Table 4 Copy number loss lesions... | American Society of Hematology

Table 4

Copy number loss lesions detected by SNP-A and affected candidate genes (N = 26)

Patient no.	Disease	Chromosome	Start	Stop	Length, Mb	Affected candidate genes
25	AP	1p34.3	35028712	36757321	1.73	PSMB2, CLSPN, STK40, CSF3R
26	AP	6q14.2q21	83951101	110175307	26.22	PRSS35, SNAP91, NT5E, SNHG5, RARS2, CNR1, MAP3K7, EPHA7, TSG1, FHL5, FBXL4, USP45, SIM1, GRIK2, HACE1, BVES, PRDM1, ATG5, PDSS2, SCML4, SNX3, FOXO3, SESN1, FIG4, WASF1
42	Myeloid BP	7	153672	158821424	158.67	Monosomy 7
25	AP	8q11.1q11.21	47062007	49246034	2.18	CEBPD, PRKDC, MCM4
34	Myeloid BP	9p21.3p13.2	20934558	37208231	16.27	PTPLAD2, IFNA5, KLHL9, MTAP, CDKN2A, ELAVL2, TUSC1, PLAA, IFT74, TEK, IFNK, ACO1, APTX, SMU1, NFX1, NOL6, PRSS3, CNTFR, GALT, VCP, FANCG, TESK1, RECK, CLTA, GNE, MELK, PAX5
40	Myeloid BP	9q34.11q34.12	130686250	132652879	1.97	PHYHD1, SH3GLB2, DOLPP1, PPP2R4, ASB6, PIG12, FNBP1, ASS1, FUBP3, ABL1
28	AP	9q34.11q34.12	130900242	132604796	1.7	ASB6, PIG12, FNBP1, ASS1, FUBP3, ABL1
27	AP	10q22.1q22.2	73539669	76313833	2.77	DNAJB12, ANXA7, SEC24C, CAMK2G, VCL, AP3M1, ADK
26	AP	11p15.5p15.2	1613884	14397978	12.78	H19, IGF2, ASCL2, TSSC4, CDKN1C, NAP1L4, NUP98, RRM1, ILK, TPP1, NLRP10, STK33, ST5, WEE1, SBF2, AMPD3, MRVI1, EIF4G2, DKK3, TEAD1, ARNTL, RRAS2
27	AP	11q23.3	115868656	119126150	3.26	BACE1, FXYD2, FXYD6, IL10RA, MLL, DDX6, BCL9L, CBL
26	AP	15q21.2q22.2	49041794	58605542	9.56	DMXL2, SCG3, TMOD2, LEO1, MAPK6, BCL2L10, GNB5, RAB27A, CCPG1, DYX1C1, NEDD4, TCF12, GCOM1, ADAM10, SLTM, BNIP2, ANXA2
34	Myeloid BP	16p11.2	32045466	33703188	1.66	TP53TG3
34	Myeloid BP	17p13.3p11.2	18901	18868271	18.85	GLOD4, ABR, YWHAE, SMYD4, METT10D, GARNL4, ITGAE, MINK1, CAMTA2, DHX33, NLRP1, XAF1, BCL6B, CLEC10A, TP53, JMJD3, HES7, AURKB, PIK3R5, NTN1, GAS7, MAP2K4, ELAC2, NCOR1, TNFRSF13B, NT5M, PEMT, DRG2, ALKBH5, LLGL1, SHMT1, FBXW10, PRPSAP2
27	AP	17q11.2	24504173	28343137	3.84	GOSR1, NF1, SUZ12, CDK5R1
23	AP	21q22.12	34958486	36169173	1.21	RUNX1
28	AP	22q11.23	21963842	22551295	0.59	BCR, IGLL1, Ini1
40	Myeloid BP	22q11.23q12.3	21963842	35542482	13.58	BCR, IGLL1, Ini1, Chk2, XBP1, KREMEN1, EWSR1, NF2, LIF, DUSP18, LIMK2, PATZ1, EIF4ENIF1, YWHAH, TOM1, MCM5, RASD2, RBM9,
30	Myeloid BP	Y	3259468	23370508	20.11	Whole Y chromosome deletion

