Clinical entities

68 values

SearchGroupingJev query reader

Maps each row's organ and free-text tumour type to the entity clinicians search for. Patterned entities are tried first in list order; entities without a pattern claim the rest of their organ; anything left becomes “Other … tumours”. Select a row for the raw tumour types it received.

Entity	Organs	Tumour-type pattern	Search terms	Rows
Small cell lung cancer `sclc` · SCLC	lung	`(?<!non[-\s]?)small[-\s]?cell\|\bsclc\b`	sclc, small cell lung cancer, small cell lung carcinoma, small cell carcinoma, small cell carcinoma of the lung, small cell lung, small cell	7
Non-small cell lung cancer `nsclc` · NSCLC	lung	rest of organ	nsclc, non-small cell lung cancer, non small cell lung cancer, non-small cell lung carcinoma	84
Mesothelioma `mesothelioma` · Mesothelioma	mesothelium	rest of organ	mesothelioma, malignant mesothelioma	3
Thymic tumours `thymic` · Thymic	thymus	rest of organ	thymoma, thymic carcinoma	0
Triple-negative breast cancer `tnbc` · TNBC	breast	`triple[-\s]?negative\|tnbc`	tnbc, triple negative breast cancer, triple-negative breast cancer	8
Breast cancer `breast` · Breast	breast	rest of organ	reached through the organ terms (breast)	62
Gastrointestinal stromal tumour `gist` · GIST	stomach, soft-tissue, other, colorectal	`gist\|stromal`	gist, gastrointestinal stromal tumour, gastrointestinal stromal tumor	6
Neuroendocrine tumours `net` · NET	pancreas, stomach, colorectal, lung, other	`neuroendocrine\|\bnet\b\|carcinoid`	net, nets, gep-net, neuroendocrine tumour, neuroendocrine tumor, neuroendocrine tumours, carcinoid	8
Small intestine cancer `small-intestine` · Small intestine	colorectal, other, stomach	`small intestin\|small bowel`	small intestine cancer, small bowel cancer, small bowel adenocarcinoma, small intestine adenocarcinoma, small intestinal adenocarcinoma, small bowel, small intestine	1
Anal cancer `anal` · Anal	colorectal, other	`\banal\b\|\banus\b`	anal cancer, anal canal cancer, anal carcinoma, cancer of the anal canal, squamous cell carcinoma of the anal canal, scac	1
Colorectal cancer `crc` · CRC	colorectal	rest of organ	crc, mcrc, colorectal cancer, colorectal, colon cancer, rectal cancer, bowel cancer, colorectal carcinoma	21
Gastric and GEJ adenocarcinoma `gastric` · Gastric/GEJ	stomach	rest of organ	gastric cancer, gastric, stomach cancer, gastric adenocarcinoma	13
Oesophageal cancer `esophageal` · Oesophageal	esophagus	rest of organ	esophageal cancer, oesophageal cancer, esophageal, oesophageal, esophagus, oesophagus	11
Pancreatic cancer `pancreatic` · Pancreatic	pancreas	rest of organ	pancreatic cancer, pancreatic, pdac, pancreatic adenocarcinoma	2
Hepatocellular carcinoma `hcc` · HCC	liver	rest of organ	hcc, hepatocellular carcinoma, liver cancer	11
Biliary tract cancer `biliary` · BTC	biliary	rest of organ	btc, biliary tract cancer, biliary, biliary cancer	7
Ovarian cancer `ovarian` · Ovarian	ovary	rest of organ	ovarian cancer, ovarian, ovary, fallopian tube cancer, primary peritoneal cancer	12
Endometrial cancer `endometrial` · Endometrial	uterus	`endometri\|uter(?!.*sarcoma)`	endometrial cancer, endometrial, uterine cancer	10
Cervical cancer `cervical` · Cervical	cervix	rest of organ	cervical cancer, cervical, cervix	5
Prostate cancer `prostate` · Prostate	prostate	rest of organ	prostate cancer, prostate, prostate carcinoma	31
Renal angiomyolipoma `angiomyolipoma` · Angiomyolipoma	kidney	`angiomyolipoma`	angiomyolipoma, renal angiomyolipoma	1
