source: trunk/misc/mage/rawdatatypes/QT_Affymetrix.xml @ 1938

Last change on this file since 1938 was 1938, checked in by Nicklas Nordborg, 17 years ago

Added QuantArray? raw data types
Added some intensity formulas to other raw data types
Added MAGE files describing raw data types
  • Property svn:eol-style set to native
  • Property svn:keywords set to Date Id
File size: 24.8 KB
Line 
1<?xml version="1.0" encoding="ISO-8859-1" standalone="no"?>
2<?xml-stylesheet type="text/xsl" href="QT.xsl"?>
3<!DOCTYPE MAGE-ML PUBLIC "-//OMG//DTD MAGE-ML 1.0//EN" "http://schema.omg.org/lsr/gene_expression/1.0/MAGE-ML.dtd">
4<MAGE-ML identifier="EBI:eleh:Affymetrix QT XML">
5  <BioAssay_package>
6    <Channel_assnlist>
7      <Channel identifier="ebi.ac.uk:Channel:biotin" name="Biotin channel">
8      </Channel>
9    </Channel_assnlist>
10  </BioAssay_package>
11<QuantitationType_package>
12    <QuantitationType_assnlist>
13      <DerivedSignal identifier="Affymetrix:QuantitationType:CHPAvgDiff" isBackground="0">
14  <Descriptions_assnlist>
15    <Description text="Average intensity difference.">
16    </Description>
17  </Descriptions_assnlist>
18  <Channel_assnref>
19    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
20  </Channel_assnref>
21  <Scale_assn>
22    <OntologyEntry category="Scale" value="linear_scale">
23    </OntologyEntry>
24  </Scale_assn>
25  <DataType_assn>
26    <OntologyEntry category="DataType" value="float">
27    </OntologyEntry>
28  </DataType_assn>
29      </DerivedSignal>
30      <DerivedSignal identifier="Affymetrix:QuantitationType:CHPLogAvg" isBackground="0">
31  <Descriptions_assnlist>
32    <Description text="Average log ratio.">
33    </Description>
34  </Descriptions_assnlist>
35  <Channel_assnref>
36    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
37  </Channel_assnref>
38  <Scale_assn>
39    <OntologyEntry category="Scale" value="log_base_10">
40    </OntologyEntry>
41  </Scale_assn>
42  <DataType_assn>
43    <OntologyEntry category="DataType" value="float">
44    </OntologyEntry>
45  </DataType_assn>
46      </DerivedSignal>
47      <DerivedSignal identifier="Affymetrix:QuantitationType:CHPSignal" isBackground="0">
48  <Descriptions_assnlist>
49    <Description text="A measure of the relative abundance of a transcript.">
50    </Description>
51  </Descriptions_assnlist>
52  <Channel_assnref>
53    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
54  </Channel_assnref>
55  <Scale_assn>
56    <OntologyEntry category="Scale" value="linear_scale">
57    </OntologyEntry>
58  </Scale_assn>
59  <DataType_assn>
60    <OntologyEntry category="DataType" value="float">
61    </OntologyEntry>
62  </DataType_assn>
63      </DerivedSignal>
64      <MeasuredSignal identifier="Affymetrix:QuantitationType:CELIntensity" isBackground="0">
65  <Descriptions_assnlist>
66    <Description text="The intensity value of the probe. Represents the 75th percentile among the DAT file intensity values of the pixels in the feature.">
67    </Description>
68  </Descriptions_assnlist>
69  <Channel_assnref>
70    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
71  </Channel_assnref>
72  <Scale_assn>
73    <OntologyEntry category="Scale" value="linear_scale">
74    </OntologyEntry>
75  </Scale_assn>
76  <DataType_assn>
77    <OntologyEntry category="DataType" value="float">
78    </OntologyEntry>
79  </DataType_assn>
80      </MeasuredSignal>
81      <PresentAbsent identifier="Affymetrix:QuantitationType:CHPAbsCall" isBackground="0">
82  <Descriptions_assnlist>
83    <Description text="The call in an absolute analysis that indicates if the transcript was present (P), absent (A), or marginal (M).">
84    </Description>
85  </Descriptions_assnlist>
86  <Channel_assnref>
87    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
88  </Channel_assnref>
89  <Scale_assn>
90    <OntologyEntry category="Scale" value="unscaled">
91    </OntologyEntry>
92  </Scale_assn>
93  <DataType_assn>
94    <OntologyEntry category="DataType" value="string_datatype">
