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T1 Age 2 13 33-year-old T2 Personal_background 14 22 Moroccan T3 Sex 23 26 man T4 Sign_symptom 88 99 temperature E1 Sign_symptom:T4 #1 AnnotatorNotes E1 presumably a high temperature - "temperature" is not a symptom by itself T5 Sign_symptom 101 108 myalgia E2 Sign_symptom:T5 T6 Sign_symptom 110 115 cough E3 Sign_symptom:T6 T7 Sign_symptom 121 131 hemoptysis E4 Sign_symptom:T7 T8 Disease_disorder 63 72 sinusitis E5 Disease_disorder:T8 T9 Duration 34 41 5-month E6 Duration:T9 T10 Diagnostic_procedure 142 162 physical examination E7 Diagnostic_procedure:T10 T11 Biological_structure 133 141 Thoracic R1 MODIFY Arg1:T11 Arg2:E7 T12 Diagnostic_procedure 180 196 vesicular murmur E8 Diagnostic_procedure:T12 T13 Lab_value 172 179 reduced R2 MODIFY Arg1:T13 Arg2:E8 T14 Diagnostic_procedure 208 213 X-ray E9 Diagnostic_procedure:T14 T15 Biological_structure 202 207 chest R3 MODIFY Arg1:T15 Arg2:E9 T16 Sign_symptom 248 259 infiltrates E10 Sign_symptom:T16 T17 Detailed_description 221 230 bilateral T18 Detailed_description 231 238 diffuse T19 Biological_structure 239 247 alveolar R4 MODIFY Arg1:T19 Arg2:E10 R5 MODIFY Arg1:T18 Arg2:E10 R6 MODIFY Arg1:T17 Arg2:E10 T20 Diagnostic_procedure 261 280 Laboratory analyses E11 Diagnostic_procedure:T20 T21 Diagnostic_procedure 301 321 acute-phase proteins E12 Diagnostic_procedure:T21 T22 Diagnostic_procedure 323 326 CRP E13 Diagnostic_procedure:T22 T23 Lab_value 327 335 26 mg/dL R7 MODIFY Arg1:T23 Arg2:E13 R8 SUB_PROCEDURE Arg1:E13 Arg2:E12 T24 Lab_value 288 297 elevation R9 MODIFY Arg1:T24 Arg2:E12 R10 SUB_PROCEDURE Arg1:E12 Arg2:E11 T25 Diagnostic_procedure 341 351 creatinine E14 Diagnostic_procedure:T25 T26 Lab_value 353 362 1.2 mg/dL R11 MODIFY Arg1:T26 Arg2:E14 R12 SUB_PROCEDURE Arg1:E14 Arg2:E11 R13 MODIFY Arg1:T24 Arg2:E14 T27 Sign_symptom 382 393 proteinuria E15 Sign_symptom:T27 T28 Detailed_description 369 381 nonnephrotic R14 MODIFY Arg1:T28 Arg2:E15 T29 Sign_symptom 421 430 hematuria E16 Sign_symptom:T29 T30 Detailed_description 398 409 microscopic T31 Detailed_description 410 420 glomerular R15 MODIFY Arg1:T31 Arg2:E16 R16 MODIFY Arg1:T30 Arg2:E16 T32 Medication 435 453 antibiotic therapy E17 Medication:T32 T33 Clinical_event 2664 2673 follow-up E18 Clinical_event:T33 T34 Medication 506 518 levofloxacin E19 Medication:T34 T35 Dosage 519 531 500 mg daily T36 Administration 532 534 iv R17 MODIFY Arg1:T35 Arg2:E19 R18 MODIFY Arg1:T36 Arg2:E19 T37 Disease_disorder 490 500 pneumoniae E20 Disease_disorder:T37 A1 POLARITY E20 UNCERTAIN T38 Detailed_description 458 476 community acquired T39 Detailed_description 481 489 atypical R19 MODIFY Arg1:T39 Arg2:E20 R20 MODIFY Arg1:T38 Arg2:E20 R21 SUB_PROCEDURE Arg1:E19 Arg2:E17 