annotate report_clonality/naive_cdr3_char.htm @ 23:e2fbdfacec1d draft

Uploaded
author davidvanzessen
date Fri, 27 Jan 2017 04:29:43 -0500
parents 5d11c9139a55
children b539aeb75980
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
18
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
1 <html>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
2
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
3 <head>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
4 <meta http-equiv=Content-Type content="text/html; charset=windows-1252">
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
5 <meta name=Generator content="Microsoft Word 14 (filtered)">
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
6 <style>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
7 <!--
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
8 /* Font Definitions */
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
9 @font-face
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
10 {font-family:Calibri;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
11 panose-1:2 15 5 2 2 2 4 3 2 4;}
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
12 /* Style Definitions */
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
13 p.MsoNormal, li.MsoNormal, div.MsoNormal
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
14 {margin-top:0in;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
15 margin-right:0in;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
16 margin-bottom:10.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
17 margin-left:0in;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
18 line-height:115%;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
19 font-size:11.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
20 font-family:"Calibri","sans-serif";}
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
21 p.MsoNoSpacing, li.MsoNoSpacing, div.MsoNoSpacing
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
22 {margin:0in;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
23 margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
24 font-size:11.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
25 font-family:"Calibri","sans-serif";}
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
26 .MsoChpDefault
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
27 {font-family:"Calibri","sans-serif";}
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
28 .MsoPapDefault
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
29 {margin-bottom:10.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
30 line-height:115%;}
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
31 @page WordSection1
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
32 {size:8.5in 11.0in;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
33 margin:1.0in 1.0in 1.0in 1.0in;}
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
34 div.WordSection1
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
35 {page:WordSection1;}
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
36 -->
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
37 </style>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
38
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
39 </head>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
40
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
41 <body lang=EN-US>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
42
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
43 <div class=WordSection1>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
44
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
45 <p class=MsoNormalCxSpFirst style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
46 text-align:justify;line-height:normal'><span lang=EN-GB style='font-size:12.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
47 font-family:"Times New Roman","serif"'>This tab gives information on the
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
48 different characteristics of the CDR3.</span></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
49
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
50 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
51 text-align:justify;line-height:normal'><b><span lang=EN-GB style='font-size:
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
52 12.0pt;font-family:"Times New Roman","serif"'>Graphs</span></b></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
53
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
54 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
55 text-align:justify;line-height:normal'><u><span style='font-size:12.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
56 font-family:"Times New Roman","serif"'>length distribution of CDR3</span></u></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
57
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
58 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
59 text-align:justify;line-height:normal'><span style='font-size:12.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
60 font-family:"Times New Roman","serif"'>Graph visualizing for each donor the
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
61 distribution of the CDR3 length in amino acids between all sequences.</span></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
62
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
63
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
64 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
65 text-align:justify;line-height:normal'><u><span style='font-size:12.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
66 font-family:"Times New Roman","serif"'>Amino acid composition of CDR3</span></u></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
67
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
68 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
69 text-align:justify;line-height:normal'><span lang=EN-GB style='font-size:12.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
70 font-family:"Times New Roman","serif"'>Bar graph visualizing for each donor how
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
71 frequent each amino acid is used in the CDR3 of all sequences. The red colour
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
72 in the background indicate positively charged amino acids, and the blue colour
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
73 in the background indicate negatively charged amino acids. The amino acids are
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
74 ordered from hydrophilic (left) to hydrophobic (right). </span></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
75
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
76 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
77 text-align:justify;line-height:normal'><u><span style='font-size:12.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
78 font-family:"Times New Roman","serif"'>D reading frame</span></u></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
79
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
80 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
81 text-align:justify;line-height:normal'><span lang=EN-GB style='font-size:12.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
82 font-family:"Times New Roman","serif"'>Bar graph visualizing the frequency by
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
83 which each D reading frame is used in each donor.</span></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
84
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
85 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
86 text-align:justify;line-height:normal'><b><span lang=EN-GB style='font-size:
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
87 12.0pt;font-family:"Times New Roman","serif"'>Table</span></b></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
88
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
89 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
90 text-align:justify;line-height:normal'><span lang=EN-GB style='font-size:12.0pt;
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
91 font-family:"Times New Roman","serif"'>Table showing for each donor the median
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
92 CDR3 length.</span></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
93
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
94 <p class=MsoNormal><span lang=EN-GB>&nbsp;</span></p>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
95
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
96 </div>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
97
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
98 </body>
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
99
5d11c9139a55 Uploaded
davidvanzessen
parents:
diff changeset
100 </html>