--- a
+++ b/processing/MACCROBAT/25572898.ann
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+T1	Age 2 13	42 year-old
+T3	Disease_disorder 31 51	lymphocytic leukemia
+E1	Disease_disorder:T3 
+T4	Detailed_description 23 30	chronic
+R1	MODIFY Arg1:T4 Arg2:E1	
+T5	Therapeutic_procedure 73 95	bone marrow transplant
+E2	Therapeutic_procedure:T5 
+T6	Detailed_description 62 72	allogeneic
+R2	MODIFY Arg1:T6 Arg2:E2	
+T7	Date 99 113	September 2013
+E3	Date:T7 
+T8	Coreference 119 124	graft
+E4	Coreference:T8 
+R3	IDENTICAL Arg1:E4 Arg2:E2	
+T9	Activity 2994 2998	died
+E5	Activity:T9 
+T10	Date 3006 3016	end of May
+E6	Date:T10 
+T2	Sex 14 17	man
+T11	Detailed_description 129 182	mismatched at a single human leukocyte antigen allele
+T12	Medication 229 240	alemtuzumab
+E7	Medication:T12 
+T13	Detailed_description 199 214	T-cell depleted
+#1	AnnotatorNotes T13	technically not a procedure done to the patient, but the transplanted cells
+R4	MODIFY Arg1:T11 Arg2:E4	
+R5	MODIFY Arg1:T13 Arg2:E4	
+R6	MODIFY Arg1:E7 Arg2:T13	
+T14	Therapeutic_procedure 245 254	engrafted
+E8	Therapeutic_procedure:T14 
+T15	Date 258 264	day 12
+E9	Date:T15 
+T16	Therapeutic_procedure 271 281	transplant
+E10	Therapeutic_procedure:T16 
+T17	Sign_symptom 305 316	lymphopenia
+E11	Sign_symptom:T17 
+T18	Detailed_description 294 304	persistent
+R7	MODIFY Arg1:T18 Arg2:E11	
+T19	Sign_symptom 321 329	diarrhea
+E12	Sign_symptom:T19 
+T20	Disease_disorder 335 344	norovirus
+E13	Disease_disorder:T20 
+R8	CAUSE Arg1:E13 Arg2:E12	
+R9	CAUSE Arg1:E13 Arg2:E11	
+T21	Diagnostic_procedure 360 381	posttransplant course
+E14	Diagnostic_procedure:T21 
+T22	Lab_value 386 398	unremarkable
+E15	Lab_value:T22 
+R10	MODIFY Arg1:E15 Arg2:E14	
+T23	Date 405 416	mid-October
+E16	Date:T23 
+T24	Sign_symptom 435 443	tinnitus
+E17	Sign_symptom:T24 
+T25	Disease_disorder 468 490	sensorineural deafness
+E18	Disease_disorder:T25 
+A1	TREND E18 INC
+T26	Detailed_description 448 467	rapidly progressive
+R11	MODIFY Arg1:T26 Arg2:E18	
+T27	Sign_symptom 514 526	hearing loss
+E19	Sign_symptom:T27 
+T29	Lab_value 540 546	>95 dB
+E21	Lab_value:T29 
+T30	Detailed_description 505 513	subtotal
+T28	Detailed_description 527 538	bilaterally
+R12	MODIFY Arg1:T28 Arg2:E19	
+R13	MODIFY Arg1:T30 Arg2:E19	
+R14	MODIFY Arg1:E21 Arg2:E19	
+T31	Duration 548 562	over 2–3 weeks
+E20	Duration:T31 
+T32	Diagnostic_procedure 570 596	magnetic resonance imaging
+E22	Diagnostic_procedure:T32 
+T33	Biological_structure 564 569	Brain
+R15	MODIFY Arg1:T33 Arg2:E22	
+T34	Diagnostic_procedure 598 601	MRI
+E23	Diagnostic_procedure:T34 
+R16	IDENTICAL Arg1:E23 Arg2:E22	
+T35	Diagnostic_procedure 628 647	cerebrospinal fluid
+E24	Diagnostic_procedure:T35 
+T36	Diagnostic_procedure 649 652	CSF
+E25	Diagnostic_procedure:T36 
+R17	IDENTICAL Arg1:E25 Arg2:E24	
+T37	Diagnostic_procedure 689 700	neutrophils
+E26	Diagnostic_procedure:T37 
+T38	Diagnostic_procedure 709 720	lymphocytes
+E27	Diagnostic_procedure:T38 
+T39	Lab_value 664 679	4 leukocytes/µL
+E28	Lab_value:T39 