95    </OntologyEntry>
96  </DataType_assn>
97      </PresentAbsent>
98      <PresentAbsent identifier="Affymetrix:QuantitationType:CHPChange" isBackground="0">
99  <Descriptions_assnlist>
100    <Description text="A call indicating an Increase (I), Marginal Increase (MI), No Change (NC), Decrease (D), or Marginal Decrease (MD) in transcript level between a baseline array and an experiment array. May also have the value &quot;No Call&quot;.">
101    </Description>
102  </Descriptions_assnlist>
103  <Channel_assnref>
104    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
105  </Channel_assnref>
106  <Scale_assn>
107    <OntologyEntry category="Scale" value="unscaled">
108    </OntologyEntry>
109  </Scale_assn>
110  <DataType_assn>
111    <OntologyEntry category="DataType" value="string_datatype">
112    </OntologyEntry>
113  </DataType_assn>
114      </PresentAbsent>
115      <PresentAbsent identifier="Affymetrix:QuantitationType:CHPDetection" isBackground="0">
116  <Descriptions_assnlist>
117    <Description text="A measurement indicating if the transcript was detected (Present), not detected (Absent) or marginally detected (Marginal). Can be one of &quot;A&quot;, &quot;M&quot;, &quot;P&quot; or &quot;No Call&quot;.">
118    </Description>
119  </Descriptions_assnlist>
120  <Channel_assnref>
121    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
122  </Channel_assnref>
123  <Scale_assn>
124    <OntologyEntry category="Scale" value="unscaled">
125    </OntologyEntry>
126  </Scale_assn>
127  <DataType_assn>
128    <OntologyEntry category="DataType" value="string_datatype">
129    </OntologyEntry>
130  </DataType_assn>
131      </PresentAbsent>
132      <PresentAbsent identifier="Affymetrix:QuantitationType:CHPDiffCall" isBackground="0">
133  <Descriptions_assnlist>
134    <Description text="The comparison change call">
135    </Description>
136  </Descriptions_assnlist>
137  <Channel_assnref>
138    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
139  </Channel_assnref>
140  <Scale_assn>
141    <OntologyEntry category="Scale" value="unscaled">
142    </OntologyEntry>
143  </Scale_assn>
144  <DataType_assn>
145    <OntologyEntry category="DataType" value="string_datatype">
146    </OntologyEntry>
147  </DataType_assn>
148      </PresentAbsent>
149      <PValue identifier="Affymetrix:QuantitationType:CHPChangePvalue" isBackground="0">
150  <Descriptions_assnlist>
151    <Description text="Measures the probability that the expression levels of a probe set in two different arrays are the same or not. When the p-value is close to 0.5 they are likely to be the same. When the p-value is close to 0 the expression level in the experiment array is higher than that of the baseline array. When the p-value is close to 1, the expression level in the experiment arrays is lower than that of the baseline.">
152    </Description>
153  </Descriptions_assnlist>
154  <Channel_assnref>
155    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
156  </Channel_assnref>
157  <Scale_assn>
158    <OntologyEntry category="Scale" value="linear_scale">
159    </OntologyEntry>
160  </Scale_assn>
161  <DataType_assn>
162    <OntologyEntry category="DataType" value="float">
163    </OntologyEntry>
164  </DataType_assn>
165  <TargetQuantitationType_assnref>
166    <PresentAbsent_ref identifier="Affymetrix:QuantitationType:CHPChange"/>
167  </TargetQuantitationType_assnref>
168      </PValue>
169      <PValue identifier="Affymetrix:QuantitationType:CHPDetectionPvalue" isBackground="0">
170  <Descriptions_assnlist>
171    <Description text="See Detection p-value">
172    </Description>
173  </Descriptions_assnlist>
174  <Channel_assnref>
175    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
176  </Channel_assnref>
177  <Scale_assn>
178    <OntologyEntry category="Scale" value="linear_scale">
179    </OntologyEntry>
180  </Scale_assn>
181  <DataType_assn>
182    <OntologyEntry category="DataType" value="float">
183    </OntologyEntry>
184  </DataType_assn>
