Mercurial > repos > iuc > beacon2_import

comparison test-data/biosamples_query_findings.json @ 0:0f85ad162439 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/beacon2-import commit f4151aa2d760f931f819f954f465ef66055bf258
author iuc
date Mon, 22 Jul 2024 12:35:43 +0000
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-1:000000000000 0:0f85ad162439
1 {'_id': ObjectId('668fb4eb8ed056280039f1bd'),
2 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
3 'collectionDate': '2021-04-23',
4 'collectionMoment': 'P32Y6M1D',
5 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
6 'histologicalDiagnosis': {'id': 'NCIT:C39853',
7 'label': 'Infiltrating Urothelial Carcinoma'},
8 'id': 'refvar-668fb4eb8ed056280039f1bd',
9 'individualId': 'NA24631',
10 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
11 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
12 'label': 'T2b Stage Finding'}],
13 'sampleOriginDetail': {'id': 'UBERON:0001256',
14 'label': 'wall of urinary bladde'},
15 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
16 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
17 'tumorProgression': {'id': 'NCIT:C84509',
18 'label': 'Primary Malignant Neoplasm'}}
19 {'_id': ObjectId('668fb4eb8ed056280039f1be'),
20 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
21 'collectionDate': '2021-04-23',
22 'collectionMoment': 'P32Y6M1D',
23 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
24 'histologicalDiagnosis': {'id': 'NCIT:C39853',
25 'label': 'Infiltrating Urothelial Carcinoma'},
26 'id': 'refvar-668fb4eb8ed056280039f1be',
27 'individualId': 'NA24694',
28 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
29 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
30 'label': 'T2b Stage Finding'}],
31 'sampleOriginDetail': {'id': 'UBERON:0001256',
32 'label': 'wall of urinary bladde'},
33 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
34 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
35 'tumorProgression': {'id': 'NCIT:C84509',
36 'label': 'Primary Malignant Neoplasm'}}
37 {'_id': ObjectId('668fb4eb8ed056280039f1bf'),
38 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
39 'collectionDate': '2021-04-23',
40 'collectionMoment': 'P32Y6M1D',
41 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
42 'histologicalDiagnosis': {'id': 'NCIT:C39853',
43 'label': 'Infiltrating Urothelial Carcinoma'},
44 'id': 'refvar-668fb4eb8ed056280039f1bf',
45 'individualId': 'NA24695',
46 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
47 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
48 'label': 'T2b Stage Finding'}],
49 'sampleOriginDetail': {'id': 'UBERON:0001256',
50 'label': 'wall of urinary bladde'},
51 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
52 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
53 'tumorProgression': {'id': 'NCIT:C84509',
54 'label': 'Primary Malignant Neoplasm'}}
55 {'_id': ObjectId('668fb7125d00a890d911aa69'),
56 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
57 'collectionDate': '2021-04-23',
58 'collectionMoment': 'P32Y6M1D',
59 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
60 'histologicalDiagnosis': {'id': 'NCIT:C39853',
61 'label': 'Infiltrating Urothelial Carcinoma'},
62 'id': 'refvar-668fb7125d00a890d911aa69',
63 'individualId': 'NA24631',
64 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
65 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
66 'label': 'T2b Stage Finding'}],
67 'sampleOriginDetail': {'id': 'UBERON:0001256',
68 'label': 'wall of urinary bladde'},
69 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
70 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
71 'tumorProgression': {'id': 'NCIT:C84509',
72 'label': 'Primary Malignant Neoplasm'}}
73 {'_id': ObjectId('668fb7125d00a890d911aa6a'),
74 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
75 'collectionDate': '2021-04-23',
76 'collectionMoment': 'P32Y6M1D',
77 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
78 'histologicalDiagnosis': {'id': 'NCIT:C39853',
79 'label': 'Infiltrating Urothelial Carcinoma'},