T40 Date 563 570 3rd day E21 Date:T40 T41 Disease_disorder 608 627 respiratory failure E22 Disease_disorder:T41 T42 Therapeutic_procedure 656 667 ventilation E23 Therapeutic_procedure:T42 T43 Detailed_description 644 655 noninvasive R22 MODIFY Arg1:T43 Arg2:E23 T44 Therapeutic_procedure 682 691 intubated E24 Therapeutic_procedure:T44 T45 Diagnostic_procedure 750 769 computed tomography E25 Diagnostic_procedure:T45 T46 Disease_disorder 944 947 GPA E26 Disease_disorder:T46 #2 AnnotatorNotes E26 Granulomatosis with polyangiitis T47 Therapeutic_procedure 965 984 ventilatory support E27 Therapeutic_procedure:T47 T48 Detailed_description 957 964 maximal R23 MODIFY Arg1:T48 Arg2:E27 T49 Diagnostic_procedure 986 998 gas exchange E28 Diagnostic_procedure:T49 T50 Lab_value 999 1014 did not improve R24 MODIFY Arg1:T50 Arg2:E28 T51 Sign_symptom 800 808 bleeding E29 Sign_symptom:T51 T52 Biological_structure 792 799 airways T53 Detailed_description 784 791 diffuse R25 MODIFY Arg1:T52 Arg2:E29 R26 MODIFY Arg1:T53 Arg2:E29 T54 Diagnostic_procedure 823 835 bronchoscopy E30 Diagnostic_procedure:T54 T55 Detailed_description 812 822 fiberoptic R27 MODIFY Arg1:T55 Arg2:E30 T56 Sign_symptom 853 859 anemia E31 Sign_symptom:T56 T57 Severity 837 841 mild T58 Detailed_description 842 852 normocytic R28 MODIFY Arg1:T58 Arg2:E31 R29 MODIFY Arg1:T57 Arg2:E31 T59 Diagnostic_procedure 853 859 anemia E32 Diagnostic_procedure:T59 T60 Lab_value 861 867 9 g/dL R30 MODIFY Arg1:T60 Arg2:E32 T61 Diagnostic_procedure 874 882 ANCA-PR3 E33 Diagnostic_procedure:T61 T62 Lab_value 883 893 positivity T63 Lab_value 895 904 18.9 U/mL R31 MODIFY Arg1:T62 Arg2:E33 R32 MODIFY Arg1:T63 Arg2:E33 T64 Sign_symptom 709 723 consolidations E34 Sign_symptom:T64 T65 Biological_structure 699 703 lung T66 Color 693 698 White R33 MODIFY Arg1:T66 Arg2:T65 R34 MODIFY Arg1:T65 Arg2:E34 T67 Sign_symptom 728 746 ground glass areas E35 Sign_symptom:T67 T68 Diagnostic_procedure 1016 1018 pH E36 Diagnostic_procedure:T68 T69 Diagnostic_procedure 1025 1029 PaO2 E37 Diagnostic_procedure:T69 T70 Diagnostic_procedure 1040 1045 PaCO2 E38 Diagnostic_procedure:T70 T71 Diagnostic_procedure 1056 1060 HCO3 E39 Diagnostic_procedure:T71 T72 Diagnostic_procedure 1073 1077 SaO2 E40 Diagnostic_procedure:T72 T73 Lab_value 1078 1081 94% R35 MODIFY Arg1:T73 Arg2:E40 T74 Lab_value 1062 1071 25 mmol/L R36 MODIFY Arg1:T74 Arg2:E39 T75 Lab_value 1046 1054 51 mm Hg R37 MODIFY Arg1:T75 Arg2:E38 T76 Lab_value 1019 1023 7.33 R38 MODIFY Arg1:T76 Arg2:E36 T77 Lab_value 1030 1038 71 mm Hg R39 MODIFY Arg1:T77 Arg2:E37 R40 SUB_PROCEDURE Arg1:E36 Arg2:E28 R41 SUB_PROCEDURE Arg1:E37 Arg2:E28 R42 SUB_PROCEDURE Arg1:E38 Arg2:E28 R43 SUB_PROCEDURE Arg1:E39 Arg2:E28 R44 SUB_PROCEDURE Arg1:E40 Arg2:E28 T78 