185  <TargetQuantitationType_assnref>
186    <PresentAbsent_ref identifier="Affymetrix:QuantitationType:CHPDetection"/>
187  </TargetQuantitationType_assnref>
188      </PValue>
189      <Ratio identifier="Affymetrix:QuantitationType:CHPDecRatio" isBackground="0">
190  <Descriptions_assnlist>
191    <Description text="The ratio of decreasing pairs to the total number of pairs.">
192    </Description>
193  </Descriptions_assnlist>
194  <Channel_assnref>
195    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
196  </Channel_assnref>
197  <Scale_assn>
198    <OntologyEntry category="Scale" value="linear_scale">
199    </OntologyEntry>
200  </Scale_assn>
201  <DataType_assn>
202    <OntologyEntry category="DataType" value="float">
203    </OntologyEntry>
204  </DataType_assn>
205      </Ratio>
206      <Ratio identifier="Affymetrix:QuantitationType:CHPDPos-DNegRatio" isBackground="0">
207  <Descriptions_assnlist>
208    <Description text="The ratio of the change in positive to the change in negative pairs.">
209    </Description>
210  </Descriptions_assnlist>
211  <Channel_assnref>
212    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
213  </Channel_assnref>
214  <Scale_assn>
215    <OntologyEntry category="Scale" value="linear_scale">
216    </OntologyEntry>
217  </Scale_assn>
218  <DataType_assn>
219    <OntologyEntry category="DataType" value="float">
220    </OntologyEntry>
221  </DataType_assn>
222      </Ratio>
223      <Ratio identifier="Affymetrix:QuantitationType:CHPFoldChange" isBackground="0">
224  <Descriptions_assnlist>
225    <Description text="The fold change.">
226    </Description>
227  </Descriptions_assnlist>
228  <Channel_assnref>
229    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
230  </Channel_assnref>
231  <Scale_assn>
232    <OntologyEntry category="Scale" value="linear_scale">
233    </OntologyEntry>
234  </Scale_assn>
235  <DataType_assn>
236    <OntologyEntry category="DataType" value="float">
237    </OntologyEntry>
238  </DataType_assn>
239      </Ratio>
240      <Ratio identifier="Affymetrix:QuantitationType:CHPIncDecRatio" isBackground="0">
241  <Descriptions_assnlist>
242    <Description text="The ratio of increase to decrease pairs.">
243    </Description>
244  </Descriptions_assnlist>
245  <Channel_assnref>
246    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
247  </Channel_assnref>
248  <Scale_assn>
249    <OntologyEntry category="Scale" value="linear_scale">
250    </OntologyEntry>
251  </Scale_assn>
252  <DataType_assn>
253    <OntologyEntry category="DataType" value="float">
254    </OntologyEntry>
255  </DataType_assn>
256      </Ratio>
257      <Ratio identifier="Affymetrix:QuantitationType:CHPIncRatio" isBackground="0">
258  <Descriptions_assnlist>
259    <Description text="The ratio of increasing pairs to the total number of pairs.">
260    </Description>
261  </Descriptions_assnlist>
262  <Channel_assnref>
263    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
264  </Channel_assnref>
265  <Scale_assn>
266    <OntologyEntry category="Scale" value="linear_scale">
267    </OntologyEntry>
268  </Scale_assn>
269  <DataType_assn>
270    <OntologyEntry category="DataType" value="float">
271    </OntologyEntry>
272  </DataType_assn>
273      </Ratio>
274      <Ratio identifier="Affymetrix:QuantitationType:CHPPosFraction" isBackground="0">
275  <Descriptions_assnlist>
276    <Description text="The fraction of positive pairs.">
277    </Description>
278  </Descriptions_assnlist>
279  <Channel_assnref>
280    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
281  </Channel_assnref>
282  <Scale_assn>
283    <OntologyEntry category="Scale" value="linear_scale">
284    </OntologyEntry>
285  </Scale_assn>
286  <DataType_assn>
287    <OntologyEntry category="DataType" value="float">
288    </OntologyEntry>
289  </DataType_assn>
290      </Ratio>
291      <Ratio identifier="Affymetrix:QuantitationType:CHPPosNegRatio" isBackground="0">
292  <Descriptions_assnlist>
