--- a +++ b/processing/MACCROBAT/17803823.ann @@ -0,0 +1,346 @@ +T1 Age 2 13 23 year old +T2 Personal_background 14 19 white +T3 Sex 20 24 male +T4 History 32 65 4 year history of Crohn's disease +T5 Disease_disorder 50 65 Crohn's disease +E1 Disease_disorder:T5 +T6 Duration 32 38 4 year +E2 Duration:T6 +T7 Sign_symptom 109 116 malaise +E3 Sign_symptom:T7 +#1 AnnotatorNotes E3 Note that this isn't clinical history as it's the beginning of the story here. +T8 Sign_symptom 118 123 fever +E4 Sign_symptom:T8 +T9 Sign_symptom 135 139 pain +E5 Sign_symptom:T9 +T10 Biological_structure 125 134 abdominal +R1 MODIFY Arg1:T10 Arg2:E5 +T11 Sign_symptom 141 149 vomiting +E6 Sign_symptom:T11 +T12 Biological_structure 154 160 stomal +#2 AnnotatorNotes T12 The patient presumably has a colostomy or ileostomy +T13 Sign_symptom 161 170 diarrhoea +E7 Sign_symptom:T13 +R2 MODIFY Arg1:T12 Arg2:E7 +T14 Duration 90 97 two day +E8 Duration:T14 +R3 MODIFY Arg1:E2 Arg2:E1 +R4 MODIFY Arg1:E8 Arg2:E3 +R5 MODIFY Arg1:E8 Arg2:E4 +R6 MODIFY Arg1:E8 Arg2:E5 +R7 MODIFY Arg1:E8 Arg2:E6 +R8 MODIFY Arg1:E8 Arg2:E7 +T15 Sign_symptom 195 200 pains +E9 Sign_symptom:T15 +T16 Biological_structure 189 194 joint +R9 MODIFY Arg1:T16 Arg2:E9 +T17 Biological_structure 215 224 shoulders +T18 Biological_structure 226 232 elbows +T19 Biological_structure 234 240 wrists +T20 Biological_structure 242 262 metacarpophalangeals +T21 Biological_structure 264 269 knees +T22 Biological_structure 274 280 ankles +R10 MODIFY Arg1:T17 Arg2:E9 +R11 MODIFY Arg1:T18 Arg2:E9 +R12 MODIFY Arg1:T19 Arg2:E9 +R13 MODIFY Arg1:T20 Arg2:E9 +R14 MODIFY Arg1:T21 Arg2:E9 +R15 MODIFY Arg1:T22 Arg2:E9 +T23 Sign_symptom 299 303 rash +E10 Sign_symptom:T23 +T24 Biological_structure 311 317 elbows +R16 MODIFY Arg1:T24 Arg2:E10 +T25 Biological_structure 319 325 ankles +T26 Biological_structure 330 334 feet +R17 MODIFY Arg1:T25 Arg2:E10 +R18 MODIFY Arg1:T26 Arg2:E10 +T27 Sign_symptom 364 371 macules +E11 Sign_symptom:T27 +T28 Detailed_description 351 363 erythematous +R19 MODIFY Arg1:T28 Arg2:E11 +T29 Sign_symptom 403 410 lesions +E12 Sign_symptom:T29 +T30 Sign_symptom 423 431 crusting +E13 Sign_symptom:T30 +T31 Detailed_description 387 402 vesico-pustular +R20 MODIFY Arg1:T31 Arg2:E12 +T32 History 443 472 no history of sexual exposure +T33 Sign_symptom 493 502 infection +E14 Sign_symptom:T33 +A1 POLARITY E14 NEG +T34 Medication 514 535 no regular medication +E15 Medication:T34 +A2 POLARITY E15 NEG +T35 Medication 558 565 Pentasa +E16 Medication:T35 +#3 AnnotatorNotes E16 Nonsteroidal anti-Inflammatory drug +T36 Date 566 582 4 months earlier +E17 Date:T36 +T37 Date 584 601 One month earlier +E18 Date:T37 +T38 Therapeutic_procedure 621 631 laparotomy +E19 Therapeutic_procedure:T38 +T39 Sign_symptom 667 674 fistula +E20 Sign_symptom:T39 +T40 Detailed_description 652 666 ileo-cutaneous +T41 Detailed_description 644 651 complex +R21 MODIFY Arg1:T40 Arg2:E20 +R22 MODIFY Arg1:T41 Arg2:E20 +T42 Detailed_description 680 692 blind tracts +R23 MODIFY Arg1:T42 Arg2:E20 +T43 Date 