Expression profile of CREB knockdown in myeloid leukemia cells

Pellegrini, Matteo; Cheng, Jerry C; Voutila, Jon; Judelson, Dejah; Taylor, Julie; Nelson, Stanley F; Sakamoto, Kathleen M

doi:10.1186/1471-2407-8-264

BMC Cancer

Table 1 Potential CREB target genes.

From: Expression profile of CREB knockdown in myeloid leukemia cells

Gene Name	Fold Change	CREB binding	CREB site	Gene Name	Fold Change	CREB binding	CREB site
DKFZP434G222	0.551725	3.883395	ht h	HSPC056	0.44548	1.892546	ht h
ABCG2	0.479066	2.244422	ht h	HSU79303	0.573524	1.812829	ht
ALDH2	0.5604	1.989872	none	ILVBL	0.675128	1.893295	ht h
ALDH7A1	0.62012	2.051646	h	KIAA0103	0.682528	2.620283	ht h
ALS2CR19	0.46208	1.788188	ht	HSU79303	0.573524	1.812829	ht
ANC_2H01	0.659044	1.991467	ht h	ILVBL	0.675128	1.893295	ht h
ANG	0.693535	3.287977	ht	KIAA0103	0.682528	2.620283	ht h
APLP2	0.636685	1.219917	h	KIAA0141	0.689536	3.479426	h
APPL	0.668234	1.391059	h	KIAA0408	0.595271	3.603389	none
ARFD1	0.524897	2.336962	ht	KIAA0494	0.67838	5.420821	F
BCL2L11	0.589894	3.191337	H h	KLF5	0.553523	2.062499	H
BECN1	0.600243	1.151217	H h	KNSL8	0.468603	7.854334	HT ft
BMX	0.315984	1.072006	none	KPNA5	0.562667	2.859517	none
C20orf133	0.635849	2.420642	h	LANCL1	0.647544	1.020319	none
C6orf67	0.610619	2.665053	h	LOC51668	0.500097	1.062053	ht h
CA2	0.592202	1.082939	ht	LOC51762	0.599397	3.307553	ht h
CALB2	0.671562	1.894443	h	LYPLA3	0.664078	2.379015	HT h
CCDC2	0.533032	1.529166	none	MAF	0.597194	2.383458	FT
CENPE	0.306986	3.736367	FT ht	MAPKAPK5	0.699356	2.053184	FH
CGI-77	0.664435	4.334985	H ht h	MDM2	0.468991	2.523732	none
CLDN18	0.566707	4.30699	ht h	MGC15419	0.617252	3.032433	h
CNN1	0.670957	1.150221	F ht h	MPHOSPH1	0.423771	3.535138	ht h
CREB1	0.382751	1.816762	HT H ht h	MSH2	0.592302	3.203985	h
CSPG6	0.573523	3.082765	h	MVD	0.632896	3.854905	ht h
CUL5	0.683117	2.073118	H ht h	MYL4	0.69963	1.010099	h
DBP	0.67969	2.805267	ft ht	NEFL	0.343403	2.413823	HT h
DES	0.521516	1.509794	ht h	NFKBIL1	0.695019	4.072353	ht
DIS3	0.692573	3.837304	HT ht	NIPSNAP1	0.679129	1.215594	h
DNCI1	0.673721	2.195167	none	NOX3	0.455479	2.60292	h
DNMT3A	0.679821	1.035348	h	NR4A3	0.543361	5.002146	HT H h
DSIPI	0.40458	2.546212	HT	NUDT5	0.673003	2.561752	h
DUSP19	0.674195	2.225933	none	NUMB	0.675667	1.014954	HT ht
EIF2S1	0.631867	1.075696	H ht h	PDE6B	0.66696	2.699363	h
EIF2S2	0.644661	3.313634	ht h	PEX12	0.694707	6.199684	h
ESRRBL1	0.67914	4.633352	FH h	PFDN4	0.507631	2.196535	none
FBXO22	0.688756	2.206273	ht	PHC1	0.672187	1.053985	HT
FECH	0.516446	1.045191	h	PKD2L2	0.513894	2.249593	h
FECH	0.658471	1.045191	h	PLAA	0.603854	9.235476	none
FLJ10853	0.622952	3.981514	H ht	PPP1R2	0.568734	2.04019	ft
FLJ10858	0.668758	1.523113	none	PRDX3	0.615229	1.847784	none
FLJ10904	0.54026	1.085341	none	PSAT1	0.47554	2.492965	ht
FLJ11011	0.610253	3.387879	ht h	PSMAL/GCP	0.68221	1.341117	none
FLJ11342	0.683482	2.617474	ht	PTGS2	0.684401	3.057276	ht h
FLJ11712	0.62618	2.776373	ht	RAB31	0.698664	1.12667	ht
FLJ13491	0.633125	3.268155	none	RB1CC1	0.533475	1.390318	none
FLJ20130	0.640787	2.766588	h	RFC3	0.577787	6.745001	FH ht
FLJ20331	0.681859	8.752576	H	RHEB	0.682202	3.47317	HT H h
FLJ20333	0.690542	1.946262	ht h	RNASE4	0.436168	2.975774	ht h
