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+ − 80
+ − 81 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 82 text-align:justify;background:white'><b><span lang=EN-GB style='color:black'>References</span></b></p>
+ − 83
+ − 84 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 85 text-align:justify;background:white'><span lang=EN-GB style='color:black'>Gupta,
+ − 86 Namita T. and Vander Heiden, Jason A. and Uduman, Mohamed and Gadala-Maria,
+ − 87 Daniel and Yaari, Gur and Kleinstein, Steven H. (2015). <a name="OLE_LINK106"></a><a
+ − 88 name="OLE_LINK107"></a>Change-O: a toolkit for analyzing large-scale B cell
+ − 89 immunoglobulin repertoire sequencing data: Table 1. In<span
+ − 90 class=apple-converted-space> </span><em>Bioinformatics, 31 (20), pp.
+ − 91 3356�3358.</em><span class=apple-converted-space><i> </i></span>[</span><a
+ − 92 href="http://dx.doi.org/10.1093/bioinformatics/btv359" target="_blank"><span
+ − 93 lang=EN-GB style='color:#303030'>doi:10.1093/bioinformatics/btv359</span></a><span
+ − 94 lang=EN-GB style='color:black'>][</span><a
+ − 95 href="http://dx.doi.org/10.1093/bioinformatics/btv359" target="_blank"><span
+ − 96 lang=EN-GB style='color:#303030'>Link</span></a><span lang=EN-GB
+ − 97 style='color:black'>]</span></p>
+ − 98
+ − 99 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 100 text-align:justify;background:white'><span lang=EN-GB style='color:black'> </span></p>
+ − 101
+ − 102 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 103 text-align:justify;background:white'><a name="OLE_LINK110"><u><span lang=EN-GB
+ − 104 style='color:black'>All, IGA, IGG, IGM and IGE tabs</span></u></a></p>
+ − 105
+ − 106 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 107 text-align:justify;background:white'><span lang=EN-GB style='color:black'>In
+ − 108 these tabs information on the clonal relation of transcripts can be found. To
+ − 109 calculate clonal relation Change-O is used (Gupta et al, PMID: 26069265).
+ − 110 Transcripts are considered clonally related if they have maximal three nucleotides
+ − 111 difference in their CDR3 sequence and the same first V segment (as assigned by
+ − 112 IMGT). Results are represented in a table format showing the clone size and the
+ − 113 number of clones or sequences with this clone size. Change-O settings used are
+ − 114 the </span><span lang=EN-GB>nucleotide hamming distance substitution model with
+ − 115 a complete distance of maximal three. For clonal assignment the first gene
+ − 116 segments were used, and the distances were not normalized. In case of
+ − 117 asymmetric distances, the minimal distance was used.<span style='color:black'> </span></span></p>
+ − 118
+ − 119 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 120 text-align:justify;background:white'><span lang=EN-GB style='color:black'> </span></p>
+ − 121
+ − 122 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 123 text-align:justify;background:white'><u><span lang=EN-GB style='color:black'>Overlap
+ − 124 tab</span></u><span lang=EN-GB style='color:black'> </span></p>
+ − 125
+ − 126 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 127 text-align:justify;background:white'><span lang=EN-GB style='color:black'>This
+ − 128 tab gives information on with which (sub)classe(s) each unique analyzed region
+ − 129 (based on the exact nucleotide sequence of the analyzes region and the CDR3
+ − 130 nucleotide sequence) is found with. This gives information if the combination
+ − 131 of the exact same nucleotide sequence of the analyzed region and the CDR3
+ − 132 sequence can be found in multiple (sub)classes.</span></p>
+ − 133
+ − 134 <p style='margin-top:0in;margin-right:0in;margin-bottom:6.4pt;margin-left:0in;
+ − 135 text-align:justify;background:white'><span style='color:black'><img src="data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAAA8AAAAPCAYAAAA71pVKAAAAzElEQVQoka2TwQ2CQBBFpwTshw4ImW8ogJMlUIMmhNCDxgasAi50oSXA8XlAjCG7aqKTzGX/vsnM31mzR0gk7tTudO5MEizpzvQ4ryUSe408J3Xn+grE0p1rnpOamVmWsZG4rS+dzzAMsN8Hi9yyjI1JNGtxu4VxBJgLRLpoTKIPiW0LlwtUVRTubW2OBGUJu92cZRmdfbKQMAw8o+vi5v0fLorZ7Y9waGYJjsf38DJz0O1PsEQffOcv4Sa6YYfDDJ5Obzbsp93+5VfdATueO1fdLdI0AAAAAElFTkSuQmCC"> Please note that this tab is based on all
+ − 136 sequences before filter unique sequences and the remove duplicates based on
+ − 137 filters are applied. In this table only sequences occuring more than once are
+ − 138 included. </span></p>
+ − 139
+ − 140 </div>
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