Therapeutic_procedure 1130 1134 ECMO E41 Therapeutic_procedure:T78 T79 Therapeutic_procedure 1093 1128 extracorporeal membrane oxygenation E42 Therapeutic_procedure:T79 R45 IDENTICAL Arg1:E41 Arg2:E42 T80 Medication 1162 1180 methylprednisolone E43 Medication:T80 T81 Dosage 1182 1191 1 g daily R46 MODIFY Arg1:T81 Arg2:E43 T82 Dosage 1152 1161 high-dose R47 MODIFY Arg1:T82 Arg2:E43 T83 Duration 1196 1202 3 days E44 Duration:T83 R48 MODIFY Arg1:E44 Arg2:T81 T84 Dosage 1207 1220 1 mg/kg daily R49 MODIFY Arg1:T84 Arg2:E43 T85 Medication 1234 1250 cyclophosphamide E45 Medication:T85 T86 Dosage 1252 1298 1.2 g/pulse every 2 weeks for the 1st 3 pulses T87 Dosage 1322 1357 every 3 weeks for the next 2 pulses R50 MODIFY Arg1:T87 Arg2:E45 R51 MODIFY Arg1:T86 Arg2:E45 T88 Therapeutic_procedure 1364 1379 plasma exchange E46 Therapeutic_procedure:T88 T89 Therapeutic_procedure 1381 1383 PE E47 Therapeutic_procedure:T89 T90 Detailed_description 1399 1446 European vasculitis study group recommendations R52 MODIFY Arg1:T90 Arg2:E46 R53 IDENTICAL Arg1:E47 Arg2:E46 T91 Diagnostic_procedure 1480 1491 respiratory E48 Diagnostic_procedure:T91 T92 Lab_value 1492 1503 improvement R54 MODIFY Arg1:T92 Arg2:E48 T93 Therapeutic_procedure 1517 1521 ECMO E49 Therapeutic_procedure:T93 A2 POLARITY E49 NEG T94 Therapeutic_procedure 1526 1542 orotracheal tube E50 Therapeutic_procedure:T94 A3 POLARITY E50 NEG T95 Clinical_event 1569 1578 discharge E51 Clinical_event:T95 T96 Nonbiological_location 1584 1603 intensive care unit R55 MODIFY Arg1:T96 Arg2:E51 T97 Date 1605 1617 After 9 days E52 Date:T97 T98 Diagnostic_procedure 1650 1658 ANCA-PR3 E53 Diagnostic_procedure:T98 T99 Lab_value 1666 1676 normalized T100 Lab_value 1678 1684 3 U/mL R56 MODIFY Arg1:T99 Arg2:E53 R57 MODIFY Arg1:T100 Arg2:E53 T101 Date 1687 1703 Two months later E54 Date:T101 T102 Medication 1754 1764 prednisone E55 Medication:T102 T103 Dosage 1765 1778 0.3 mg/kg/day R58 MODIFY Arg1:T103 Arg2:E55 T104 Medication 1728 1744 cyclophosphamide E56 Medication:T104 T105 Detailed_description 1715 1724 5th bolus R59 MODIFY Arg1:T105 Arg2:E56 T106 Sign_symptom 1803 1816 arthromyalgia E57 Sign_symptom:T106 T107 Sign_symptom 1832 1836 pain E58 Sign_symptom:T107 T108 Biological_structure 1821 1831 testicular R60 MODIFY Arg1:T108 Arg2:E58 T109 Sign_symptom 1842 1847 edema E59 Sign_symptom:T109 T110 Sign_symptom 1849 1854 cough E60 Sign_symptom:T110 T111 Sign_symptom 1860 1879 shortness of breath E61 Sign_symptom:T111 T112 Diagnostic_procedure 1881 1896 laboratory data E62 Diagnostic_procedure:T112 T113 Diagnostic_procedure 1917 1931 renal function E63 Diagnostic_procedure:T113 T114 Lab_value 1904 1913 worsening R61 MODIFY Arg1:T114 Arg2:E63 T115 Sign_symptom 1938 1944 anemia E64 Sign_symptom:T115 