+R18	MODIFY Arg1:E28 Arg2:E24	
+T40	Lab_value 685 688	50%
+E29	Lab_value:T40 
+T41	Lab_value 705 708	50%
+E30	Lab_value:T41 
+R19	MODIFY Arg1:E29 Arg2:E26	
+R20	MODIFY Arg1:E30 Arg2:E27	
+R21	SUB_PROCEDURE Arg1:E26 Arg2:E24	
+R22	SUB_PROCEDURE Arg1:E27 Arg2:E24	
+T42	Lab_value 722 742	6 red blood cells/µL
+E31	Lab_value:T42 
+R23	MODIFY Arg1:E31 Arg2:E24	
+T43	Diagnostic_procedure 744 751	glucose
+E32	Diagnostic_procedure:T43 
+T44	Diagnostic_procedure 851 868	oligoclonal bands
+E33	Diagnostic_procedure:T44 
+T45	Lab_value 840 847	absence
+E34	Lab_value:T45 
+R24	MODIFY Arg1:E34 Arg2:E33	
+T46	Diagnostic_procedure 795 802	protein
+E35	Diagnostic_procedure:T46 
+T47	Lab_value 752 762	2.4 mmol/L
+E36	Lab_value:T47 
+T48	Lab_value 803 811	61 mg/dL
+E37	Lab_value:T48 
+R25	MODIFY Arg1:E37 Arg2:E35	
+R26	MODIFY Arg1:E36 Arg2:E32	
+R27	SUB_PROCEDURE Arg1:E32 Arg2:E24	
+R28	SUB_PROCEDURE Arg1:E35 Arg2:E24	
+R29	SUB_PROCEDURE Arg1:E33 Arg2:E24	
+T49	Diagnostic_procedure 877 902	polymerase chain reaction
+E38	Diagnostic_procedure:T49 
+T50	Detailed_description 920 923	CSF
+R30	MODIFY Arg1:T50 Arg2:E38	
+T51	Detailed_description 871 876	Viral
+R31	MODIFY Arg1:T51 Arg2:E38	
+#2	AnnotatorNotes T51	testing for viral DNA; the test itself is not viral
+T52	Medication 1031 1043	valacyclovir
+E39	Medication:T52 
+T53	Medication 1060 1071	antibiotics
+E40	Medication:T53 
+T54	Medication 1096 1110	immunoglobulin
+E41	Medication:T54 
+T55	Sign_symptom 1185 1192	dyspnea
+E42	Sign_symptom:T55 
+T56	Sign_symptom 1203 1214	hypotension
+E43	Sign_symptom:T56 
+T57	Sign_symptom 1216 1222	nausea
+E44	Sign_symptom:T57 
+T58	Diagnostic_procedure 1248 1255	balance
+E45	Diagnostic_procedure:T58 
+T59	Lab_value 1228 1247	gradually worsening
+E46	Lab_value:T59 
+R32	MODIFY Arg1:E46 Arg2:E45	
+T60	Disease_disorder 941 952	enterovirus
+E47	Disease_disorder:T60 
+A2	POLARITY E47 NEG
+T61	Disease_disorder 957 968	herpesvirus
+E48	Disease_disorder:T61 
+A3	POLARITY E48 NEG
+T62	Dosage 1077 1083	2 g/kg
+R33	MODIFY Arg1:T62 Arg2:E41	
+T63	Administration 1084 1095	intravenous
+R34	MODIFY Arg1:T63 Arg2:E41	
+T64	Medication 1112 1116	IVIG
+E49	Medication:T64 
+R35	IDENTICAL Arg1:E49 Arg2:E41	
+T65	Diagnostic_procedure 1264 1287	neurological assessment
+E50	Diagnostic_procedure:T65 
+T66	Disease_disorder 1309 1338	vestibulocochlear dysfunction
+E51	Disease_disorder:T66 
+T67	Detailed_description 1298 1308	persistent
+R36	MODIFY Arg1:T67 Arg2:E51	
+T68	Date 1339 1352	6 weeks after
+E52	Date:T68 
+T69	Date 1371 1383	mid-December
+E53	Date:T69 
+T70	Sign_symptom 1421 1430	withdrawn
+E54	Sign_symptom:T70 
+T71	Sign_symptom 1432 1441	irritable
+E55	Sign_symptom:T71 
+T72	Sign_symptom 1462 1470	agitated
+E56	Sign_symptom:T72 
+T73	Detailed_description 1447 1461	intermittently
+R37	MODIFY Arg1:T73 Arg2:E56	
+A4	TREND E54 INC
+A5	TREND E55 INC
+A6	TREND E56 INC
+T74	Sign_symptom 1484 1495	lymphopenic
+E57	Sign_symptom:T74 
+T75	Diagnostic_procedure 1497 1508	lymphocytes
+E58	Diagnostic_procedure:T75 
+T76	Lab_value 1509 1522	0.54 × 106/μL