293    <Description text="The ratio of the positive to the negative pairs.">
294    </Description>
295  </Descriptions_assnlist>
296  <Channel_assnref>
297    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
298  </Channel_assnref>
299  <Scale_assn>
300    <OntologyEntry category="Scale" value="linear_scale">
301    </OntologyEntry>
302  </Scale_assn>
303  <DataType_assn>
304    <OntologyEntry category="DataType" value="float">
305    </OntologyEntry>
306  </DataType_assn>
307      </Ratio>
308      <Ratio identifier="Affymetrix:QuantitationType:CHPSignalLogRatio" isBackground="0">
309  <Descriptions_assnlist>
310    <Description text="The change in expression level for a transcript between a baseline and an experiment array. This change is expressed as the Log2 ratio.">
311    </Description>
312  </Descriptions_assnlist>
313  <Channel_assnref>
314    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
315  </Channel_assnref>
316  <Scale_assn>
317    <OntologyEntry category="Scale" value="log_base_2">
318    </OntologyEntry>
319  </Scale_assn>
320  <DataType_assn>
321    <OntologyEntry category="DataType" value="float">
322    </OntologyEntry>
323  </DataType_assn>
324      </Ratio>
325      <Ratio identifier="Affymetrix:QuantitationType:CHPSignalLogRatioHigh" isBackground="0">
326  <Descriptions_assnlist>
327    <Description text="The upper limit of the Signal Log Ratio within a 95% confidence interval.">
328    </Description>
329  </Descriptions_assnlist>
330  <Channel_assnref>
331    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
332  </Channel_assnref>
333  <Scale_assn>
334    <OntologyEntry category="Scale" value="log_base_2">
335    </OntologyEntry>
336  </Scale_assn>
337  <DataType_assn>
338    <OntologyEntry category="DataType" value="float">
339    </OntologyEntry>
340  </DataType_assn>
341      </Ratio>
342      <Ratio identifier="Affymetrix:QuantitationType:CHPSignalLogRatioLow" isBackground="0">
343  <Descriptions_assnlist>
344    <Description text="The lower limit of the Signal Log Ratio within a 95% confidence interval.">
345    </Description>
346  </Descriptions_assnlist>
347  <Channel_assnref>
348    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
349  </Channel_assnref>
350  <Scale_assn>
351    <OntologyEntry category="Scale" value="log_base_2">
352    </OntologyEntry>
353  </Scale_assn>
354  <DataType_assn>
355    <OntologyEntry category="DataType" value="float">
356    </OntologyEntry>
357  </DataType_assn>
358      </Ratio>
359      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CELIntensityStdev" isBackground="0">
360  <Descriptions_assnlist>
361    <Description text="The standard deviation of the intensity of the probe.">
362    </Description>
363  </Descriptions_assnlist>
364  <Channel_assnref>
365    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
366  </Channel_assnref>
367  <Scale_assn>
368    <OntologyEntry category="Scale" value="linear_scale">
369    </OntologyEntry>
370  </Scale_assn>
371  <DataType_assn>
372    <OntologyEntry category="DataType" value="float">
373    </OntologyEntry>
374  </DataType_assn>
375      </SpecializedQuantitationType>
376      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CELMask" isBackground="0">
377  <Descriptions_assnlist>
378    <Description text="A flag indicating that the probe was masked by the user.">
379    </Description>
380  </Descriptions_assnlist>
381  <Channel_assnref>
382    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
383  </Channel_assnref>
384  <Scale_assn>
385    <OntologyEntry category="Scale" value="linear_scale">
386    </OntologyEntry>
387  </Scale_assn>
388  <DataType_assn>
389    <OntologyEntry category="DataType" value="boolean">
390    </OntologyEntry>
391  </DataType_assn>
392      </SpecializedQuantitationType>
393      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CELOutlier" isBackground="0">
394  <Descriptions_assnlist>
395    <Description text="A flag indicating that the software called this probe an outlier.">
396    </Description>