FLJ20509	0.691949	1.96435	none	SARS2	0.692149	5.455469	H h
FLJ23233	0.471676	1.517415	none	SBBI26	0.683312	6.75719	H
FOXD1	0.593522	5.160553	HT ht	SDP35	0.502432	2.320591	h
GCAT	0.656744	2.122675	ht h	SERPINI1	0.31594	3.277692	ht
GCHFR	0.676365	2.188753	ht h	SHMT1	0.658252	1.127084	ht h
GFI1B	0.671179	0.999255	h	SILV	0.662805	2.130617	H
GMPR	0.672975	1.149663	ht	SLC11A2	0.684325	1.842417	none
GOLGA4	0.567882	2.939327	ht h	SLC22A5	0.657746	1.64513	none
GPNMB	0.410992	1.004344	none	SLC27A6	0.547039	1.029816	ht
GRHPR	0.68706	2.454475	H ht	SLC2A4	0.507466	2.273185	ht h
H2BFS	0.591569	2.358423	ht	SLC39A8	0.201136	1.004832	none
HBE1	0.639376	0.947159	h	SLC4A7	0.532067	1.262531	ht
HDGFRP3	0.65013	1.208322	none	SMARCA1	0.519982	1.056916	HT ht
HDGFRP3	0.668211	1.208322	none	SMC2L1	0.596288	2.916083	ht h
HEXA	0.54467	2.622927	none	SRI	0.671893	0.826457	ht
HIST1H1C	0.590374	1.983514	h	STK16	0.680797	6.555535	H h
HIST1H2AD	0.66909	4.768013	ht h	SULT1C2	0.599235	3.511947	f h
HIST1H2AI	0.542518	2.801688	H ht h	SURB7	0.498245	1.598812	ht
HIST1H2AJ	0.696531	3.066865	ft ht h	SYN1	0.696375	3.016534	F h
HIST1H2AL	0.602018	2.600144	FHT ht h	TAF1A	0.589389	2.689618	none
HIST1H2BB	0.590821	1.782458	ht h	TBC1D7	0.692755	1.281463	ht
HIST1H2BD	0.674855	3.111055	HT ht h	TCTE1L	0.368312	2.475611	ht
HIST1H2BE	0.546621	2.34815	ht	TFDP2	0.670657	1.016413	ht
HIST1H2BF	0.543665	1.985466	ht	TGDS	0.67197	1.523411	none
HIST1H2BH	0.617917	2.04185	none	THRB	0.670555	2.256453	H ht h
HIST1H2BI	0.585897	1.443622	ht	TMEM14A	0.656093	1.175355	ht h
HIST1H2BJ	0.493823	5.335159	HT ht h	TOM1	0.64031	3.221137	h
HIST1H2BM	0.687469	3.533372	ft ht h	TXN2	0.689274	1.893339	H ht h
HIST1H2BO	0.618862	4.014214	ht h	UBE2B	0.663194	3.652863	H ht h
HIST1H3B	0.556438	4.260113	ft ht	VRK1	0.650583	1.000406	h
HIST1H3H	0.641946	2.647758	H ht h	WASPIP	0.572355	1.01892	none
HIST1H4E	0.608257	2.458831	FT h	WDHD1	0.624889	4.984045	H ht h
HIST1H4I	0.612088	2.068983	ht	WWOX	0.671866	1.882778	h
HIST2H2AA	0.560962	4.032876	ht	ZNF134	0.677481	2.726853	ht h
HLA-DRA	0.365141	3.086303	ht h	ZNF222	0.5618	4.09755	ht h
HLXB9	0.667926	1.006593	none	ZNF230	0.410725	3.76825	ht h
HS2ST1	0.694429	1.032562	ht h	ZNF235	0.38371	2.959812	none
HSBP1	0.671929	1.891961	ht h

Top down-regulated genes that show significant CREB binding and changes in expression in the CREB knockdown cells. The detailed criteria for selecting these genes are described in the methods section. For each grouping of genes, from left to right, column 1 shows the gene symbols, column 2 the ratio of the expression change in wild type versus knockdown, column 3 the CREB binding ratio and column 4 the presence of CREB binding motifs. The key for column 4 is as follows: F is a full CREB motif (TGACGCTA) that is conserved from human to mouse, while f is not conserved, H is a conserved CREB half motif (TGACG or CGTCA), while h is not conserved, and T is the conserved presence of a TATA motif less than 300 base pairs downstream of the CREB motif, while t is not conserved.

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ISSN: 1471-2407

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