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No probe set gene Accession LocusLink Description Symbol CTRL FSK ACREB_FSK (FSK vs CTRL) FC (FSK vs CTRL) LFC (ACREB_FSK vs FSK) FC (ACREB_FSK vs FSK) LFC 0hr 1hr_FSK 4hr_FSK (1hr_FSK vs 0hr) FC (1hr_FSK vs 0hr) LFC (4hr_FSK vs 0hr) FC (4hr_FSK vs 0hr) LFC notes Link
1 211327_x_at hemochromatosis AF149804.13077"gb:AF149804.1 /DEF=Homo sapiens hemochromatosis protein splice variant 562-878del (HFE) mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis protein splice variant562-878del /DB_XREF=gi:11093523 /UG=Hs.20019 hemochromatosis /FL=gb:AF149804.1" HFE 82.73 110.56 87.52 1.34 0.72 -1.26 -0.88 104.57 198.28 105.19 1.9 1.29 1.01 0.83 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
2 211326_x_at hemochromatosis AF150664.13077"gb:AF150664.1 /DEF=Homo sapiens hemochromatosis splice variant delE3,intron3ins,intron4ins (HFE) mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis splice variantdelE3,intron3ins,intron4ins /DB_XREF=gi:11093525 /UG=Hs.20019 hemochromatosis /FL=gb:AF150664.1" HFE 86.39 95.33 95.01 1.1 0.71 -1 -0.69 82.94 65 76.8 -1.28 -0.53 -1.08 -0.51 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
3 211329_x_at hemochromatosis AF115264.13077"gb:AF115264.1 /DEF=Homo sapiens hemochromatosis splice variant delE3-7 (HFE) mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis splice variant delE3-7 /DB_XREF=gi:11094312 /UG=Hs.20019 hemochromatosis /FL=gb:AF115264.1" HFE 42.54 53.71 85.48 1.26 0.27 1.59 0.21 97.23 185.5 143.06 1.91 0.99 1.47 0.9 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
4 214647_s_at hemochromatosis BG4024603077Consensus includes gb:BG402460 /FEA=EST /DB_XREF=gi:13295908 /DB_XREF=est:602466163F1 /CLONE=IMAGE:4594359 /UG=Hs.20019 hemochromatosis /FL=gb:AF079407.1 HFE 40.83 40.65 33.95 -1 -0.55 -1.2 -0.52 41.75 46.17 53.02 1.11 0.68 1.27 0.83 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
5 211866_x_at hemochromatosis AF079409.13077"gb:AF079409.1 /DEF=Homo sapiens Hemochromatosis splice variant delE2(14E4) (HFE) mRNA, complete cds. /FEA=CDS /GEN=HFE /PROD=hemochromatosis splice variant delE214E4 /DB_XREF=gi:3695110 /UG=Hs.20019 hemochromatosis /FL=gb:AF079409.1" HFE 80.41 74.97 91.11 -1.07 -0.67 1.22 0.86 67.91 74.92 77.25 1.1 0.77 1.14 0.73 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
6 211331_x_at hemochromatosis AF144243.13077"gb:AF144243.1 /DEF=Homo sapiens hemochromatosis splice variant 495-2314del mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis splice variant 495-2314del /DB_XREF=gi:11094326 /UG=Hs.20019 hemochromatosis /FL=gb:AF144243.1" HFE 178.92 174.2 169.74 -1.03 -0.68 -1.03 -0.65 167.22 159.77 168.2 -1.05 -0.59 1.01 0.6 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
7 211332_x_at hemochromatosis AF144241.13077"gb:AF144241.1 /DEF=Homo sapiens hemochromatosis splice variant 861-2305del mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis splice variant 861-2305del /DB_XREF=gi:11094322 /UG=Hs.20019 hemochromatosis /FL=gb:AF144239.1 gb:AF144241.1" HFE 171.08 160.74 156.5 -1.06 -0.76 -1.03 -0.72 187.32 186.49 183.63 -1 -0.73 -1.02 -0.67 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
8 206086_x_at hemochromatosis AF115265.13077"gb:AF115265.1 /DEF=Homo sapiens hemochromatosis termination variant terE6 (HFE) mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis termination variant terE6 /DB_XREF=gi:11094314 /UG=Hs.20019 hemochromatosis /FL=gb:AF115265.1 gb:U60319.1 gb:NM_000410.1" HFE 103.67 90.95 76.28 -1.14 -0.79 -1.19 -0.7 111.09 119.88 131.7 1.08 0.8 1.19 0.86 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
9 206087_x_at hemochromatosis NM_000410.13077"gb:NM_000410.1 /DEF=Homo sapiens hemochromatosis (HFE), mRNA. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis /DB_XREF=gi:4504376 /UG=Hs.20019 hemochromatosis /FL=gb:AF115265.1 gb:U60319.1 gb:NM_000410.1" HFE 48.4 43.08 46.87 -1.12 -0.79 1.09 0.73 43.31 41.71 69.25 -1.04 -0.37 1.6 0.9 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
10 210864_x_at hemochromatosis AF144240.13077"gb:AF144240.1 /DEF=Homo sapiens hemochromatosis splice variant 1043-2283del,intron6ins mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis splice variant1043-2283del,intron6ins /DB_XREF=gi:11094320 /UG=Hs.20019 hemochromatosis /FL=gb:AF144240.1" HFE 152.51 149.43 142.94 -1.02 -0.79 -1.05 -0.86 181.8 188.69 178.28 1.04 0.89 -1.02 -0.76 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
11 211330_s_at hemochromatosis AF144242.13077"gb:AF144242.1 /DEF=Homo sapiens hemochromatosis splice variant delE3 mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis splice variant delE3 /DB_XREF=gi:11094324 /UG=Hs.20019 hemochromatosis /FL=gb:AF144242.1" HFE 55.83 40.67 49.44 -1.37 -0.87 1.22 0.53 70.71 55.94 53.81 -1.26 -0.75 -1.31 -0.74 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
12 211863_x_at hemochromatosis AF079408.13077"gb:AF079408.1 /DEF=Homo sapiens hemochromatosis splice variant delE2 (HFE) mRNA, complete cds. /FEA=CDS /GEN=HFE /PROD=hemochromatosis splice variant delE2 /DB_XREF=gi:3695108 /UG=Hs.20019 hemochromatosis /FL=gb:AF079408.1" HFE 96.43 81.06 79.15 -1.19 -0.88 -1.02 -0.74 59.39 76.12 78.39 1.28 0.9 1.32 0.91 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
13 211328_x_at hemochromatosis AF144244.13077"gb:AF144244.1 /DEF=Homo sapiens hemochromatosis splice variant 388-2283del,intron6ins mRNA, complete cds. /FEA=mRNA /GEN=HFE /PROD=hemochromatosis splice variant388-2283del,intron6ins /DB_XREF=gi:11094328 /UG=Hs.20019 hemochromatosis /FL=gb:AF144244.1 gb:AF144245.1" HFE 145.52 123.31 141.7 -1.18 -0.91 1.15 0.83 162.47 165.13 160.35 1.02 0.75 -1.01 -0.7 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression

