annotate shm_transition.htm @ 41:b8ac74723ab0 draft

Uploaded
author davidvanzessen
date Tue, 14 Mar 2017 09:30:16 -0400
parents a24f8c93583a
children ba33b94637ca
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
39
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
1 <html>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
2
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
3 <head>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
4 <meta http-equiv=Content-Type content="text/html; charset=windows-1252">
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
5 <meta name=Generator content="Microsoft Word 14 (filtered)">
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
6 <style>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
7 <!--
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
8 /* Font Definitions */
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
9 @font-face
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
10 {font-family:Calibri;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
11 panose-1:2 15 5 2 2 2 4 3 2 4;}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
12 /* Style Definitions */
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
13 p.MsoNormal, li.MsoNormal, div.MsoNormal
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
14 {margin-top:0in;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
15 margin-right:0in;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
16 margin-bottom:10.0pt;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
17 margin-left:0in;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
18 line-height:115%;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
19 font-size:11.0pt;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
20 font-family:"Calibri","sans-serif";}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
21 a:link, span.MsoHyperlink
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
22 {color:blue;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
23 text-decoration:underline;}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
24 a:visited, span.MsoHyperlinkFollowed
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
25 {color:purple;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
26 text-decoration:underline;}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
27 p.msochpdefault, li.msochpdefault, div.msochpdefault
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
28 {mso-style-name:msochpdefault;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
29 margin-right:0in;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
30 margin-left:0in;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
31 font-size:12.0pt;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
32 font-family:"Calibri","sans-serif";}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
33 p.msopapdefault, li.msopapdefault, div.msopapdefault
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
34 {mso-style-name:msopapdefault;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
35 margin-right:0in;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
36 margin-bottom:10.0pt;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
37 margin-left:0in;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
38 line-height:115%;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
39 font-size:12.0pt;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
40 font-family:"Times New Roman","serif";}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
41 span.apple-converted-space
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
42 {mso-style-name:apple-converted-space;}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
43 .MsoChpDefault
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
44 {font-size:10.0pt;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
45 font-family:"Calibri","sans-serif";}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
46 .MsoPapDefault
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
47 {margin-bottom:10.0pt;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
48 line-height:115%;}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
49 @page WordSection1
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
50 {size:8.5in 11.0in;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
51 margin:1.0in 1.0in 1.0in 1.0in;}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
52 div.WordSection1
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
53 {page:WordSection1;}
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
54 -->
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
55 </style>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
56
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
57 </head>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
58
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
59 <body lang=EN-US link=blue vlink=purple>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
60
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
61 <div class=WordSection1>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
62
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
63 <p class=MsoNormalCxSpFirst style='text-align:justify'><span style='font-size:
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
64 12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>These graphs and
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
65 tables give insight into the targeting and patterns of SHM. This can give
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
66 insight into the DNA repair pathways used to solve the U:G mismatches
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
67 introduced by AID. More information on the values found in healthy individuals
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
68 of different ages can be found in IJspeert and van Schouwenburg et al, PMID:
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
69 27799928.</span></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
70
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
71 <p class=MsoNormalCxSpMiddle style='text-align:justify'><b><span
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
72 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Graphs
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
73 </span></b></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
74
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
75 <p class=MsoNormalCxSpMiddle style='text-align:justify'><a name="OLE_LINK93"></a><a
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
76 name="OLE_LINK92"></a><a name="OLE_LINK91"><u><span style='font-size:12.0pt;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
77 line-height:115%;font-family:"Times New Roman","serif"'>Heatmap transition
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
78 information</span></u></a></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
79
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
80 <p class=MsoNormalCxSpMiddle style='text-align:justify'><a name="OLE_LINK98"></a><a
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
81 name="OLE_LINK97"><span style='font-size:12.0pt;line-height:115%;font-family:
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
82 "Times New Roman","serif"'>Heatmaps visualizing for each subclass the frequency
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
83 of all possible substitutions. On the x-axes the original base is shown, while
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
84 the y-axes shows the new base. The darker the shade of blue, the more frequent
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
85 this type of substitution is occurring.  </span></a></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
86
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
87 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
88 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Bargraph
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
89 transition information</span></u></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
90
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
91 <p class=MsoNormalCxSpMiddle style='text-align:justify'><span style='font-size:
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
92 12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Bar graph
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
93 visualizing for each original base the distribution of substitutions into the other
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
94 bases. A graph is included for each (sub)class. </span></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
95
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
96 <p class=MsoNormalCxSpMiddle style='text-align:justify'><b><span
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
97 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Tables</span></b></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
98
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
99 <p class=MsoNormalCxSpMiddle style='text-align:justify'><span style='font-size:
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
100 12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Transition
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
101 tables are shown for each (sub)class. All the original bases are listed
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
102 horizontally, while the new bases are listed vertically. </span></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
103
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
104 <p class=MsoNormal><span lang=NL style='font-size:12.0pt;line-height:115%;
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
105 font-family:"Times New Roman","serif"'>Hanna IJspeert, Pauline A. van
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
106 Schouwenburg, David van Zessen, Ingrid Pico-Knijnenburg, Gertjan J. Driessen,
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
107 Andrew P. Stubbs, and Mirjam van der Burg (2016). </span><span
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
108 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Evaluation
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
109 of the Antigen-Experienced B-Cell Receptor Repertoire in Healthy Children and
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
110 Adults. In <i>Frontiers in Immunolog, 7, pp. e410-410. </i>[<a
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
111 href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5066086/"><span
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
112 style='color:windowtext'>doi:10.3389/fimmu.2016.00410</span></a>][<a
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
113 href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5066086/"><span
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
114 style='color:windowtext'>Link</span></a>]</span></p>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
115
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
116 </div>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
117
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
118 </body>
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
119
a24f8c93583a Uploaded
davidvanzessen
parents:
diff changeset
120 </html>