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MedNorm2SnomedCT2UMLS

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train · 28k rows

original_dataset stringclasses 7 values	instance_id stringlengths 5 33	phrase stringlengths 1 166	meddra_code float64 10M 10.1M ⌀	sct_id float64 1.4M 571B ⌀	umls_cui nulllengths 8 8 ⌀	mapped_meddra_codes stringlengths 8 62	mapped_sct_ids stringlengths 6 66	single_mapped_meddra_codes int64 10M 10.1M	single_mapped_sct_ids int64 450k 281,801B
CADEC	VOLTAREN-XR.15.ann_TT1	aches	null	22,253,000	null	10033371	22253000	10,033,371	22,253,000
CADEC	VOLTAREN-XR.15.ann_TT2	pains back	null	161,891,005	null	10003988	161891005	10,003,988	161,891,005
CADEC	LIPITOR.712.ann_TT3	Very severe pain in hands	10,033,430	53,057,004	null	10033425	53057004 90834002	10,033,425	90,834,002
CADEC	LIPITOR.712.ann_TT1	Very severe pain in arms	10,071,701	102,556,003	null	10033425	102556003 90834002	10,033,425	90,834,002
CADEC	LIPITOR.712.ann_TT5	overall weakness	10,003,549	13,791,008	null	10003549	13791008	10,003,549	13,791,008
CADEC	LIPITOR.712.ann_TT4	Muscle weakness	10,028,350	26,544,005	null	10028372	26544005	10,028,372	26,544,005
CADEC	LIPITOR.712.ann_TT2	Very severe pain in knees	10,023,477	30,989,003	null	10053156 10003239	30989003 57676002	10,003,239	57,676,002
CADEC	LIPITOR.595.ann_TT3	intolerable itching	10,023,084	418,290,006	null	10037087	418363000 418290006	10,037,087	418,363,000
CADEC	LIPITOR.595.ann_TT1	Swelling left arm	10,011,301	449,618,007	null	10048959 10028334	45352006 449618007	10,028,334	45,352,006
CADEC	LIPITOR.595.ann_TT5	large dark bruise on hand	10,010,855	5,662,003	null	10050584 10052428	5662003 125667009	10,050,584	125,667,009
CADEC	LIPITOR.595.ann_TT4	vivid weird dreams	10,004,969	419,581,008	null	10000125	85418005 419581008	10,000,125	85,418,005
CADEC	LIPITOR.595.ann_TT2	very severe itching	10,023,084	418,290,006	null	10037087	418363000 418290006	10,037,087	418,363,000
CADEC	LIPITOR.484.ann_TT5	twitch	10,045,198	249,966,004	null	10028347	60238002 249966004	10,028,347	60,238,002
CADEC	LIPITOR.484.ann_TT6	Parkinson	null	49,049,000	null	10061536 10034010	49049000 32798002	10,061,536	49,049,000
CADEC	LIPITOR.484.ann_TT7	pain between my shoulder blades	10,046,273	279,038,004	null	10003988	279038004 161891005	10,003,988	161,891,005
CADEC	LIPITOR.484.ann_TT2	muscle aches	10,028,411	68,962,001	null	10028411 10053156	68962001	10,028,411	68,962,001
CADEC	LIPITOR.484.ann_TT3	severe intense left arm and shoulder pain	10,033,371	76,948,002	null	10033371	76948002 22253000	10,033,371	22,253,000
CADEC	LIPITOR.21.ann_TT3	restless legs syndrome (rls)	null	32,914,008	null	10058920	32914008	10,058,920	32,914,008
CADEC	LIPITOR.189.ann_TT1	feet numbing	10,049,800	309,538,000	null	10020937	309538000 59073000	10,020,937	59,073,000
CADEC	LIPITOR.119.ann_TT3	extreme pain	10,033,371	76,948,002	null	10033371	76948002 22253000	10,033,371	22,253,000
CADEC	LIPITOR.119.ann_TT1	sciatica	10,039,674	23,056,005	null	10039674	23056005	10,039,674	23,056,005
CADEC	LIPITOR.119.ann_TT5	can barely walk	10,047,810	228,158,008	null	10053204 10017577	228158008 22325002	10,053,204	228,158,008
CADEC	LIPITOR.119.ann_TT4	numb	10,029,829	44,077,006	null	10040030 10020937	44077006 59073000	10,020,937	59,073,000
CADEC	LIPITOR.119.ann_TT2	tingling	10,035,067	62,507,009	null	10033775	91019004 62507009	10,033,775	91,019,004