698 715 two weeks earlier +E21 Date:T43 +T44 Therapeutic_procedure 732 741 ileostomy +E22 Therapeutic_procedure:T44 +T45 Detailed_description 718 731 defunctioning +R24 MODIFY Arg1:T45 Arg2:E22 +T46 Sign_symptom 791 795 pain +E23 Sign_symptom:T46 +T47 Biological_structure 781 790 abdominal +R25 MODIFY Arg1:T47 Arg2:E23 +T48 Detailed_description 770 780 persistent +R26 MODIFY Arg1:T48 Arg2:E23 +T50 Biological_structure 801 810 cutaneous +T51 Duration 819 846 had been present for a year +E24 Duration:T51 +T52 Duration 923 951 of at least 2 years duration +E25 Duration:T52 +T53 Sign_symptom 915 922 fistula +E26 Sign_symptom:T53 +T54 Sign_symptom 889 898 stricture +E27 Sign_symptom:T54 +T55 Biological_structure 883 888 ileal +T56 Detailed_description 874 882 terminal +R28 MODIFY Arg1:T55 Arg2:E27 +R29 MODIFY Arg1:T56 Arg2:E27 +T57 Biological_structure 903 914 ileo-rectal +R30 MODIFY Arg1:T57 Arg2:E26 +T58 Coreference 957 970 bowel disease +E28 Coreference:T58 +R31 IDENTICAL Arg1:E28 Arg2:E1 +T59 Medication 1027 1039 azathioprine +E29 Medication:T59 +T60 Medication 1041 1057 corticosteroiods +E30 Medication:T60 +T61 Medication 1081 1091 Infliximab +E31 Medication:T61 +T62 Date 1092 1106 a year earlier +E32 Date:T62 +T63 Dosage 1062 1077 three infusions +R32 MODIFY Arg1:T63 Arg2:E31 +T64 Sign_symptom 1123 1157 no extra-intestinal manifestations +E33 Sign_symptom:T64 +A3 POLARITY E33 NEG +T65 Clinical_event 1162 1171 admission +E34 Clinical_event:T65 +T66 Nonbiological_location 1179 1187 hospital +T67 Sign_symptom 1196 1200 thin +E35 Sign_symptom:T67 +T68 Sign_symptom 1202 1210 afebrile +E36 Sign_symptom:T68 +T69 Sign_symptom 1226 1237 tachycardia +E37 Sign_symptom:T69 +T70 Detailed_description 1218 1225 resting +R33 MODIFY Arg1:T70 Arg2:E37 +T71 Lab_value 1241 1251 125/minute +R34 MODIFY Arg1:T71 Arg2:E37 +#4 AnnotatorNotes T71 Actually a heart rate, implied by "tachycardia" +T72 Diagnostic_procedure 1269 1299 cardio-respiratory examination +E38 Diagnostic_procedure:T72 +T74 Biological_structure 1316 1323 abdomen +T75 Sign_symptom 1338 1344 tender +E40 Sign_symptom:T75 +T76 Severity 1328 1337 minimally +R35 MODIFY Arg1:T76 Arg2:E40 +T77 Biological_structure 1356 1365 ileostomy +R36 MODIFY Arg1:T77 Arg2:E40 +T80 Diagnostic_procedure 1406 1429 Examination of the skin +E43 Diagnostic_procedure:T80 +T81 Sign_symptom 1444 1452 pustules +E44 Sign_symptom:T81 +T82 Sign_symptom 1457 1463 crusts +E45 Sign_symptom:T82 +T83 Biological_structure 1475 1481 elbows +T84 Biological_structure 1483 1489 ankles +T85 Biological_structure 1494 1498 feet +T86 Sign_symptom 1570 1579 synovitis +E46 Sign_symptom:T86 +T87 Biological_structure 1587 1593 wrists +T88 Other_event 1515 1540 The buttocks were spared. +E47 Other_event:T88 +#5 AnnotatorNotes E47 Kind of a strange way to say that +T89 Biological_structure 1595 1619 proximal interphalangeal +T90 Biological_structure 1624 1643 metacarpophalangeal +T91 Biological_structure 1644 1650 joints +R39 MODIFY Arg1:T90 Arg2:T91 +R40 MODIFY Arg1:T89 Arg2:T91 +T92 