Renal cell carcinoma `rcc` · RCC	kidney	rest of organ	rcc, renal cell carcinoma, renal cell cancer, kidney cancer	25
Urothelial carcinoma `urothelial` · Urothelial	bladder	rest of organ	urothelial carcinoma, urothelial cancer, urothelial, bladder cancer, uc	20
Germ cell tumours `germ-cell` · Germ cell	testis	rest of organ	germ cell tumour, testicular cancer	0
Uveal melanoma `uveal-melanoma` · Uveal melanoma	eye, skin	`uveal\|ocular\|choroid`	uveal melanoma, ocular melanoma	1
Melanoma `melanoma` · Melanoma	skin	`melanoma`	melanoma, cutaneous melanoma	19
Cutaneous squamous cell carcinoma `cscc` · cSCC	skin	`squamous`	cscc, cutaneous squamous cell carcinoma	2
Basal cell carcinoma `bcc` · BCC	skin	`basal`	bcc, basal cell carcinoma	4
Merkel cell carcinoma `merkel` · Merkel cell	skin	`merkel`	merkel cell carcinoma, mcc	2
Glioma `glioma` · Glioma	CNS	`gli\|astrocyt\|oligodendro`	glioma, gliomas, astrocytoma, oligodendroglioma	11
Thyroid cancer `thyroid` · Thyroid	thyroid	rest of organ	thyroid cancer, thyroid	9
Adrenal tumours `adrenal` · Adrenal	adrenal	rest of organ	adrenocortical carcinoma, pheochromocytoma, paraganglioma	0
Nasopharyngeal carcinoma `npc` · NPC	head-and-neck	`nasopharyn`	npc, nasopharyngeal carcinoma	2
Head and neck squamous cell carcinoma `hnscc` · HNSCC	head-and-neck	rest of organ	hnscc, scchn, squamous cell carcinoma of the head and neck, head and neck squamous cell carcinoma, oscc, oral squamous cell carcinoma, oral cancer, oral cavity cancer	8
Tenosynovial giant cell tumour `tgct` · TGCT	soft-tissue, bone, other	`tenosynovial\|tgct`	tgct, tenosynovial giant cell tumour	1
Desmoid tumour `desmoid` · Desmoid	soft-tissue, other	`desmoid`	desmoid, desmoid tumour, aggressive fibromatosis	1
Plexiform neurofibroma (NF1) `neurofibroma` · NF1-PN	soft-tissue, other, CNS	`neurofibroma`	plexiform neurofibroma, neurofibroma, nf1	3
Soft tissue sarcoma `sarcoma` · Sarcoma	soft-tissue, bone, uterus, skin	`sarcoma\|dermatofibro`	soft tissue sarcoma, sarcoma, sts, liposarcoma, leiomyosarcoma	3
Neuroblastoma `neuroblastoma` · Neuroblastoma	adrenal, other, CNS	`neuroblastoma`	neuroblastoma	3
Malignant ascites `malignant-ascites` · Malignant ascites	other	`ascites`	malignant ascites, ascites, peritoneal carcinomatosis with ascites	0
Bone tumours `bone` · Bone	bone	rest of organ	bone tumour, giant cell tumour of bone, osteosarcoma	0
Acute myeloid leukaemia `aml` · AML	hematologic	`acute myel\|\baml\b\|promyelocytic\|\bapl\b`	aml, acute myeloid leukaemia, acute myeloid leukemia, acute myelogenous leukaemia, acute myelogenous leukemia	15
Acute lymphoblastic leukaemia `all` · ALL	hematologic	`lymphoblastic\|precursor\|\bb-all\b\|ph\+ all`	acute lymphoblastic leukaemia, acute lymphoblastic leukemia, lymphoblastic lymphoma	20
Chronic myeloid leukaemia `cml` · CML	hematologic	`chronic myel(?:oid\|ogenous)\|\bcml\b`	cml, chronic myeloid leukaemia, chronic myeloid leukemia, chronic myelogenous leukaemia, chronic myelogenous leukemia	24
Chronic lymphocytic leukaemia `cll` · CLL	hematologic	`^(?!.(?:richter\|transform\|arising from)).(?:chronic lymphocytic\|\bcll\b\|small lymphocytic\|\bsll\b)`	cll, sll, chronic lymphocytic leukaemia, chronic lymphocytic leukemia, small lymphocytic lymphoma	23
Multiple myeloma `myeloma` · Myeloma	hematologic	`myeloma`	mm, myeloma, multiple myeloma	40
AL amyloidosis `amyloidosis` · AL amyloidosis	hematologic	`amyloid`	al amyloidosis, amyloidosis	1
Hodgkin lymphoma `hodgkin` · Hodgkin	hematologic	`(?<!non[-\s\u2010-\u2015\u00a0]?)hodgkin`	hodgkin lymphoma, hodgkin, hl	8