+E59	Lab_value:T76 
+R38	MODIFY Arg1:E59 Arg2:E58	
+T77	Diagnostic_procedure 1558 1561	MRI
+E60	Diagnostic_procedure:T77 
+T78	Biological_structure 1575 1580	brain
+T79	Lab_value 1586 1598	unremarkable
+E61	Lab_value:T79 
+R39	MODIFY Arg1:T78 Arg2:E60	
+R40	MODIFY Arg1:E61 Arg2:E60	
+T80	Diagnostic_procedure 1625 1648	antineuronal antibodies
+E62	Diagnostic_procedure:T80 
+T81	Detailed_description 1607 1620	serum testing
+R41	MODIFY Arg1:T81 Arg2:E62	
+R42	MODIFY Arg1:E61 Arg2:E62	
+T82	Diagnostic_procedure 1653 1673	electroencephalogram
+E63	Diagnostic_procedure:T82 
+T83	Disease_disorder 1696 1710	encephalopathy
+E64	Disease_disorder:T83 
+T84	Disease_disorder 1744 1749	viral
+E65	Disease_disorder:T84 
+A7	POLARITY E65 UNCERTAIN
+T85	Medication 1799 1814	glucocorticoids
+E66	Medication:T85 
+T86	Dosage 1789 1798	high-dose
+R43	MODIFY Arg1:T86 Arg2:E66	
+T87	Medication 1830 1834	IVIG
+E67	Medication:T87 
+T88	Activity 1854 1860	fluids
+E68	Activity:T88 
+A8	POLARITY E68 NEG
+T89	Activity 1862 1866	food
+E69	Activity:T89 
+A9	POLARITY E69 NEG
+T90	Medication 1872 1882	medication
+E70	Medication:T90 
+A10	POLARITY E70 NEG
+T91	Clinical_event 1892 1900	detained
+E71	Clinical_event:T91 
+T92	Detailed_description 1911 1931	UK Mental Health Act
+R44	MODIFY Arg1:T92 Arg2:E71	
+T93	Diagnostic_procedure 1940 1943	MRI
+E72	Diagnostic_procedure:T93 
+T94	Sign_symptom 2002 2022	signal abnormalities
+E73	Sign_symptom:T94 
+T95	Detailed_description 1989 2001	nonenhancing
+T96	Detailed_description 1984 1987	new
+R45	MODIFY Arg1:T95 Arg2:E73	
+R46	MODIFY Arg1:T96 Arg2:E73	
+T97	Detailed_description 184 188	DQB1
+R47	MODIFY Arg1:T97 Arg2:T11	
+T98	Detailed_description 221 228	in vivo
+R48	MODIFY Arg1:T98 Arg2:E7	
+T99	Biological_structure 2026 2038	both thalami
+T100	Biological_structure 2043 2051	midbrain
+R49	MODIFY Arg1:T99 Arg2:E73	
+R50	MODIFY Arg1:T100 Arg2:E73	
+T101	Biological_structure 2057 2070	cranial nerve
+R51	MODIFY Arg1:T101 Arg2:E73	
+T102	Sign_symptom 2100 2111	enhancement
+E74	Sign_symptom:T102 
+A11	POLARITY E74 NEG
+T103	Biological_structure 2090 2099	meningeal
+R52	MODIFY Arg1:T103 Arg2:E74	
+T104	Date 2126 2150	Near the end of December
+E75	Date:T104 
+T105	Diagnostic_procedure 2167 2173	biopsy
+E76	Diagnostic_procedure:T105 
+T106	Biological_structure 2154 2166	frontal lobe
+R53	MODIFY Arg1:T106 Arg2:E76	
+T107	Diagnostic_procedure 2189 2198	Histology
+E77	Diagnostic_procedure:T107 
+T108	Sign_symptom 2217 2224	gliosis
+E78	Sign_symptom:T108 
+T109	Detailed_description 2208 2216	reactive
+R54	MODIFY Arg1:T109 Arg2:E78	
+T110	Sign_symptom 2237 2249	infiltration
+E79	Sign_symptom:T110 
+T111	Detailed_description 2229 2236	diffuse
+R55	MODIFY Arg1:T111 Arg2:E79	
+T112	Detailed_description 2255 2274	CD3+/8+ lymphocytes
+R56	MODIFY Arg1:T112 Arg2:E79	
+T113	Diagnostic_procedure 2298 2321	microbiological testing
+E80	Diagnostic_procedure:T113 
+T114	Detailed_description 2329 2342	biopsy tissue
+R57	MODIFY Arg1:T114 Arg2:E80	
+T115	Lab_value 2374 2382	negative
+E81	Lab_value:T115 