T116 Severity 1933 1937 mild R62 MODIFY Arg1:T116 Arg2:E64 T117 Sign_symptom 1950 1959 hypoxemia E65 Sign_symptom:T117 T118 Diagnostic_procedure 1961 1965 PaO2 E66 Diagnostic_procedure:T118 T119 Lab_value 1966 1974 61 mm Hg R63 MODIFY Arg1:T119 Arg2:E66 T120 Disease_disorder 1977 1989 Epididymitis E67 Disease_disorder:T120 T121 Diagnostic_procedure 2007 2017 ultrasound E68 Diagnostic_procedure:T121 T122 Disease_disorder 2050 2063 renal failure E69 Disease_disorder:T122 T123 Diagnostic_procedure 2075 2101 glomerular filtration rate E70 Diagnostic_procedure:T123 T124 Lab_value 2102 2111 35 mL/min R64 MODIFY Arg1:T124 Arg2:E70 T125 Detailed_description 2030 2049 rapidly progressive R65 MODIFY Arg1:T125 Arg2:E69 T126 Diagnostic_procedure 2119 2125 biopsy E71 Diagnostic_procedure:T126 T127 Biological_structure 2113 2118 renal R66 MODIFY Arg1:T127 Arg2:E71 T128 Sign_symptom 2195 2208 proliferation E72 Sign_symptom:T128 T129 Biological_structure 2161 2175 intracapillary T130 Biological_structure 2180 2194 extracapillary R67 MODIFY Arg1:T130 Arg2:E72 R68 MODIFY Arg1:T129 Arg2:E72 T131 Severity 2151 2160 prominent R69 MODIFY Arg1:T131 Arg2:E72 T132 Sign_symptom 2281 2289 necrosis E73 Sign_symptom:T132 T133 Biological_structure 2271 2280 capillary T134 Detailed_description 2265 2270 focal R70 MODIFY Arg1:T134 Arg2:E73 R71 MODIFY Arg1:T133 Arg2:E73 T135 Sign_symptom 2237 2260 fibrocellular crescents E74 Sign_symptom:T135 T136 Diagnostic_procedure 2304 2323 computed tomography E75 Diagnostic_procedure:T136 T137 Biological_structure 2299 2303 Lung R72 MODIFY Arg1:T137 Arg2:E75 T138 Diagnostic_procedure 2344 2356 bronchoscopy E76 Diagnostic_procedure:T138 T139 Detailed_description 2333 2343 fiberoptic R73 MODIFY Arg1:T139 Arg2:E76 T140 Sign_symptom 2381 2391 hemorrhage E77 Sign_symptom:T140 T141 Biological_structure 2372 2380 alveolar R74 MODIFY Arg1:T141 Arg2:E77 T142 Detailed_description 2392 2399 relapse R75 MODIFY Arg1:T142 Arg2:E77 T143 Medication 2426 2444 methylprednisolone E78 Medication:T143 T144 Dosage 2416 2425 high-dose R76 MODIFY Arg1:T144 Arg2:E78 T145 Dosage 2446 2455 1 g daily T146 Duration 2460 2478 3 consecutive days E79 Duration:T146 R77 MODIFY Arg1:T145 Arg2:E78 T147 Medication 2484 2493 rituximab E80 Medication:T147 T148 Dosage 2495 2511 375 mg/m2 weekly T149 Duration 2516 2523 4 weeks E81 Duration:T149 R78 MODIFY Arg1:E81 Arg2:T148 R79 MODIFY Arg1:T148 Arg2:E80 R80 MODIFY Arg1:E79 Arg2:T145 T150 Sign_symptom 2585 2596 involvement E82 Sign_symptom:T150 A4 POLARITY E82 NEG T151 Biological_structure 2562 2570 urologic T152 Biological_structure 2575 2584 pulmonary R81 MODIFY Arg1:T152 Arg2:E82 R82 MODIFY Arg1:T151 Arg2:E82 T153 Diagnostic_procedure 2636 2650 renal function E83 Diagnostic_procedure:T153 