397  </Descriptions_assnlist>
398  <Channel_assnref>
399    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
400  </Channel_assnref>
401  <Scale_assn>
402    <OntologyEntry category="Scale" value="linear_scale">
403    </OntologyEntry>
404  </Scale_assn>
405  <DataType_assn>
406    <OntologyEntry category="DataType" value="boolean">
407    </OntologyEntry>
408  </DataType_assn>
409      </SpecializedQuantitationType>
410      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CELPixels" isBackground="0">
411  <Descriptions_assnlist>
412    <Description text="The number of pixels used to calculate the intensity.">
413    </Description>
414  </Descriptions_assnlist>
415  <Channel_assnref>
416    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
417  </Channel_assnref>
418  <Scale_assn>
419    <OntologyEntry category="Scale" value="linear_scale">
420    </OntologyEntry>
421  </Scale_assn>
422  <DataType_assn>
423    <OntologyEntry category="DataType" value="integer">
424    </OntologyEntry>
425  </DataType_assn>
426      </SpecializedQuantitationType>
427      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CELX" isBackground="0">
428  <Descriptions_assnlist>
429    <Description text="The x coordinate of the probe.">
430    </Description>
431  </Descriptions_assnlist>
432  <Channel_assnref>
433    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
434  </Channel_assnref>
435  <Scale_assn>
436    <OntologyEntry category="Scale" value="linear_scale">
437    </OntologyEntry>
438  </Scale_assn>
439  <DataType_assn>
440    <OntologyEntry category="DataType" value="integer">
441    </OntologyEntry>
442  </DataType_assn>
443      </SpecializedQuantitationType>
444      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CELY" isBackground="0">
445  <Descriptions_assnlist>
446    <Description text="The y coordinate of the probe.">
447    </Description>
448  </Descriptions_assnlist>
449  <Channel_assnref>
450    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
451  </Channel_assnref>
452  <Scale_assn>
453    <OntologyEntry category="Scale" value="linear_scale">
454    </OntologyEntry>
455  </Scale_assn>
456  <DataType_assn>
457    <OntologyEntry category="DataType" value="integer">
458    </OntologyEntry>
459  </DataType_assn>
460      </SpecializedQuantitationType>
461      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPAvgDiffChange" isBackground="0">
462  <Descriptions_assnlist>
463    <Description text="The change in average difference">
464    </Description>
465  </Descriptions_assnlist>
466  <Channel_assnref>
467    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
468  </Channel_assnref>
469  <Scale_assn>
470    <OntologyEntry category="Scale" value="linear_scale">
471    </OntologyEntry>
472  </Scale_assn>
473  <DataType_assn>
474    <OntologyEntry category="DataType" value="float">
475    </OntologyEntry>
476  </DataType_assn>
477      </SpecializedQuantitationType>
478      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPBaselineAbsent" isBackground="0">
479  <Descriptions_assnlist>
480    <Description text="Flag indicating if the baseline call was absent.">
481    </Description>
482  </Descriptions_assnlist>
483  <Channel_assnref>
484    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
485  </Channel_assnref>
486  <Scale_assn>
487    <OntologyEntry category="Scale" value="linear_scale">
488    </OntologyEntry>
489  </Scale_assn>
490  <DataType_assn>
491    <OntologyEntry category="DataType" value="float">
492    </OntologyEntry>
493  </DataType_assn>
494      </SpecializedQuantitationType>
495      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPCommonPairs" isBackground="0">
496  <Descriptions_assnlist>
497    <Description text="The number of common probe pairs on two arrays (experiment versus baseline) after saturation across the probe set is determined.">
498    </Description>
499  </Descriptions_assnlist>
500  <Channel_assnref>
501    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
502  </Channel_assnref>