CADEC	LIPITOR.847.ann_TT5	numbness on left side	10,029,829	44,077,006	null	10040030 10020937	44077006 59073000	10,040,030	44,077,006
CADEC	LIPITOR.847.ann_TT11	edema	10,030,095	267,038,008	null	10030095	267038008	10,030,095	267,038,008
CADEC	LIPITOR.847.ann_TT9	light-headedness (hurt to hold my head up or turn my head from side to side and that made driving real difficult)	10,024,492	386,705,008	null	10013573	404640003 386705008	10,013,573	404,640,003
CADEC	LIPITOR.847.ann_TT6	rapid pulse	10,037,484	86,651,002	null	10019303 10043071	86651002 3424008	10,019,303	86,651,002
CADEC	LIPITOR.847.ann_TT13	edema	10,030,095	267,038,008	null	10030095	267038008	10,030,095	267,038,008
CADEC	LIPITOR.847.ann_TT2	vision problems	10,047,543	63,102,001	null	10047571	397540003 7973008 63102001	10,047,571	397,540,003
CADEC	LIPITOR.847.ann_TT7	productive cough	10,036,790	28,743,005	null	10036790	28743005	10,036,790	28,743,005
CADEC	LIPITOR.847.ann_TT8	poor coordination while walking (kept bumping into things)	10,021,649	281,016,006	null	10010947	281016006 302289002	10,010,947	302,289,002
CADEC	LIPITOR.847.ann_TT3	muscle weakness	10,028,350	26,544,005	null	10028372	26544005	10,028,372	26,544,005
CADEC	LIPITOR.847.ann_TT1	severe edema of lower extremities	10,030,109	102,572,006	null	10030124	271809000 102572006	10,030,124	271,809,000
CADEC	LIPITOR.847.ann_TT4	shoulder pain	10,040,617	45,326,000	null	10028391	279069000 45326000	10,028,391	279,069,000
CADEC	LIPITOR.847.ann_TT10	weight gain	10,047,896	8,943,002	null	10047899	262286000 8943002	10,047,899	262,286,000
CADEC	LIPITOR.852.ann_TT1	Slight muscle aches in my back	10,003,993	161,891,005	null	10003988	161891005	10,003,988	161,891,005
CADEC	ZIPSOR.4.ann_TT1	pain	null	22,253,000	null	10033371	22253000	10,033,371	22,253,000
CADEC	LIPITOR.513.ann_TT3	Mentally in a daze	10,010,300	40,917,007	null	10016322 10001854 10010305 10013082 10012373 10025482	40917007 367391008 213257006	10,010,305	40,917,007
CADEC	LIPITOR.513.ann_TT1	severe back pain	10,033,371	null	null	10033371	22253000	10,033,371	22,253,000
CADEC	LIPITOR.513.ann_TT2	Extreme fatigue	10,003,549	13,791,008	null	10003549	13791008	10,003,549	13,791,008
CADEC	LIPITOR.22.ann_TT1	abdominal cramping	10,000,055	9,991,008	null	10000081 10017999	21522001 9991008	10,000,081	21,522,001
CADEC	LIPITOR.22.ann_TT2	gas	10,016,766	162,076,009	null	10016766	308698004 162076009	10,016,766	308,698,004
CADEC	LIPITOR.995.ann_TT11	anxiety	10,002,855	48,694,002	null	10002855	48694002	10,002,855	48,694,002
CADEC	LIPITOR.995.ann_TT8	ear aches	10,031,304	16,001,004	null	10014020	162356005 16001004	10,014,020	162,356,005
CADEC	LIPITOR.995.ann_TT1	Aches and pains	10,018,074	82,991,003	null	10033371	22253000 82991003	10,033,371	22,253,000
CADEC	LIPITOR.995.ann_TT10	depression	10,012,378	35,489,007	null	10003549 10012374 10061284 10012378	35489007 74732009 366979004 13791008	10,012,378	366,979,004
CADEC	LIPITOR.995.ann_TT6	strong tingling in one hand	10,049,230	309,086,004	null	10033775	91019004 309086004	10,033,775	91,019,004
CADEC	LIPITOR.995.ann_TT13	heart palpatations	10,033,557	80,313,002	null	10033557	80313002	10,033,557	80,313,002
CADEC	LIPITOR.995.ann_TT5	palpatations	10,033,557	80,313,002	null	10033557	80313002	10,033,557	80,313,002
CADEC	LIPITOR.995.ann_TT16	struggling walking too far	10,047,810	228,158,008	null	10053204 10017577	228158008 22325002	10,053,204	228,158,008
