Table 1.

DNA methylation patterns in lymphomas of TCL1-tg mice

Locus	LBL1	LBL1a*	LBL1b*	LBL2	LBL3	LBL4	LBL5	LBL6	DLBCL1	DLBCL2	DLBCL3	MZL1	MZL2	Chromosome position of NotI	Homology	GenBank accession number	Gene context	CpG island	# of tumors*
2C33														13:59285249	Gas1	NM_008086	5′ end	Yes	10
2F37														X:55,560,988	Sox3	NM_009237	5′ end	Yes	10
3F56														12:46,129,739	Foxg1	NM_008241	Body	Yes	10
4D57														4:28,999,648	Epha7	NM_010141	Body	Yes	10
2E37														17:66,614,500	mRNA	AK041052	5′ end	Yes	9
4G54														12:4,549,905	mRNA	AK122572	5′ end	Yes	9
2C09														4:98,631,630	Foxd3	NM_010425	5′ end	Yes	8
2G50														12:64,004,021	Mamdc1	NM_207010	5′ end	Yes	8
3D03														2:63,953,750	Fign	NM_021716	5′ end	Yes	8
2C14														X:94,421,625	-	-	-	Yes	7
3C09														9:88,074,776	Tbx18	NM_023814	Body	Yes	7
3F33														16:96,463,991	Hmg14	NM_008251	Body	Yes	7
4B16														2:68,327,187	Stk39	NM_016866	5′ end	Yes	7
4B22														5:130,774279	mRNA	BC066072	5′ end	Yes	7
4B42														3:62,005,545	mRNA	AK144976	5′ end	Yes	7
5B13														4:98,626,391	EST	AV377040	-	Yes	7
6D12														2:135,173,383	mRNA	AK020944	5′ end	Yes	7
3B46														2:68,326,347	Stk39	NM_016866	Body	Yes	6
3C10														2:84,412,897	Zdhhc5	NM_144887	5′ end	Yes	6
3C24														9:88,075,904	Tbx18	NM_023814	5′ end	Yes	6
3F09														3:44,840,447	Pcdh10	NM_011043	5′ end	Yes	6
4G73														8:90,392428	Irx3	NM_008393	Body	Yes	6
5B21														13:101,510,565	mRNA	AK032259	Body	Yes	6
5C30														13:59284349	Gas1	NM_008086	5′ end	Yes	6
1D14														10:67,589,894	Egr2	NM_010118	5′ end	Yes	5
1E19														4:13,670,306	Mtg8	AK032132	5′ end	Yes	5
2B07														3:17,385,384	Bhlhb5	NM_021560	5′ end	Yes	5
2F89														4:151,974,687	EST	BI990953	-	Yes	5
3B30														10:26,078,037	mRNA	AK021041	5′ end	Yes	5
4C11														16:14,160,631	mRNA	AK016529	Body	No	5
4D11														14:100,440,198	Spry2	NM_011897	5′ end	Yes	5
4D26														10:18,242,971	-	-	-	No	5
6C17														4:99,050,606	Foxd3	NM_010425	5′ end	Yes	5
6D39														4:28,932,608	Epha7	NM_010141	5′ end	Yes	5
6E07														6:61,148,968	mRNA	BC107398	5′ end	Yes	5
5D25														7:31,859,900	Zfp537	NM_172298	5′ end	Yes	5
1D16														7:31,861,437	Zfp537	NM_172298	5′ end	Yes	4
1F21														X:53,512,030	Zic3	NM_009575	5′ end	Yes	4
2C51														10:53,997,541	mRNA	AK015334	5′ end	Yes	4
2D07														9:49,836,621	Ncam1	NM_010875	Body	Yes	4
2D17														13:47,861,015	Id4	NM_031166	Body	No	4
2E38														2:59,016,731	Pkp4	NM_026361	Body	Yes
42G09														10:9,548,064	mRNA	AK087498	5′ end	Yes	4
2G14														6:23,885,534	Cadps2	NM_153163	5′ end	Yes	4
2G35														10:33,679,565	mRNA	AK169009	5′ end	Yes	4
3C27														2:74,353,577	Evx2	NM_007967	3′ end	Yes	4
3D67														4:130,910,515	Oprd1	NM_013622	3′ end	Yes	4
3F42														1:4,452,847	Sox17	NM_011441	3′ end	Yes	4
3F76														2:74,499,328	Evx2	BC061467	3′ end	Yes	4
3G102														2:144,624,936	Slc24A3	AF314821	5′ end	Yes	4
4B11														2:139,192,068	mRNA	AK077398	5′ end	Yes	4
5E24														10:28928152	mRNA	AK044134	5′ end	Yes	4
1F11														2:59,092,478	Pkp4	NM_026361	5′ end	Yes	3
2F12														18:51,332,715	mRNA	AK046456	5′ end	No	3
2F72														15:64,073,819	mRNA	BC011343	5′ end	Yes	3
2G48														12:106,919,086	Tnfaip2	NM_009396	Body	Yes	3
3D63														12:97,914,635	Golga5	NM_013747	5′ end	Yes	3
3G118														17:33,998,698	mRNA	AK138323	Body	Yes	3
4D49														13:24,749,912	Vmp	NM_009513	5′ end	No	3
5B27														10:28,927,390	mRNA	BC066079	Body	Yes	3
1F02														2:74,366,378	Hoxd13	NM_008275	5′ end	Yes	2
1F14														8:12371081	Sox1	NM_009233	5′ end	Yes	2
1G09														3:147,968,915	mRNA	AK142828	5′ end	Yes	2
2E09														1:154,165,496	-	-	-	Yes	2
2G05														5:148,345,311	mRNA	AK160904	5′ end	No	2
3C06														1:15,470,447	-	-	-	Yes	2
3G119														4:77,615,797	Ptprd	AK034145	5′ end	Yes	2
1C10														19:38,537,602	Tbc1d12		5′ end	Yes	1
1F30														11:8,576,675	mRNA	AK089717	Body	Yes	1
2D30														10:39,979406	-	-		No	1
2E10														6:24,898,673	mRNA	AK087465	5′ end	Yes	1
2F21														10:5,634,072	Esr1	AK036627		Yes	1
3B15														13:31,173,603	FoxC1	NM_008592	5′ end	Yes	1
3D22														4:88,678261	Cdkn2a	NM_001040654	3′ end	Yes	1
3D28														12:71,498,554	Tmem30b	NM_178715	5′ end	Yes	1
3F14														2:140136,707	mRNA	AK134694	5′ end	Yes	1
4D27														6:52,127,688	Hoxa2	NM_010451	5′ end	Yes	1
5D43														2:76,250,275	Osbp16	NM_145525	5′ end	Yes	1

Black squares denote RLGS fragments with decreased intensity of >50%. Tumor diagnosis and RLGS scoring is listed and includes two daughter tumors (LBL1a and b) from adoptive transfer of parental LBL1 tumor cells into syngeneic mice. NotI position lists chromosome followed by position based on UCSC BLAT search (Aug. 2005 Freeze). For gene context, 5′ end indicates location directly upstream or within first exon, 3′ end indicates location within the last exon of a gene, body indicates within gene itself excluding 5′ and 3′ ends.

^*Daughter tumors are excluded from calculations of total tumors showing fragment loss. EST, expressed sequence tag.