+T116	Detailed_description 2350 2369	infectious etiology
+R58	MODIFY Arg1:T116 Arg2:E80	
+R59	MODIFY Arg1:E81 Arg2:E80	
+T117	Disease_disorder 2471 2497	neurological deterioration
+E82	Disease_disorder:T117 
+A12	TREND E82 INC
+T118	Diagnostic_procedure 2572 2598	next-generation sequencing
+E83	Diagnostic_procedure:T118 
+T119	Diagnostic_procedure 2600 2603	NGS
+E84	Diagnostic_procedure:T119 
+R60	IDENTICAL Arg1:E84 Arg2:E83	
+T120	Detailed_description 2560 2571	metagenomic
+R61	MODIFY Arg1:T120 Arg2:E83	
+T121	Date 2544 2556	January 2014
+E85	Date:T121 
+T122	Detailed_description 2499 2526	CSF and brain biopsy tissue
+R62	MODIFY Arg1:T122 Arg2:E83	
+T123	Diagnostic_procedure 2610 2613	NGS
+E86	Diagnostic_procedure:T123 
+T124	Detailed_description 2630 2642	brain biopsy
+R63	MODIFY Arg1:T124 Arg2:E86	
+T125	Diagnostic_procedure 2644 2659	genome assembly
+E87	Diagnostic_procedure:T125 
+R64	SUB_PROCEDURE Arg1:E87 Arg2:E86	
+T126	Diagnostic_procedure 2665 2686	in situ hybridization
+E88	Diagnostic_procedure:T126 
+T127	Disease_disorder 2722 2732	astrovirus
+E89	Disease_disorder:T127 
+T128	Disease_disorder 2734 2738	AstV
+E90	Disease_disorder:T128 
+R65	IDENTICAL Arg1:E90 Arg2:E89	
+T129	Detailed_description 2708 2721	neuroinvasive
+R66	MODIFY Arg1:T129 Arg2:E89	
+T130	Medication 2816 2825	ribavirin
+E91	Medication:T130 
+T131	Medication 2830 2834	IVIG
+E92	Medication:T131 
+T132	Sign_symptom 2906 2931	minimally conscious state
+E93	Sign_symptom:T132 
+T133	Medication 2956 2964	sedation
+E94	Medication:T133 
+A13	POLARITY E94 NEG
+T134	Date 2968 2978	March 2014
+E95	Date:T134 
+T135	Date 3018 3032	4 months after
+E96	Date:T135 
+T136	Diagnostic_procedure 3037 3040	NGS
+E97	Diagnostic_procedure:T136 
+T137	Date 3069 3085	7.5 months after
+E98	Date:T137 
+T138	Sign_symptom 3095 3103	symptoms
+E99	Sign_symptom:T138 
+R67	BEFORE Arg1:E1 Arg2:E2	
+*	OVERLAP E2 E3 E4 E7
+R68	BEFORE Arg1:E7 Arg2:E8	
+*	OVERLAP E8 E9
+R69	AFTER Arg1:E9 Arg2:E10	
+R70	BEFORE Arg1:E10 Arg2:E11	
+*	OVERLAP E11 E12 E13 E14
+R71	BEFORE Arg1:E14 Arg2:E16	
+*	OVERLAP E16 E17 E18 E19 E20 E22 E24 E38 E47 E48
+R72	BEFORE Arg1:E48 Arg2:E39	
+*	OVERLAP E39 E40 E41
+R73	BEFORE Arg1:E41 Arg2:E42	
+*	OVERLAP E42 E43 E44 E45
+T139	Detailed_description 1194 1202	postural
+R74	MODIFY Arg1:T139 Arg2:E43	
+R75	BEFORE Arg1:E45 Arg2:E50	
+*	OVERLAP E50 E51 E52
+T140	Sign_symptom 1353 1360	symptom
+E100	Sign_symptom:T140 
+R76	AFTER Arg1:E52 Arg2:E100	
+R77	BEFORE Arg1:E100 Arg2:E53	
+*	OVERLAP E53 E54 E55 E56 E57 E58 E60 E62 E63 E64 E65 E66 E67
+R78	BEFORE Arg1:E67 Arg2:E68	
+*	OVERLAP E68 E69 E70
+R79	BEFORE Arg1:E70 Arg2:E71	
+*	OVERLAP E71 E72 E73 E74
+R80	BEFORE Arg1:E74 Arg2:E75	
+*	OVERLAP E75 E76 E77 E78 E79 E80 E82
+R81	BEFORE Arg1:E82 Arg2:E85	
+*	OVERLAP E85 E83 E86 E88 E89
+R82	BEFORE Arg1:E89 Arg2:E91	
+*	OVERLAP E91 E92
+R83	BEFORE Arg1:E92 Arg2:E93	
+*	OVERLAP E93 E94 E95
+R84	BEFORE Arg1:E95 Arg2:E5	
+*	OVERLAP E5 E6 E96
+R85	AFTER Arg1:E96 Arg2:E97	
+R86	BEFORE Arg1:E97 Arg2:E98	
+R87	AFTER Arg1:E98 Arg2:E99