CADEC	LIPITOR.995.ann_TT7	tinititis	10,043,882	60,862,001	null	10043882	162352007 60862001	10,043,882	60,862,001
CADEC	LIPITOR.995.ann_TT4	stength and stamina destroyed	10,041,909	248,277,009	null	10016322 10013082 10025482	248277009 367391008 213257006	10,025,482	367,391,008
CADEC	LIPITOR.995.ann_TT14	seriously upset my stomach	10,046,318	162,059,005	null	10000081 10000087 10000059 10017999	271681002 21522001 162059005 43364001	10,000,087	271,681,002
CADEC	LIPITOR.995.ann_TT2	breathing difficulties	10,012,791	230,145,002	null	10013968	230145002 267036007	10,013,968	267,036,007
CADEC	LIPITOR.995.ann_TT3	panic attacks	10,033,664	225,624,000	null	10033664	225624000	10,033,664	225,624,000
CADEC	LIPITOR.55.ann_TT1	Flatulence	10,016,766	267,052,005	null	10016766	308698004 162076009	10,016,766	308,698,004
CADEC	LIPITOR.317.ann_TT3	HEART THROBBING OUT OF MY CHEST	10,019,297	248,657,009	null	10033557	80313002 248657009	10,033,557	80,313,002
CADEC	LIPITOR.317.ann_TT1	LIGHT HEADED	10,024,492	386,705,008	null	10013573	404640003 271789005 386705008	10,013,573	404,640,003
CADEC	LIPITOR.317.ann_TT7	FEELING OF DOOM	10,021,527	null	null	10002855	48694002	10,002,855	48,694,002
CADEC	LIPITOR.317.ann_TT8	HEART ATTACH	null	22,298,006	null	10051592 10028596	394659003 22298006	10,028,596	22,298,006
CADEC	LIPITOR.317.ann_TT4	TINGLING IN MUSCLES OF UPPER TORSO	10,035,067	62,507,009	null	10033775	62507009 91019004	10,033,775	91,019,004
CADEC	LIPITOR.317.ann_TT6	HEADACHES	10,019,211	25,064,002	null	10019211	25064002	10,019,211	25,064,002
CADEC	LIPITOR.317.ann_TT2	INCREASED BLOOD PRESSURE	10,021,655	24,184,005	null	10005750	24184005	10,005,750	24,184,005
CADEC	LIPITOR.508.ann_TT3	cause me to limp	10,058,726	16,973,004	null	10017577	16973004 22325002	10,017,577	22,325,002
CADEC	LIPITOR.508.ann_TT1	Muscle pain	10,028,411	68,962,001	null	10028411 10053156	68962001	10,028,411	68,962,001
CADEC	LIPITOR.508.ann_TT7	constant pain	10,033,371	426,206,001	null	10033371	22253000 426206001	10,033,371	22,253,000
CADEC	LIPITOR.508.ann_TT5	muscle cramps	10,028,294	55,300,003	null	10028334	45352006 55300003	10,028,334	45,352,006
CADEC	LIPITOR.508.ann_TT4	buzzing sensation in leg	10,043,880	101,000,119,102	null	10033775	101000119102 62507009 91019004	10,033,775	91,019,004
CADEC	LIPITOR.508.ann_TT6	Knee pain	10,023,477	30,989,003	null	10053156 10003239	30989003 57676002	10,003,239	57,676,002
CADEC	LIPITOR.508.ann_TT2	Hip pain	10,033,432	49,218,002	null	10053156 10003239	49218002 57676002	10,003,239	57,676,002
CADEC	LIPITOR.392.ann_TT1	Severe lower back pain	10,033,371	76,948,002	null	10033371	76948002 22253000	10,033,371	22,253,000
CADEC	LIPITOR.392.ann_TT7	flu	null	6,142,004	null	10022000	6142004	10,022,000	6,142,004
CADEC	LIPITOR.392.ann_TT5	pain in leg	10,033,473	10,601,006	null	10033425	10601006 90834002	10,033,425	90,834,002
CADEC	LIPITOR.392.ann_TT9	flu	null	6,142,004	null	10022000	6142004	10,022,000	6,142,004
CADEC	LIPITOR.392.ann_TT4	couldn't walk	10,047,810	228,158,008	null	10053204 10017577	228158008 22325002	10,053,204	228,158,008
CADEC	LIPITOR.392.ann_TT6	hard to walk	10,047,810	228,158,008	null	10053204 10017577	228158008 22325002	10,053,204	228,158,008
CADEC	LIPITOR.392.ann_TT8	back pain	10,003,993	161,891,005	null	10003988	161891005	10,003,988	161,891,005
CADEC	ARTHROTEC.95.ann_TT3	wrong with my liver	10,019,650	235,856,003	null	10024670 10067125 10019837	243978007 235856003	10,024,670	235,856,003