Patient no.	Disease	Chromosome	Start	Stop	Length, Mb	Affected candidate genes
25	AP	1p34.3	35028712	36757321	1.73	PSMB2, CLSPN, STK40, CSF3R
26	AP	6q14.2q21	83951101	110175307	26.22	PRSS35, SNAP91, NT5E, SNHG5, RARS2, CNR1, MAP3K7, EPHA7, TSG1, FHL5, FBXL4, USP45, SIM1, GRIK2, HACE1, BVES, PRDM1, ATG5, PDSS2, SCML4, SNX3, FOXO3, SESN1, FIG4, WASF1
42	Myeloid BP	7	153672	158821424	158.67	Monosomy 7
25	AP	8q11.1q11.21	47062007	49246034	2.18	CEBPD, PRKDC, MCM4
34	Myeloid BP	9p21.3p13.2	20934558	37208231	16.27	PTPLAD2, IFNA5, KLHL9, MTAP, CDKN2A, ELAVL2, TUSC1, PLAA, IFT74, TEK, IFNK, ACO1, APTX, SMU1, NFX1, NOL6, PRSS3, CNTFR, GALT, VCP, FANCG, TESK1, RECK, CLTA, GNE, MELK, PAX5
40	Myeloid BP	9q34.11q34.12	130686250	132652879	1.97	PHYHD1, SH3GLB2, DOLPP1, PPP2R4, ASB6, PIG12, FNBP1, ASS1, FUBP3, ABL1
28	AP	9q34.11q34.12	130900242	132604796	1.7	ASB6, PIG12, FNBP1, ASS1, FUBP3, ABL1
27	AP	10q22.1q22.2	73539669	76313833	2.77	DNAJB12, ANXA7, SEC24C, CAMK2G, VCL, AP3M1, ADK
26	AP	11p15.5p15.2	1613884	14397978	12.78	H19, IGF2, ASCL2, TSSC4, CDKN1C, NAP1L4, NUP98, RRM1, ILK, TPP1, NLRP10, STK33, ST5, WEE1, SBF2, AMPD3, MRVI1, EIF4G2, DKK3, TEAD1, ARNTL, RRAS2
27	AP	11q23.3	115868656	119126150	3.26	BACE1, FXYD2, FXYD6, IL10RA, MLL, DDX6, BCL9L, CBL
26	AP	15q21.2q22.2	49041794	58605542	9.56	DMXL2, SCG3, TMOD2, LEO1, MAPK6, BCL2L10, GNB5, RAB27A, CCPG1, DYX1C1, NEDD4, TCF12, GCOM1, ADAM10, SLTM, BNIP2, ANXA2
34	Myeloid BP	16p11.2	32045466	33703188	1.66	TP53TG3
34	Myeloid BP	17p13.3p11.2	18901	18868271	18.85	GLOD4, ABR, YWHAE, SMYD4, METT10D, GARNL4, ITGAE, MINK1, CAMTA2, DHX33, NLRP1, XAF1, BCL6B, CLEC10A, TP53, JMJD3, HES7, AURKB, PIK3R5, NTN1, GAS7, MAP2K4, ELAC2, NCOR1, TNFRSF13B, NT5M, PEMT, DRG2, ALKBH5, LLGL1, SHMT1, FBXW10, PRPSAP2
27	AP	17q11.2	24504173	28343137	3.84	GOSR1, NF1, SUZ12, CDK5R1
23	AP	21q22.12	34958486	36169173	1.21	RUNX1
28	AP	22q11.23	21963842	22551295	0.59	BCR, IGLL1, Ini1
40	Myeloid BP	22q11.23q12.3	21963842	35542482	13.58	BCR, IGLL1, Ini1, Chk2, XBP1, KREMEN1, EWSR1, NF2, LIF, DUSP18, LIMK2, PATZ1, EIF4ENIF1, YWHAH, TOM1, MCM5, RASD2, RBM9,
30	Myeloid BP	Y	3259468	23370508	20.11	Whole Y chromosome deletion

AP indicates phase; and BP, blast phase.