503  <Scale_assn>
504    <OntologyEntry category="Scale" value="linear_scale">
505    </OntologyEntry>
506  </Scale_assn>
507  <DataType_assn>
508    <OntologyEntry category="DataType" value="integer">
509    </OntologyEntry>
510  </DataType_assn>
511      </SpecializedQuantitationType>
512      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPDec" isBackground="0">
513  <Descriptions_assnlist>
514    <Description text="The number of decreasing pairs.">
515    </Description>
516  </Descriptions_assnlist>
517  <Channel_assnref>
518    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
519  </Channel_assnref>
520  <Scale_assn>
521    <OntologyEntry category="Scale" value="linear_scale">
522    </OntologyEntry>
523  </Scale_assn>
524  <DataType_assn>
525    <OntologyEntry category="DataType" value="integer">
526    </OntologyEntry>
527  </DataType_assn>
528      </SpecializedQuantitationType>
529      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPInc" isBackground="0">
530  <Descriptions_assnlist>
531    <Description text="The number of increasing pairs.">
532    </Description>
533  </Descriptions_assnlist>
534  <Channel_assnref>
535    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
536  </Channel_assnref>
537  <Scale_assn>
538    <OntologyEntry category="Scale" value="linear_scale">
539    </OntologyEntry>
540  </Scale_assn>
541  <DataType_assn>
542    <OntologyEntry category="DataType" value="integer">
543    </OntologyEntry>
544  </DataType_assn>
545      </SpecializedQuantitationType>
546      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPLogAvgRatioChange" isBackground="0">
547  <Descriptions_assnlist>
548    <Description text="The change in log average ratio.">
549    </Description>
550  </Descriptions_assnlist>
551  <Channel_assnref>
552    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
553  </Channel_assnref>
554  <Scale_assn>
555    <OntologyEntry category="Scale" value="log_base_10">
556    </OntologyEntry>
557  </Scale_assn>
558  <DataType_assn>
559    <OntologyEntry category="DataType" value="float">
560    </OntologyEntry>
561  </DataType_assn>
562      </SpecializedQuantitationType>
563      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPNegative" isBackground="0">
564  <Descriptions_assnlist>
565    <Description text="Number of negative probe pairs.">
566    </Description>
567  </Descriptions_assnlist>
568  <Channel_assnref>
569    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
570  </Channel_assnref>
571  <Scale_assn>
572    <OntologyEntry category="Scale" value="linear_scale">
573    </OntologyEntry>
574  </Scale_assn>
575  <DataType_assn>
576    <OntologyEntry category="DataType" value="integer">
577    </OntologyEntry>
578  </DataType_assn>
579      </SpecializedQuantitationType>
580      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPNegChange" isBackground="0">
581  <Descriptions_assnlist>
582    <Description text="The change in negative pairs.">
583    </Description>
584  </Descriptions_assnlist>
585  <Channel_assnref>
586    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
587  </Channel_assnref>
588  <Scale_assn>
589    <OntologyEntry category="Scale" value="linear_scale">
590    </OntologyEntry>
591  </Scale_assn>
592  <DataType_assn>
593    <OntologyEntry category="DataType" value="integer">
594    </OntologyEntry>
595  </DataType_assn>
596      </SpecializedQuantitationType>
597      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPPairs" isBackground="0">
598  <Descriptions_assnlist>
599    <Description text="The number of probe pairs in a probe set.">
600    </Description>
601  </Descriptions_assnlist>
602  <Channel_assnref>
603    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
604  </Channel_assnref>
605  <Scale_assn>
606    <OntologyEntry category="Scale" value="linear_scale">
607    </OntologyEntry>
608  </Scale_assn>
609  <DataType_assn>
610    <OntologyEntry category="DataType" value="integer">
611    </OntologyEntry>
612  </DataType_assn>