CADEC	ARTHROTEC.95.ann_TT1	diarrhoea	10,012,735	62,315,008	null	10012735	267060006 62315008	10,012,735	62,315,008
CADEC	ARTHROTEC.95.ann_TT7	swelling	10,042,674	65,124,004	null	10042674	65124004	10,042,674	65,124,004
CADEC	ARTHROTEC.95.ann_TT4	blood pressure had gone sky high	10,021,655	24,184,005	null	10005750	24184005	10,005,750	24,184,005
CADEC	ARTHROTEC.95.ann_TT6	ankles swelling	10,002,546	26,237,000	null	10030124 10023232	26237000 267039000 271771009	10,030,124	26,237,000
CADEC	ARTHROTEC.95.ann_TT2	swelling feet	10,042,693	297,142,003	null	10030124 10048959	271809000 102576009 297142003	10,048,959	297,142,003
CADEC	LIPITOR.390.ann_TT3	muscle weakness	10,028,350	26,544,005	null	10028372	26544005	10,028,372	26,544,005
CADEC	LIPITOR.390.ann_TT1	depression	10,012,378	35,489,007	null	10003549 10012374 10061284 10012378	35489007 74732009 366979004 13791008	10,012,378	366,979,004
CADEC	LIPITOR.390.ann_TT7	vomiting	10,047,700	422,400,008	null	10047700	249497008 422400008	10,047,700	422,400,008
CADEC	LIPITOR.390.ann_TT5	amnesia	10,001,949	48,167,000	null	10001949 10027175	48167000 386807006	10,001,949	48,167,000
CADEC	LIPITOR.390.ann_TT4	memory problems	10,027,175	386,807,006	null	10001949 10027175	48167000 386807006	10,027,175	386,807,006
CADEC	LIPITOR.390.ann_TT6	nausea	10,028,813	422,587,007	null	10028813	422587007	10,028,813	422,587,007
CADEC	LIPITOR.390.ann_TT2	exercise intolerance	10,065,629	267,044,007	null	10051301	267044007	10,051,301	267,044,007
CADEC	ARTHROTEC.62.ann_TT5	arthritice	null	3,723,001	null	10003246	3723001	10,003,246	3,723,001
CADEC	ARTHROTEC.62.ann_TT6	infection in her lungs	null	128,601,007	null	10061229	128601007	10,061,229	128,601,007
CADEC	ARTHROTEC.62.ann_TT2	shortness of breath	10,013,968	267,036,007	null	10013968	230145002 267036007	10,013,968	267,036,007
CADEC	ARTHROTEC.62.ann_TT1	stomich ake	10,042,076	271,681,002	null	10000081 10000087 10000059 10017999	271681002 21522001 162059005 43364001	10,000,087	271,681,002
CADEC	ARTHROTEC.62.ann_TT4	rematoid arthro	null	69,896,004	null	10039073 10003246	3723001 69896004	10,039,073	69,896,004
CADEC	LIPITOR.614.ann_TT5	pain	10,033,371	22,253,000	null	10033371	22253000	10,033,371	22,253,000
CADEC	LIPITOR.614.ann_TT9	wasting of muscles	null	88,092,000	null	10002027 10028289	88092000	10,028,289	88,092,000
CADEC	LIPITOR.614.ann_TT6	pain around the hipjoints	10,033,432	49,218,002	null	10053156 10003239	49218002 57676002	10,003,239	57,676,002
CADEC	LIPITOR.614.ann_TT8	pain	10,033,371	22,253,000	null	10033371	22253000	10,033,371	22,253,000

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MedNorm2SnomedCT2UMLS

Paper on Mednorm and harmonisation: https://aclanthology.org/W19-3204.pdf

The medical concept normalisation task aims to map textual descriptions to standard terminologies such as SNOMED-CT or MedDRA.

Existing publicly available datasets annotated using different terminologies cannot be simply merged and utilised, and therefore become less valuable when developing machine learningbased concept normalisation systems.

To address that, we designed a data harmonisation pipeline and engineered a corpus of 27,979 textual descriptions simultaneously mapped to both MedDRA and SNOMED-CT, sourced from five publicly available datasets across biomedical and social media domains.

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Number of rows:

27,979