Table 2

Cancer related pathologs. Representative disease is shown for each clone. * RTPS6.3 (representative transcript protein set 6.3) cluster representative transcriptional unit (TU) of the FANTOM2 clone set. OMIM status: 1 = gene present in OMIM with a reported disease; 2 = gene present in OMIM with different disease association or without disease; 3 = gene not present in OMIM.
Disease	*FANTOM ID*	DDBJ accession	Gene name	Disease relationship	OMIM status

CANCER
Diagnosis
	1110013A16*	AK003650	Squamous cell carcinoma antigen 2	Squamous cell carcinoma	1
	1300012C15*	AK004970	Cargo selection protein tip47	Gynecologic malignancies	2
	1600002M22*	AK005400	Pregnancy-specific beta 1-glycoprotein	Trophoblastic disease, tumour marker	1
	1810011L16*	AK007436	Adamts-9 precursor	Hereditary renal tumors	3
	2310046E09	AK009843	Pancreatic secretory granule membrane major glycoprotein gp2 precursor	Chronic lymphocytic leukemia	2
	2600013I19*	AK011199	Diphthamide biosynthesis protein-2	Prognosis of neoplastic diseases	2
	4631401E18*	AK019470	Udp-n-acetyl-alpha-d-galactosamine:polypeptide n-acetylgalactosaminyl Transferase 7	Colorectal carcinoma	2
	4930435F02	AK019597	3-oxo-5-alpha-steroid 4-dehydrogenase 1	Breast cancer	3
	4932411D20*	AK029960	Ctcl tumor antigen se2-2	T-cell based immunotherapy	3
	5330423N11*	AK077331	Melastatin 2	Cutaneous malignant melanoma	3
	9130023H10*	AK033603	Mlze	Melanoma	3
	9130413M24*	AK078964	Ctcl tumor antigen se57-1	T-cell based immunotherapy	3
	9330156N18*	AK034104	Desmoglein 1 precursor	Paraneoplastic pemphigus	2
	A030012E10*	AK037235	Serine protease desc1 precursor	Squamous cell carcinoma	3
	A230060D07*	AK038754	Reverse transcriptase-like protein	Chronic myelogenous leukemia	3
	A430037M23	AK039975	Dipeptidyl-peptidase iii	Endometrial neoplasms	2
	A630051G17	AK080312	Meningioma-expressed antigen 6/11	Meningioma and glioma	1
	E130307D12*	AK087504	Scaffold attachment Factor b	Breast cancer	1
	G430124K07*	AK090101	Restricted expression proliferation associated protein 100	Lung carcinoma	3
Pathophysiology
	0610006O14	AK002260	Vacuolar proton-atpase subunit atp6h	Melanoma	2
	0610008P16*	AK002360	Hp33 protein	Hepatocellular carcinoma	3
	1110068E08*	AK004405	Ku70-binding protein	Gliomas	3
	1200003O15*	AK004587	Proto-oncogene tyrosine-protein kinase fes/fps	Leukaemia	1
	1500012D09	AK005230	Ras-related protein rab-2	Nasopharyngeal carcinoma	1
	1700001P03*	AK005620	Homeobox transcription factor	Colon cancer	1
	1700006L01		Smac protein, mitochondrial precursor	Multiple myeloma	2
	1700012B18*	AK005892	Pregnancy-induced growth inhibitor	Breast cancer	3
	1700045I19*	AK006700	Hsd-4 protein	Prostate cancer	2
	1810017F10*	AK007525	Beta-casein-like protein	Tumour-associated antigen	3
	2010003F10*	AK008064	Transmembrane 4 superfamily, member 5	Pancreatic cancer	1
	2210006M16*	AK008663	Gasdermin	Human gastric cancer cells	3
	2210007N23	AK019050	Ca11 protein homolog	Gastric carcinogenesis	1
	2210412D05	AK008907	Rho guanine nucleotide exchange factor 5	Acute myeloid leukaemia	1
	2210414K06	AK008928	Nesh	Cell metastasis and malignant transformation	2
	2310016C08*	AK009377	Hypoxia-inducible protein 2	Cervix cancer	3
	2510002J07*	AK010891	1-acyl-sn-glycerol-3-phosphate acyltransferase beta	Cancers and inflammation-associated diseases.	2
	2610002I10	AK011289	C-myc target jpo1	Tumourigenesis	3
	2610005L07	AK011323	Cadherin	Cancer development	1
	2700048G21*	AK012392	Antigen ny-co-8	Colon cancer antigen	3
	2810411G23	AK013085	Tumor protein d54	Breast cancer	1
	2810425C21*	AK013153	Death domain of death-associated protein kinase 1	Non-small cell lung cancer	2
	2810449N18*	AK013316	Sirtuin 6	Thyroid carcinoma	2
	2900009D12	AK013503	Succinate dehydrogenase	Hereditary paraganglioma	1
	4432412E01*	AK014491	X-ray repair cross-complementing protein 3	Bladder-cancer	2
	4631410F01	AK028459	Adamts-12 precursor	Gastric carcinomas	3
