Mercurial > repos > rhpvorderman > shm_csr

annotate shm_transition.htm @ 0:64d74ba01a7c draft

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"planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
author rhpvorderman
date Wed, 27 Oct 2021 12:34:47 +0000
parents
children c8f02bce10d0
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1 <html>
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3 <head>
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4 <meta http-equiv=Content-Type content="text/html; charset=windows-1252">
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5 <meta name=Generator content="Microsoft Word 14 (filtered)">
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6 <style>
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7 <!--
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8 /* Font Definitions */
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9 @font-face
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10 {font-family:Calibri;
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11 panose-1:2 15 5 2 2 2 4 3 2 4;}
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12 /* Style Definitions */
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13 p.MsoNormal, li.MsoNormal, div.MsoNormal
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14 {margin-top:0in;
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15 margin-right:0in;
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16 margin-bottom:10.0pt;
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17 margin-left:0in;
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18 line-height:115%;
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19 font-size:11.0pt;
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20 font-family:"Calibri","sans-serif";}
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21 a:link, span.MsoHyperlink
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22 {color:blue;
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23 text-decoration:underline;}
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24 a:visited, span.MsoHyperlinkFollowed
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25 {color:purple;
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26 text-decoration:underline;}
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27 p.msochpdefault, li.msochpdefault, div.msochpdefault
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28 {mso-style-name:msochpdefault;
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29 margin-right:0in;
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31 font-size:12.0pt;
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32 font-family:"Calibri","sans-serif";}
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33 p.msopapdefault, li.msopapdefault, div.msopapdefault
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34 {mso-style-name:msopapdefault;
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35 margin-right:0in;
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36 margin-bottom:10.0pt;
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37 margin-left:0in;
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38 line-height:115%;
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39 font-size:12.0pt;
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40 font-family:"Times New Roman","serif";}
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41 span.apple-converted-space
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42 {mso-style-name:apple-converted-space;}
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43 .MsoChpDefault
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44 {font-size:10.0pt;
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45 font-family:"Calibri","sans-serif";}
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46 .MsoPapDefault
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47 {margin-bottom:10.0pt;
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48 line-height:115%;}
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49 @page WordSection1
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50 {size:8.5in 11.0in;
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51 margin:1.0in 1.0in 1.0in 1.0in;}
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52 div.WordSection1
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53 {page:WordSection1;}
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54 -->
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55 </style>
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56
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57 </head>
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58
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59 <body lang=EN-US link=blue vlink=purple>
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60
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61 <div class=WordSection1>
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62
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63 <p class=MsoNormalCxSpFirst style='text-align:justify'><span style='font-size:
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64 12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>These graphs and
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65 tables give insight into the targeting and patterns of SHM. This can give
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66 insight into the DNA repair pathways used to solve the U:G mismatches
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67 introduced by AID. More information on the values found in healthy individuals
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68 of different ages can be found in IJspeert and van Schouwenburg et al, PMID:
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69 27799928.</span></p>
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70
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71 <p class=MsoNormalCxSpMiddle style='text-align:justify'><b><span
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72 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Graphs
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73 </span></b></p>
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74
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75 <p class=MsoNormalCxSpMiddle style='text-align:justify'><a name="OLE_LINK93"></a><a
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76 name="OLE_LINK92"></a><a name="OLE_LINK91"><u><span style='font-size:12.0pt;
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77 line-height:115%;font-family:"Times New Roman","serif"'>Heatmap transition
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78 information</span></u></a></p>
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79
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80 <p class=MsoNormalCxSpMiddle style='text-align:justify'><a name="OLE_LINK98"></a><a
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81 name="OLE_LINK97"><span style='font-size:12.0pt;line-height:115%;font-family:
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82 "Times New Roman","serif"'>Heatmaps visualizing for each subclass the frequency
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83 of all possible substitutions. On the x-axes the original base is shown, while
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84 the y-axes shows the new base. The darker the shade of blue, the more frequent
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85 this type of substitution is occurring.  </span></a></p>
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86
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87 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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88 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Bargraph
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89 transition information</span></u></p>
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90
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91 <p class=MsoNormalCxSpMiddle style='text-align:justify'><span style='font-size:
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92 12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Bar graph
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93 visualizing for each original base the distribution of substitutions into the other
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94 bases. A graph is included for each (sub)class. </span></p>
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95
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96 <p class=MsoNormalCxSpMiddle style='text-align:justify'><b><span
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97 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Tables</span></b></p>
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98
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99 <p class=MsoNormalCxSpMiddle style='text-align:justify'><span style='font-size:
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100 12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Transition
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101 tables are shown for each (sub)class. All the original bases are listed
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102 horizontally, while the new bases are listed vertically. </span></p>
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103
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104 <p class=MsoNormal><span lang=NL style='font-size:12.0pt;line-height:115%;
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105 font-family:"Times New Roman","serif"'>Hanna IJspeert, Pauline A. van
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106 Schouwenburg, David van Zessen, Ingrid Pico-Knijnenburg, Gertjan J. Driessen,
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107 Andrew P. Stubbs, and Mirjam van der Burg (2016). </span><span
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108 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Evaluation
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109 of the Antigen-Experienced B-Cell Receptor Repertoire in Healthy Children and
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110 Adults. In <i>Frontiers in Immunolog, 7, pp. e410-410. </i>[<a
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111 href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5066086/"><span
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112 style='color:windowtext'>doi:10.3389/fimmu.2016.00410</span></a>][<a
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113 href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5066086/"><span
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114 style='color:windowtext'>Link</span></a>]</span></p>
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115
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116 </div>
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117
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118 </body>
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119
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120 </html>