Biological_structure 1661 1672 both ankles +R41 MODIFY Arg1:T87 Arg2:E46 +R42 MODIFY Arg1:T91 Arg2:E46 +R43 MODIFY Arg1:T92 Arg2:E46 +T93 Diagnostic_procedure 1689 1705 laboratory tests +E48 Diagnostic_procedure:T93 +T94 Diagnostic_procedure 1715 1726 haemoglobin +E49 Diagnostic_procedure:T94 +T95 Diagnostic_procedure 1742 1759 white blood count +E50 Diagnostic_procedure:T95 +T96 Diagnostic_procedure 1774 1783 platelets +E51 Diagnostic_procedure:T96 +T97 Diagnostic_procedure 1797 1816 C- reactive protein +E52 Diagnostic_procedure:T97 +T98 Diagnostic_procedure 1831 1861 erythrocyte sedimentation rate +E53 Diagnostic_procedure:T98 +T99 Lab_value 1730 1740 13.1 gm/dl +T100 Lab_value 1760 1772 15.8 × 109/L +T101 Lab_value 1784 1795 585 × 109/L +T102 Lab_value 1817 1826 37.7 mg/L +T103 Lab_value 1862 1870 69 mm/hr +R44 MODIFY Arg1:T103 Arg2:E53 +R45 MODIFY Arg1:T102 Arg2:E52 +R46 MODIFY Arg1:T101 Arg2:E51 +R47 MODIFY Arg1:T100 Arg2:E50 +R48 MODIFY Arg1:T99 Arg2:E49 +R49 SUB_PROCEDURE Arg1:E49 Arg2:E48 +R50 SUB_PROCEDURE Arg1:E50 Arg2:E48 +R51 SUB_PROCEDURE Arg1:E51 Arg2:E48 +R52 SUB_PROCEDURE Arg1:E52 Arg2:E48 +R53 SUB_PROCEDURE Arg1:E53 Arg2:E48 +T104 Diagnostic_procedure 1872 1876 Urea +E54 Diagnostic_procedure:T104 +T105 Diagnostic_procedure 1881 1893 electrolytes +E55 Diagnostic_procedure:T105 +T106 Diagnostic_procedure 1895 1905 complement +E56 Diagnostic_procedure:T106 +T107 Diagnostic_procedure 1907 1921 urine analysis +E57 Diagnostic_procedure:T107 +T108 Diagnostic_procedure 1926 1936 microscopy +E58 Diagnostic_procedure:T108 +T110 Lab_value 2074 2082 negative +T111 Diagnostic_procedure 1950 1967 Rheumatoid factor +E60 Diagnostic_procedure:T111 +T113 Diagnostic_procedure 2098 2112 echocardiogram +E62 Diagnostic_procedure:T113 +T114 Biological_structure 2084 2097 Transthoracic +R54 MODIFY Arg1:T114 Arg2:E62 +T115 Sign_symptom 2120 2144 no signs of endocarditis +E63 Sign_symptom:T115 +A6 POLARITY E63 NEG +T116 Diagnostic_procedure 2150 2173 multiple blood cultures +E64 Diagnostic_procedure:T116 +T117 Lab_value 2179 2186 sterile +R55 MODIFY Arg1:T117 Arg2:E64 +T118 Diagnostic_procedure 2195 2201 biopsy +E65 Diagnostic_procedure:T118 +T119 Biological_structure 2190 2194 skin +R56 MODIFY Arg1:T119 Arg2:E65 +T120 Biological_structure 2228 2240 perivascular +T121 Biological_structure 2241 2258 lymphohistiocytic +T122 Disease_disorder 2377 2387 vasculitis +E66 Disease_disorder:T122 +T123 Detailed_description 2359 2375 leukocytoclastic +R57 MODIFY Arg1:T123 Arg2:E66 +T124 Biological_structure 2259 2269 infiltrate +R58 MODIFY Arg1:T121 Arg2:T124 +R59 MODIFY Arg1:T120 Arg2:T124 +T125 Biological_structure 2285 2296 neutrophils +T126 Sign_symptom 2322 2330 necrosis +E67 Sign_symptom:T126 +T127 Detailed_description 2312 2321 fibrinoid +R60 MODIFY Arg1:T127 Arg2:E67 +T128 Biological_structure 2334 2341 vessels +R61 MODIFY Arg1:T128 Arg2:E67 +T129 Medication 2415 2427 prednisolone +E68 Medication:T129 +T130 Dosage 2409 2414 60 mg +R62 MODIFY Arg1:T130 Arg2:E68 +T131 Dosage 2428 2435 per day +R63 MODIFY Arg1:T131 