MsoNormal><o:p> </o:p></p>
|
||
|
||
<p class=MsoNormal><i><span style='font-size:10.0pt;font-family:"Times","serif"'>This
|
||
page was last updated on: 11th Feb 2009</span></i><o:p></o:p></p>
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