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39 </head>
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41 <body lang=EN-US>
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42
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43 <div class=WordSection1>
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44
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45 <p class=MsoNormalCxSpFirst style='text-align:justify'><u><span
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46 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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47 filtered dataset:</span></u><span style='font-size:12.0pt;line-height:115%;
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48 font-family:"Times New Roman","serif"'> <a name="OLE_LINK15"></a><a
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49 name="OLE_LINK14">Allows you to download information on V D and J gene usage,
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50 the junctions and the amino acid sequence of the sequences that passed the chosen
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51 filter settings. Note: this file contains only 1 sequences of a replicate
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52 sequence. </a></span></p>
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53
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54 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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55 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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56 dataset used to calculate clonality score: </span></u><span style='font-size:
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57 12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Allows you to
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58 download information on V D and J gene usage, the junctions and the amino acid
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59 sequence of the sequences that passed the chosen filter settings. Note: this
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60 file contains all the replicate sequences form the different input files.</span></p>
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61
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62 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
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63 text-align:justify;line-height:normal'><u><span style='font-size:12.0pt;
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64 font-family:"Times New Roman","serif"'>The dataset used to generate the CDR3
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65 length frequency graph:</span></u><span style='font-size:12.0pt;font-family:
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66 "Times New Roman","serif"'> Downloads a table with information used for the
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67 length distribution of CDR3 plot. </span></p>
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68
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69 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
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70 text-align:justify;line-height:normal'><u><span style='font-size:12.0pt;
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71 font-family:"Times New Roman","serif"'>The dataset used to generate the distribution
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72 of V gene families graph:</span></u><span style='font-size:12.0pt;font-family:
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73 "Times New Roman","serif"'> Downloads a table with information used to generate
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74 the distribution of V gene families graph. </span></p>
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75
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76 <p class=MsoNormalCxSpMiddle style='margin-bottom:0in;margin-bottom:.0001pt;
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77 text-align:justify;line-height:normal'><u><span style='font-size:12.0pt;
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78 font-family:"Times New Roman","serif"'>The dataset used to generate the
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79 distribution of D gene families graph: </span></u><span style='font-size:12.0pt;
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80 font-family:"Times New Roman","serif"'>Downloads a table with information used
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81 to generate the distribution of D gene families graph.</span></p>
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82
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83 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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84 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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85 dataset used to generate the relative frequency of V gene usage graph:</span></u><span
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86 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
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87 Downloads the data used to generate the relative frequency of V gene usage
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88 graph. In addition information on the chromosomal order of the V genes can be
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89 found</span><span lang=EN-GB>.</span><u><span lang=EN-GB style='font-size:12.0pt;
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90 line-height:115%;font-family:"Times New Roman","serif"'> </span></u></p>
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91
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92 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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93 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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94 dataset used to generate the relative frequency of D gene usage graph:</span></u><span
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95 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
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96 Downloads the data used to generate the relative frequency of D gene usage
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97 graph. In addition information on the chromosomal order of the D genes can be
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98 found. </span></p>
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99
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100 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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101 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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102 dataset used to generate the relative frequency of J gene usage graph: </span></u><span
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103 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Downloads
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104 the data used to generate the relative frequency of J gene usage graph. In
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105 addition information on the chromosomal order of the J genes can be found.</span></p>
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106
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107 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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108 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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109 dataset used to generate the Amino Acid Composition in the CDR3 graph:</span></u><span
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110 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
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111 Downloads the frequency of the different amino acids in the CDR3 of all
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112 filtered sequences. This data set is used for the generation of the Amino Acid
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113 Composition in the CDR3 graph. In addition the order of amino acids based on hydrophobicity
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114 in included. </span></p>
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115
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116 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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117 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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118 data used to generate the VD heatmap for “donor name”:</span></u><span
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119 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
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120 Downloads the data set used for the generation of the VD heatmap. For each
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121 uploaded donor a separate download is generated.</span></p>
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122
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123 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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124 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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125 data used to generate the VJ heatmap for “donor name”:</span></u><span
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126 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
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127 Downloads the data set used for the generation of the VJ heatmap. For each
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128 uploaded donor a separate download is generated.</span></p>
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129
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130 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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131 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
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132 data used to generate the DJ heatmap for “sample name”:</span></u><span
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133 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
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134 Downloads the data set used for the generation of the DJ heatmap. For each
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135 uploaded donor a separate download is generated.</span></p>
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136
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137 <p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span
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138 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>A
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139 frequency count of a clonotype:</span></u><span style='font-size:12.0pt;
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140 line-height:115%;font-family:"Times New Roman","serif"'> The frequency count of
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141 a clonotype in the unfiltered data set. The clonotype defition used is defined
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142 in the ‘clonal type definition’ filter. </span></p>
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143
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144 <p class=MsoNormal> </p>
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145
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146 </div>
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147
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148 </body>
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149
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150 </html>
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