Sample Description:
Culture of human HEK293T cells are treated with cAMP agonist forskolin (FSK) for 1hr. Two control and two forskolin treated samples are collected, together with 2 forskolin treated samples from ACREB plasmid transfected cells. In addition to this data set, a different set of experiments showing FSK effect on 1hr and 4hr treatments is included. The two sets of data in HEK293T were generated at different times with different batch of cells, and comparison should be limited within each set. The cAMP induced genes at 1hr, however, was similar between the two sets. Total RNA was extracted using the Qiagen RNeasy kit.

Microarray Analysis:
Total RNA samples were labeled and hybridized by standard protocol to Affymetrix GeneChip Human Genome U133 Array Set HG-U133A array. Array data was analyzed using the dChip software with PM-MM models.

Guidelines for Choosing camp Induced Genes in this Data Set:
The fold change (FC) value is positive for increased expression and negative for decrease expression. There is also a lower bound of fold change (LFC), which is a conservative estimation of the fold change with 90% confidence. For this data set, if a gene was induced by FSK in control samples (LFC>=1) and this induction was inhibited by ACREB ((FSK_ACREB vs FSK) LFC<=-1), we consider it as a good camp induced gene and therefore a potential CREB target. In addition, induction by FSK with the second data set (time series) can further confirm the result from the first data set.