T154 Lab_value 2613 2632 partial improvement T155 Detailed_description 2601 2608 delayed R83 MODIFY Arg1:T155 Arg2:T154 R84 MODIFY Arg1:T154 Arg2:E83 T156 Sign_symptom 2690 2695 alive E84 Sign_symptom:T156 T157 Medication 2721 2733 azathioprine E85 Medication:T157 T158 Dosage 2735 2747 150 mg daily R85 MODIFY Arg1:T158 Arg2:E85 T159 Medication 2753 2763 prednisone E86 Medication:T159 T160 Dosage 2765 2776 15 mg daily R86 MODIFY Arg1:T160 Arg2:E86 T161 Diagnostic_procedure 2779 2793 Renal function E87 Diagnostic_procedure:T161 T162 Date 2657 2663 1-year E88 Date:T162 T163 Lab_value 2798 2815 markedly improved R87 MODIFY Arg1:T163 Arg2:E87 T164 Diagnostic_procedure 2827 2853 glomerular filtration rate E89 Diagnostic_procedure:T164 T165 Lab_value 2854 2863 94 mL/min R88 MODIFY Arg1:T165 Arg2:E89 T166 Diagnostic_procedure 2873 2885 gas-exchange E90 Diagnostic_procedure:T166 T167 Diagnostic_procedure 2887 2889 pH E91 Diagnostic_procedure:T167 T168 Diagnostic_procedure 2896 2900 PaO2 E92 Diagnostic_procedure:T168 T169 Diagnostic_procedure 2911 2916 PaCO2 E93 Diagnostic_procedure:T169 T170 Diagnostic_procedure 2927 2931 HCO3 E94 Diagnostic_procedure:T170 T171 Diagnostic_procedure 2944 2948 SaO2 E95 Diagnostic_procedure:T171 T172 Lab_value 2949 2952 95% R89 MODIFY Arg1:T172 Arg2:E95 T173 Lab_value 2933 2942 23 mmol/L R90 MODIFY Arg1:T173 Arg2:E94 T174 Lab_value 2917 2925 36 mm Hg R91 MODIFY Arg1:T174 Arg2:E93 T175 Lab_value 2901 2909 86 mm Hg R92 MODIFY Arg1:T175 Arg2:E92 T176 Lab_value 2890 2894 7.42 R93 MODIFY Arg1:T176 Arg2:E91 R94 SUB_PROCEDURE Arg1:E91 Arg2:E90 R95 SUB_PROCEDURE Arg1:E92 Arg2:E90 R96 SUB_PROCEDURE Arg1:E93 Arg2:E90 R97 SUB_PROCEDURE Arg1:E94 Arg2:E90 R98 SUB_PROCEDURE Arg1:E95 Arg2:E90 * OVERLAP E6 E5 T177 Detailed_description 53 62 recurring R99 MODIFY Arg1:T177 Arg2:E5 R100 BEFORE Arg1:E5 Arg2:E1 * OVERLAP E1 E2 E3 E4 R101 BEFORE Arg1:E4 Arg2:E7 * OVERLAP E7 E8 E9 E10 E11 E15 E16 R102 BEFORE Arg1:E16 Arg2:E17 * OVERLAP E17 E20 R103 BEFORE Arg1:E20 Arg2:E21 * OVERLAP E21 E22 E23 E24 E34 E35 E25 E29 E30 E31 E32 E33 E26 R104 BEFORE Arg1:E26 Arg2:E27 * OVERLAP E27 E28 R105 BEFORE Arg1:E28 Arg2:E42 R106 BEFORE Arg1:E42 Arg2:E43 * OVERLAP E43 E44 E45 E46 E48 R107 BEFORE Arg1:E48 Arg2:E49 * OVERLAP E49 E50 R108 BEFORE Arg1:E50 Arg2:E51 R109 BEFORE Arg1:E51 Arg2:E52 * OVERLAP E52 E53 R110 BEFORE Arg1:E53 Arg2:E54 R111 AFTER Arg1:E54 Arg2:E56 * OVERLAP E56 E55 R112 BEFORE Arg1:E55 Arg2:E57 * OVERLAP E57 E58 E59 E60 E61 E62 E63 E64 E65 E66 E67 E68 E69 E70 E71 E72 E74 E73 E75 E76 E77 R113 BEFORE Arg1:E77 Arg2:E78 * OVERLAP E78 E79 E80 E81 R114 BEFORE Arg1:E81 Arg2:E82 * OVERLAP E82 E83 R115 BEFORE Arg1:E83 Arg2:E88 * OVERLAP E88 E18 E84 E85 E86 E87 E90 R116 SUB_PROCEDURE Arg1:E89 Arg2:E87