Post-transplant lymphoproliferative disorder `ptld` · PTLD	hematologic	`post[-\s]?transplant(?:ation)? lymphoproliferative\|\bptld\b`	ptld, post-transplant lymphoproliferative disorder, post-transplant lymphoproliferative disease, ebv+ ptld	1
Large B-cell lymphoma `lbcl` · LBCL/DLBCL	hematologic	`large b[-\s]?cell\|dlbcl\|lbcl\|pmbcl\|high[-\s]grade b\|\bhgbl\b\|richter\|transformed\|\bpcnsl\b\|primary (?:cns\|central nervous system) lymphoma`	lbcl, large b-cell lymphoma, transformed follicular lymphoma, tfl, richter transformation, richter's transformation, richter syndrome, pcnsl	21
Follicular lymphoma `follicular` · FL	hematologic, skin	`^(?!.(?:transform\|follicular helper\|dendritic)).(?:follicular\|follicle cent)`	fl, follicular lymphoma	20
Mantle cell lymphoma `mantle-cell` · MCL	hematologic	`mantle`	mcl, mantle cell lymphoma	10
Marginal zone lymphoma `marginal-zone` · MZL	hematologic	`marginal\|\bmalt\b`	mzl, marginal zone lymphoma, malt, malt lymphoma, extranodal marginal zone lymphoma, nodal marginal zone lymphoma, splenic marginal zone lymphoma, emzl	1
Waldenström macroglobulinaemia `waldenstrom` · Waldenström	hematologic	`waldenstr\|lymphoplasmacytic`	waldenström, waldenstrom, lymphoplasmacytic lymphoma	5
T-cell lymphoma `t-cell-lymphoma` · T-cell lymphoma	hematologic, skin	`\bt[-\s]?cell\|alcl\|anaplastic large\|mycosis\|s[ée]zary\|ctcl\|ptcl\|t[-\s]?prolymphocytic\|t[-\s]?pll`	t-cell lymphoma, t-cell lymphomas	7
Hairy cell leukaemia `hairy-cell` · HCL	hematologic	`hairy`	hairy cell leukaemia, hairy cell leukemia	0
Other B-cell lymphoma `b-nhl` · B-NHL	hematologic	`non[-\s]?hodgkin\|b[-\s]?cell\|lymphoma`	burkitt, burkitt lymphoma, burkitt's lymphoma, burkitt leukaemia, burkitt-like lymphoma, other b-cell lymphoma	2
Myelodysplastic/myeloproliferative neoplasms `mds-mpn` · MDS/MPN	hematologic	`myelomonocytic\|\bcmml\b\|mds\/mp[nd]\|myelodysplastic\/myeloproliferative`	mds/mpn, cmml, chronic myelomonocytic leukaemia, chronic myelomonocytic leukemia, myelodysplastic/myeloproliferative neoplasm	0
Myelodysplastic syndromes `mds` · MDS	hematologic	`myelodysplas\|\bmds\b`	mds, myelodysplastic syndrome, myelodysplastic syndromes	2
Myeloid/lymphoid neoplasms with eosinophilia and TK fusions `mln-tk` · MLN-TK	hematologic	`eosinophilia and (?:tyrosine kinase\|tk)`	mln tk, mln-eo-tk, myeloid/lymphoid neoplasm with eosinophilia	2
Myeloproliferative neoplasms `mpn` · MPN	hematologic	`myelofibrosis\|polycyth\|thrombocyth\|myeloproliferative\|eosinophil`	mpn, myeloproliferative neoplasm, myeloproliferative neoplasms	11
Systemic mastocytosis `mastocytosis` · Mastocytosis	hematologic	`mastocyt\|mast cell`	systemic mastocytosis, mastocytosis	7
Blastic plasmacytoid dendritic cell neoplasm `bpdcn` · BPDCN	hematologic	`plasmacytoid`	bpdcn, blastic plasmacytoid dendritic cell neoplasm	1
Histiocytic neoplasms `histiocytic` · Histiocytic	hematologic, other	`histiocyt\|langerhans\|erdheim`	histiocytosis, langerhans cell histiocytosis, erdheim-chester	0
Other haematological neoplasms `heme-other` · Other haematological	hematologic	rest of organ	–	0
Solid tumours, tumour-agnostic `agnostic` · Tumour-agnostic	tumor-agnostic	rest of organ	tumour-agnostic, tumor-agnostic, tumor agnostic, tumour agnostic, agnostic, any solid tumour, solid tumours, solid tumors	6
Other CNS tumours `other-CNS` · Other CNS tumours	CNS	rest of organ	–	1
Other musculoskeletal tumours `other-soft-tissue` · Other musculoskeletal tumours	soft-tissue	rest of organ	–	1