613      </SpecializedQuantitationType>
614      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPPairsInAvg" isBackground="0">
615  <Descriptions_assnlist>
616    <Description text="Number of probe pairs used in computing the average intensity difference">
617    </Description>
618  </Descriptions_assnlist>
619  <Channel_assnref>
620    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
621  </Channel_assnref>
622  <Scale_assn>
623    <OntologyEntry category="Scale" value="linear_scale">
624    </OntologyEntry>
625  </Scale_assn>
626  <DataType_assn>
627    <OntologyEntry category="DataType" value="integer">
628    </OntologyEntry>
629  </DataType_assn>
630      </SpecializedQuantitationType>
631      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPPairsUsed" isBackground="0">
632  <Descriptions_assnlist>
633    <Description text="The number of probe pairs in the probe set used in the Detection call.">
634    </Description>
635  </Descriptions_assnlist>
636  <Channel_assnref>
637    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
638  </Channel_assnref>
639  <Scale_assn>
640    <OntologyEntry category="Scale" value="linear_scale">
641    </OntologyEntry>
642  </Scale_assn>
643  <DataType_assn>
644    <OntologyEntry category="DataType" value="integer">
645    </OntologyEntry>
646  </DataType_assn>
647      </SpecializedQuantitationType>
648      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPPosChange" isBackground="0">
649  <Descriptions_assnlist>
650    <Description text="The change in positive pairs.">
651    </Description>
652  </Descriptions_assnlist>
653  <Channel_assnref>
654    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
655  </Channel_assnref>
656  <Scale_assn>
657    <OntologyEntry category="Scale" value="linear_scale">
658    </OntologyEntry>
659  </Scale_assn>
660  <DataType_assn>
661    <OntologyEntry category="DataType" value="float">
662    </OntologyEntry>
663  </DataType_assn>
664      </SpecializedQuantitationType>
665      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPPositive" isBackground="0">
666  <Descriptions_assnlist>
667    <Description text="Number of positive probe pairs.">
668    </Description>
669  </Descriptions_assnlist>
670  <Channel_assnref>
671    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
672  </Channel_assnref>
673  <Scale_assn>
674    <OntologyEntry category="Scale" value="linear_scale">
675    </OntologyEntry>
676  </Scale_assn>
677  <DataType_assn>
678    <OntologyEntry category="DataType" value="integer">
679    </OntologyEntry>
680  </DataType_assn>
681      </SpecializedQuantitationType>
682      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:CHPSortScore" isBackground="0">
683  <Descriptions_assnlist>
684    <Description text="The sort score.">
685    </Description>
686  </Descriptions_assnlist>
687  <Channel_assnref>
688    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
689  </Channel_assnref>
690  <Scale_assn>
691    <OntologyEntry category="Scale" value="linear_scale">
692    </OntologyEntry>
693  </Scale_assn>
694  <DataType_assn>
695    <OntologyEntry category="DataType" value="float">
696    </OntologyEntry>
697  </DataType_assn>
698      </SpecializedQuantitationType>
699      <SpecializedQuantitationType identifier="Affymetrix:QuantitationType:ProbeSetName" isBackground="0">
700  <Descriptions_assnlist>
701    <Description text="The name of the probe set.">
702    </Description>
703  </Descriptions_assnlist>
704  <Channel_assnref>
705    <Channel_ref identifier="ebi.ac.uk:Channel:biotin"/>
706  </Channel_assnref>
707  <Scale_assn>
708    <OntologyEntry category="Scale" value="unscaled">
709    </OntologyEntry>
710  </Scale_assn>
711  <DataType_assn>
712    <OntologyEntry category="DataType" value="string_datatype">
713    </OntologyEntry>
714  </DataType_assn>
715      </SpecializedQuantitationType>
716    </QuantitationType_assnlist>
717</QuantitationType_package>
718</MAGE-ML>
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