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T1 Age 2 13 58-year-old T2 Occupation 14 27 cotton farmer T3 Nonbiological_location 49 90 West China Hospital of Sichuan University T4 Duration 105 117 over 1-month E1 Duration:T4 T5 Sign_symptom 139 144 fever E2 Sign_symptom:T5 T6 Lab_value 146 166 between 38 and 40 °C R1 MODIFY Arg1:T6 Arg2:E2 T7 Detailed_description 129 138 recurrent R2 MODIFY Arg1:T7 Arg2:E2 T8 Sign_symptom 180 185 cough E3 Sign_symptom:T8 T9 Sign_symptom 191 198 dyspnea E4 Sign_symptom:T9 T10 Detailed_description 169 179 productive R3 MODIFY Arg1:T10 Arg2:E3 T11 Disease_disorder 240 249 pneumonia E5 Disease_disorder:T11 T12 Medication 267 276 latamoxef E6 Medication:T12 T13 Medication 278 287 ofloxacin E7 Medication:T13 T14 Medication 289 299 vancomycin E8 Medication:T14 T15 Medication 305 317 voriconazole E9 Medication:T15 T16 Nonbiological_location 321 335 local hospital T17 Sign_symptom 349 370 remission of symptoms E10 Sign_symptom:T17 A1 POLARITY E10 NEG T18 History 404 429 hepatitis B virus carrier T19 History 437 466 10 pack-years smoking history T20 History 477 562 no history of diabetes mellitus, tuberculosis, and use of glucocorticoids in the past T21 Clinical_event 581 590 admission E11 Clinical_event:T21 T22 Diagnostic_procedure 592 606 blood pressure E12 Diagnostic_procedure:T22 T23 Lab_value 608 620 145/95 mm Hg R4 MODIFY Arg1:T23 Arg2:E12 T24 Diagnostic_procedure 622 632 heart rate E13 Diagnostic_procedure:T24 T25 Lab_value 634 648 120 per minute R5 MODIFY Arg1:T25 Arg2:E13 T26 Diagnostic_procedure 650 666 respiratory rate E14 Diagnostic_procedure:T26 T27 Lab_value 668 681 30 per minute R6 MODIFY Arg1:T27 Arg2:E14 T28 Diagnostic_procedure 687 698 temperature E15 Diagnostic_procedure:T28 T29 Lab_value 700 707 39.3 °C R7 MODIFY Arg1:T29 Arg2:E15 T30 Diagnostic_procedure 709 729 Physical examination E16 Diagnostic_procedure:T30 T31 Sign_symptom 739 763 diminished breath sounds E17 Sign_symptom:T31 T32 Sign_symptom 772 777 rales E18 Sign_symptom:T32 A2 POLARITY E18 NEG T33 Diagnostic_procedure 794 821 evaluation of other systems E19 Diagnostic_procedure:T33 T34 Lab_value 826 838 unremarkable R8 MODIFY Arg1:T34 Arg2:E19 T35 Sign_symptom 855 860 edema E20 Sign_symptom:T35 T36 Biological_structure 864 875 lower limbs T37 Severity 846 854 moderate R9 MODIFY Arg1:T37 Arg2:E20 R10 MODIFY Arg1:T36 Arg2:E20 T38 Diagnostic_procedure 877 906 Arterial blood gases analysis E21 Diagnostic_procedure:T38 T39 Diagnostic_procedure 914 916 pH E22 Diagnostic_procedure:T39 T40 Lab_value 917 922 7.361 R11 MODIFY Arg1:T40 Arg2:E22 T41 Diagnostic_procedure 924 928 PCO2 E23 Diagnostic_procedure:T41 T42 Diagnostic_procedure 945 948 PO2 E24 Diagnostic_procedure:T42 T43 Lab_value 929 939 53.5 mm Hg T44 Lab_value 949 959 62.8 mm Hg R12 MODIFY Arg1:T44 Arg2:E24 R13 MODIFY Arg1:T43 Arg2:E23 R14 SUB_PROCEDURE Arg1:E22 Arg2:E21 R15 SUB_PROCEDURE Arg1:E23 Arg2:E21 R16 SUB_PROCEDURE Arg1:E24 Arg2:E21 T45 Sign_symptom 1005 1017 leukocytosis E25 Sign_symptom:T45 T46 Lab_value 1021 1031 49,500/mm3 T47 Lab_value 1037 1054 97.4% neutrophils T48 Diagnostic_procedure 