80 'id': 'refvar-668fb7125d00a890d911aa6a',
81 'individualId': 'NA24694',
82 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
83 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
84 'label': 'T2b Stage Finding'}],
85 'sampleOriginDetail': {'id': 'UBERON:0001256',
86 'label': 'wall of urinary bladde'},
87 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
88 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
89 'tumorProgression': {'id': 'NCIT:C84509',
90 'label': 'Primary Malignant Neoplasm'}}
91 {'_id': ObjectId('668fb7125d00a890d911aa6b'),
92 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
93 'collectionDate': '2021-04-23',
94 'collectionMoment': 'P32Y6M1D',
95 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
96 'histologicalDiagnosis': {'id': 'NCIT:C39853',
97 'label': 'Infiltrating Urothelial Carcinoma'},
98 'id': 'refvar-668fb7125d00a890d911aa6b',
99 'individualId': 'NA24695',
100 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
101 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
102 'label': 'T2b Stage Finding'}],
103 'sampleOriginDetail': {'id': 'UBERON:0001256',
104 'label': 'wall of urinary bladde'},
105 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
106 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
107 'tumorProgression': {'id': 'NCIT:C84509',
108 'label': 'Primary Malignant Neoplasm'}}
109 {'_id': ObjectId('668fb721ae6c452887afb69d'),
110 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
111 'collectionDate': '2021-04-23',
112 'collectionMoment': 'P32Y6M1D',
113 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
114 'histologicalDiagnosis': {'id': 'NCIT:C39853',
115 'label': 'Infiltrating Urothelial Carcinoma'},
116 'id': 'refvar-668fb721ae6c452887afb69d',
117 'individualId': 'NA24631',
118 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
119 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
120 'label': 'T2b Stage Finding'}],
121 'sampleOriginDetail': {'id': 'UBERON:0001256',
122 'label': 'wall of urinary bladde'},
123 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
124 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
125 'tumorProgression': {'id': 'NCIT:C84509',
126 'label': 'Primary Malignant Neoplasm'}}
127 {'_id': ObjectId('668fb721ae6c452887afb69e'),
128 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
129 'collectionDate': '2021-04-23',
130 'collectionMoment': 'P32Y6M1D',
131 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
132 'histologicalDiagnosis': {'id': 'NCIT:C39853',
133 'label': 'Infiltrating Urothelial Carcinoma'},
134 'id': 'refvar-668fb721ae6c452887afb69e',
135 'individualId': 'NA24694',
136 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
137 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
138 'label': 'T2b Stage Finding'}],
139 'sampleOriginDetail': {'id': 'UBERON:0001256',
140 'label': 'wall of urinary bladde'},
141 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
142 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
143 'tumorProgression': {'id': 'NCIT:C84509',
144 'label': 'Primary Malignant Neoplasm'}}
145 {'_id': ObjectId('668fb721ae6c452887afb69f'),
146 'biosampleStatus': {'id': 'EFO:0009655', 'label': 'abnormal sample'},
147 'collectionDate': '2021-04-23',
148 'collectionMoment': 'P32Y6M1D',
149 'diagnosticMarkers': [{'id': 'NCIT:C48726', 'label': 'T2b Stage Finding'}],
150 'histologicalDiagnosis': {'id': 'NCIT:C39853',
151 'label': 'Infiltrating Urothelial Carcinoma'},
152 'id': 'refvar-668fb721ae6c452887afb69f',
153 'individualId': 'NA24695',
154 'pathologicalStage': {'id': 'NCIT:C28054', 'label': 'Stage II'},
155 'pathologicalTnmFinding': [{'id': 'NCIT:C48726',
156 'label': 'T2b Stage Finding'}],
157 'sampleOriginDetail': {'id': 'UBERON:0001256',
158 'label': 'wall of urinary bladde'},
159 'sampleOriginType': {'id': 'EFO:000965', 'label': 'abnormal sample'},
160 'tumorGrade': {'id': 'NCIT:C36136', 'label': 'Grade 2 Lesion'},
161 'tumorProgression': {'id': 'NCIT:C84509',
162 'label': 'Primary Malignant Neoplasm'}}