	4732440A06*	AK028704	Calcium-activated chloride channel-2	Breast cancer, metastasis	2
	4930500E24*	AK019661	Gas-2 related protein on chromosome 22	Central nervous system tumours	3
	4932436B18*	AK030081	Pms1 protein homolog 1	Prostate cancer	1
	4933405E14*	AK016662	Serologically defined colon cancer antigen 1	Tumour suppressor	3
	4933409E02*	AK016751	Retinoblastoma-associated protein rap140	Colon cancer cell line	3
	5430417G24*	AK030670	Headpin serine proteinase inhibitor	Squamous cell carcinoma	1
	5630400A09*	AK030708	P63 protein	Basal cell and squamous cell carcinomas	1
	5730484M20*	AK077629	Cell cycle checkpoint protein chfr	Lung cancer	1
	6430531D06*	AK032385	Elks	Capillary thyroid carcinoma	1
	6430587E11	AK032541	Copine vii	Breast cancer	1
	6820401K01*	AK033012	Npat	Cancer development	2
	9330137N20	AK079068	Hepatic leukemia factor	Lymphoblastic leukaemia	1
	9330200A01*	AK034492	Ubiquitin specific protease	Squamous non-small cell lung carcinoma	2
	A130080E24*	AK038118	C-myb protein	Colon tumour	3
	A430025E01*	AK039888	P68 RNA helicase	Colorectal tumours	2
	A430075F05	AK040185	Lipoma preferred partner	Acute myeloid leukaemia	1
	A730042E07	AK042943	Serine/threonine protein phosphatase 2a, 72/130 kda regulatory subunit B	Melanoma	2
	A830098D13*	AK044188	Megacaryocytic acute leukemia protein, isoform i	Acute megakaryoblastic leukemias	1
	A930033B01	AK020920	Graf	Hematopoeitic disorders	1
	B130017M24	AK044984	Hepatocellular carcinoma autoantigen	Hepatocellular carcinoma	3
	B230314N17	AK045848	Deleted in lung and esophageal cancer 1	Carcinogenesis	1
	B930026D14*	AK047144	Myc box dependent interacting protein 1	Prostate carcinoma	3
	B930095M03*	AK081171	Frat2	Gastric cancer	1
	C130050F24*	AK048341	Ranbp7/importin 7	Colorectal carcinoma	2
	C130062I06*	AK048462	Fibrillarin	Hepatocellular carcinoma	1
	C230012L01	AK048706	Androgen-induced prostate proliferative shutoff associated protein	Prostate cancer	1
	C630001O15	AK049821	Malt1	MALT lymphoma	1
	D330038I09	AK052361	10-formyltetrahydrofolate dehydrogenase	Tumour cells	2
	E030001H09*	AK086788	Phd finger protein 3	Glioblastoma multiforme	1
	E030027H19*	AK087108	Cub domain containing Protein 1	Human colorectal cancer	3
	E230037B21	AK054229	Vault poly(adp-ribose) polymerase	Several tumour types	3
	F630110I03	AK089273	Matrix metalloproteinase-25 precursor	Colon carcinomas or brain tumours	3
	F730035A01	AK089461	Swi/snf complex 170 kda subunit	Malignant rhabdoid tumours	1
	G630018E19*	AK090207	Prostate cancer overexpressed gene 1	Prostate cancer	1
	G630034H08*	AK090280	Transcriptional repressor scratch	Small cell lung cancer	3
Treatment
	1100001P14	AK075618	Beta-tubulin class iva isotype	Human colon adenocarcinoma	3
	1200012D01*	AK004723	Magic roundabout	Angiogenesis	3
	1810010L20	AK075773	Pituitary tumor-transforming gene 1 protein-interacting protein	Pituitary adenomas	2
	2310039D24*	AK009689	Carboxylesterase	Solid tumours	1
	2600009M07	AK011174	Polyamine modulated factor-1	Antineoplastic activity	3
	2810459H04	AK013366	Thrombospondin	Angiogenesis	1
	3010033I09*	AK019405	Alex1	Tumours originating from epithelial tissue	1
	5730405M22*	AK077421	Phosphoprotein enriched in astrocytes 15	Glioma	2
	6030493E19	AK031701	Melanoma antigen p15	Melanoma	1
	6230424I22*	AK031785	NUCLEAR MATRIX PROTEIN p84	Tumor suppression	2
	A730016J02	AK042696	Acetyltransferase tubedown-1	Vascular and haematopoietic development	3
	B130023J22	AK045057	Greb1b	Breast cancer	3
	C920008O22	AK050594	Retinoblastoma-binding protein 1	Breast cancer	2
	D030050C19	AK083587	Chronic myelogenous leukemia tumor antigen 66	Leukemias and tumour cell lines	1
	D630010E08*	AK052639	Carbonic anhydrase xii precursor	Cancer tumour cells	1
	D830007E07*	AK052857	Inositol hexakisphosphate kinase 3	Ovarian cancer	2

Silva et al. BMC Genomics 2004 5:28 doi:10.1186/1471-2164-5-28