Arg2:E68 +T132 Sign_symptom 2467 2493 resolution of all features +E69 Sign_symptom:T132 +T133 Detailed_description 2458 2466 complete +T134 Detailed_description 2447 2453 prompt +R64 MODIFY Arg1:T134 Arg2:E69 +R65 MODIFY Arg1:T133 Arg2:E69 +R66 CAUSE Arg1:E68 Arg2:E69 +T135 Medication 2507 2519 prednisolone +E70 Medication:T135 +T136 Duration 2632 2658 over the following 3 years +E71 Duration:T136 +T137 Sign_symptom 2609 2631 without any recurrence +E72 Sign_symptom:T137 +A7 POLARITY E72 NEG +T138 Duration 2540 2568 over the course of one month +E73 Duration:T138 +T139 Clinical_event 2532 2539 tapered +E74 Clinical_event:T139 +R67 MODIFY Arg1:E74 Arg2:E70 +R68 MODIFY Arg1:E73 Arg2:E74 +T112 Diagnostic_procedure 2000 2022 cytoplasmic antibodies +E61 Diagnostic_procedure:T112 +T140 Detailed_description 1985 1999 antineutrophil +R69 MODIFY Arg1:T140 Arg2:E61 +T141 Detailed_description 1969 1980 antinuclear +R70 MODIFY Arg1:T141 Arg2:E61 +T142 Diagnostic_procedure 2024 2037 cryoglobulins +E75 Diagnostic_procedure:T142 +T143 Diagnostic_procedure 2042 2068 Hepatitis B and C serology +E76 Diagnostic_procedure:T143 +T144 Clinical_event 66 75 presented +E77 Clinical_event:T144 +R71 BEFORE Arg1:E1 Arg2:E77 +* OVERLAP E77 E8 E3 E4 E5 E6 E7 E9 E10 E11 E12 E13 E14 E15 +A8 POLARITY E16 MAYBE_NEG +R72 BEFORE Arg1:E17 Arg2:E18 +R73 AFTER Arg1:E15 Arg2:E16 +* OVERLAP E16 E17 +* OVERLAP E18 E19 E20 +R74 BEFORE Arg1:E20 Arg2:E21 +* OVERLAP E21 E22 E23 +T49 Sign_symptom 811 818 fistula +E78 Sign_symptom:T49 +#6 AnnotatorNotes E78 this isn't really a symptom, but it's relevant +R27 MODIFY Arg1:T50 Arg2:E78 +R75 AFTER Arg1:E23 Arg2:E78 +R76 MODIFY Arg1:E24 Arg2:E78 +* OVERLAP E78 E27 +R77 AFTER Arg1:E27 Arg2:E26 +R78 MODIFY Arg1:E25 Arg2:E26 +R79 BEFORE Arg1:E26 Arg2:E29 +* OVERLAP E29 E30 E31 E32 +R80 BEFORE Arg1:E32 Arg2:E33 +R81 BEFORE Arg1:E33 Arg2:E34 +R82 MODIFY Arg1:T66 Arg2:E34 +* OVERLAP E34 E35 E36 E37 E38 E40 E43 E44 E45 E47 E46 +T73 Lab_value 1304 1310 normal +R83 MODIFY Arg1:T73 Arg2:E38 +R84 MODIFY Arg1:T74 Arg2:E40 +T78 Detailed_description 1366 1382 without guarding +T79 Detailed_description 1366 1373;1386 1404 without rebound tenderness +R37 MODIFY Arg1:T78 Arg2:E40 +R38 MODIFY Arg1:T79 Arg2:E40 +R85 MODIFY Arg1:T83 Arg2:E43 +R86 MODIFY Arg1:T84 Arg2:E43 +R87 MODIFY Arg1:T85 Arg2:E43 +R88 BEFORE Arg1:E46 Arg2:E48 +T109 Lab_value 1942 1948 normal +R89 MODIFY Arg1:T109 Arg2:E58 +R90 MODIFY Arg1:T109 Arg2:E57 +R91 MODIFY Arg1:T109 Arg2:E56 +R92 MODIFY Arg1:T109 Arg2:E55 +R93 MODIFY Arg1:T109 Arg2:E54 +* OVERLAP E48 E54 E55 E56 E57 E58 E60 E61 E75 E76 +R94 MODIFY Arg1:T110 Arg2:E60 +R95 MODIFY Arg1:T110 Arg2:E61 +R96 MODIFY Arg1:T110 Arg2:E75 +R97 MODIFY Arg1:T110 Arg2:E76 +R98 BEFORE Arg1:E76 Arg2:E62 +* OVERLAP E62 E63 E64 +R99 BEFORE Arg1:E64 Arg2:E65 +R100 MODIFY Arg1:T124 Arg2:E65 +R101 MODIFY Arg1:T125 Arg2:T124 +* OVERLAP E65 E67 E66 +R102 BEFORE Arg1:E66 Arg2:E68 +R103 BEFORE Arg1:E68 Arg2:E69 +R104 BEFORE Arg1:E69 Arg2:E70 +R105 BEFORE Arg1:E70 Arg2:E72 +R106 MODIFY Arg1:E71 Arg2:E72