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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 216433_s_at "PR domain containing 2, with ZNF domain" U23736.17799"Consensus includes gb:U23736.1 /DEF=Human GATA-3 binding protein G3B mRNA, partial cds. /FEA=mRNA /PROD=GATA-3 binding protein G3B /DB_XREF=gi:915214 /UG=Hs.289024 PR domain containing 2, with ZNF domain" PRDM2 49.82 52.02 83.58 1.04 0.12 1.61 0 300.49 223.38 242.39 -1.35 -0.95 -1.24 -0.74 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
2 203057_s_at "PR domain containing 2, with ZNF domain" NM_015866.17799Consensus includes gb:AV724783 /FEA=EST /DB_XREF=gi:10829513 /DB_XREF=est:AV724783 /CLONE=HTBCEG11 /UG=Hs.26719 zinc-finger DNA-binding protein /FL=gb:D45132.1 gb:NM_015866.1 PRDM2 101.68 83.37 105.14 -1.22 -0.71 1.26 0.87 116.62 103.5 130.65 -1.13 -0.76 1.12 0.75 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
3 203056_s_at "PR domain containing 2, with ZNF domain" NM_015866.17799Consensus includes gb:AI681013 /FEA=EST /DB_XREF=gi:4891195 /DB_XREF=est:tx43d04.x1 /CLONE=IMAGE:2272327 /UG=Hs.26719 zinc-finger DNA-binding protein /FL=gb:D45132.1 gb:NM_015866.1 PRDM2 69.3 55.9 65.24 -1.24 -0.73 1.17 0.7 75.66 64.57 74.19 -1.17 -0.83 -1.02 -0.76 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
4 205277_at "PR domain containing 2, with ZNF domain" NM_012231.17799"gb:NM_012231.1 /DEF=Homo sapiens PR domain containing 2, with ZNF domain (PRDM2), mRNA. /FEA=mRNA /GEN=PRDM2 /PROD=PR domain containing 2, with ZNF domain /DB_XREF=gi:10092605 /UG=Hs.289024 PR domain containing 2, with ZNF domain /FL=gb:NM_012231.1 gb:U17838.1" PRDM2 100.5 87.69 108.28 -1.15 -0.86 1.23 0.98 149.94 95.94 114.22 -1.56 -1.23 -1.31 -1.09 "all, " Human_ChIP_chip Human_CRE_prediction Pancreatic_Islet_Expression
5 216445_at "PR domain containing 2, with ZNF domain" U23736.17799"Consensus includes gb:U23736.1 /DEF=Human GATA-3 binding protein G3B mRNA, partial cds. /FEA=mRNA /PROD=GATA-3 binding protein G3B /DB_XREF=gi:915214 /UG=Hs.289024 PR domain containing 2, with ZNF domain" PRDM2 33.76 7.02 18.11 -4.81 -1.15 2.58 0 26.69 22.38 11.49 -1.19 -0.48 -2.32 -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.