1005 1017 leukocytosis E26 Diagnostic_procedure:T48 R17 MODIFY Arg1:T46 Arg2:E26 R18 MODIFY Arg1:T47 Arg2:E26 T49 Diagnostic_procedure 1069 1082 procalcitonin E27 Diagnostic_procedure:T49 T50 Lab_value 1086 1096 5.16 ng/mL R19 MODIFY Arg1:T50 Arg2:E27 T51 Diagnostic_procedure 1104 1123 computed tomography E28 Diagnostic_procedure:T51 T52 Biological_structure 1098 1103 Chest R20 MODIFY Arg1:T52 Arg2:E28 T53 Sign_symptom 1137 1144 nodules E29 Sign_symptom:T53 T54 Sign_symptom 1146 1152 masses E30 Sign_symptom:T54 T55 Sign_symptom 1154 1175 patchy consolidations E31 Sign_symptom:T55 T56 Sign_symptom 1181 1207 bilateral pleural effusion E32 Sign_symptom:T56 T57 Diagnostic_procedure 1262 1274 sputum smear E33 Diagnostic_procedure:T57 T58 Disease_disorder 1384 1402 Nocardia infection E34 Disease_disorder:T58 A3 POLARITY E34 MAYBE_POS T59 Sign_symptom 1349 1356 bacilli E35 Sign_symptom:T59 T60 Detailed_description 1342 1348 beaded T61 Detailed_description 1320 1336 weakly acid-fast T62 Detailed_description 1305 1318 gram-positive T63 Detailed_description 1292 1303 filamentous R21 MODIFY Arg1:T60 Arg2:E35 R22 MODIFY Arg1:T61 Arg2:E35 R23 MODIFY Arg1:T62 Arg2:E35 R24 MODIFY Arg1:T63 Arg2:E35 T64 Medication 1416 1445 Trimethoprim-sulfamethoxazole E36 Medication:T64 T65 Dosage 1447 1466 3 pills per 6 hours R25 MODIFY Arg1:T65 Arg2:E36 T66 Therapeutic_procedure 1485 1496 ventilation E37 Therapeutic_procedure:T66 T67 Detailed_description 1473 1484 noninvasive R26 MODIFY Arg1:T67 Arg2:E37 T68 Diagnostic_procedure 1524 1538 Sputum culture E38 Diagnostic_procedure:T68 T69 Lab_value 1546 1573 growth of numerous bacteria R27 MODIFY Arg1:T69 Arg2:E38 T70 Sign_symptom 1611 1629 N otitidiscaviarum E39 Sign_symptom:T70 #1 AnnotatorNotes E39 Nocardia species T71 Diagnostic_procedure 1647 1664 mass spectroscopy E40 Diagnostic_procedure:T71 T72 Date 1668 1689 day 6 after admission E41 Date:T72 T73 Medication 1700 1711 Antibiotics E42 Medication:T73 T74 Medication 1734 1742 amikacin E43 Medication:T74 T75 Medication 1747 1755 imipenem E44 Medication:T75 T76 Medication 1771 1800 trimethoprim-sulfamethoxazole E45 Medication:T76 R28 SUB_PROCEDURE Arg1:E43 Arg2:E42 R29 SUB_PROCEDURE Arg1:E44 Arg2:E42 R30 SUB_PROCEDURE Arg1:E45 Arg2:E42 T77 Sign_symptom 1871 1879 improved E46 Sign_symptom:T77 A4 POLARITY E46 NEG T78 Outcome 1907 1911 died E47 Outcome:T78 T79 Sign_symptom 1924 1949 respiratory insufficiency E48 Sign_symptom:T79 T80 Severity 1917 1923 severe R31 MODIFY Arg1:T80 Arg2:E48 T81 Date 1957 1974 13th hospital day E49 Date:T81 T82 Clinical_event 32 41 presented E50 Clinical_event:T82 R32 MODIFY Arg1:T3 Arg2:E50 R33 MODIFY Arg1:E1 Arg2:E2 * OVERLAP E50 E2 E3 E4 R34 AFTER Arg1:E4 Arg2:E5 * OVERLAP E5 E6 E7 E8 E9 R35 MODIFY Arg1:T16 Arg2:E5 R36 BEFORE Arg1:E9 Arg2:E10 R37 BEFORE Arg1:E10 Arg2:E11 * OVERLAP E11 E12 E13 E14 E15 E16 E17 E18 E19 E20 E21 E26 E27 E28 E33 E35 E34 R38 BEFORE Arg1:E34 Arg2:E36 * OVERLAP E36 E37 R39 BEFORE Arg1:E37 Arg2:E38 * OVERLAP E38 E39 E40 E41 R40 BEFORE Arg1:E41 Arg2:E42 R41 BEFORE Arg1:E42 Arg2:E46 R42 BEFORE Arg1:E46 Arg2:E47 * OVERLAP E47 E48 E49