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No Probe Set Accession UNIGENE LocusLink Gene Name Symbol Description RefSeq Transcript ID FSK1 FSK2 CTRL1 CTRL2 FSK_mean CTRL_mean Fold Change T-test Note Link
1 1398829_at AI59837280611 25639FK506-binding protein 1a Fkbp1a gb:AI598372 /DB_XREF=gi:4607420 /DB_XREF=EST250075 /CLONE=REMDQ27 /FEA=FLmRNA /CNT=64 /TID=Rn.80611.1 /TIER=Stack /STK=19 /UG=Rn.80611 /LL=25639 /UG_GENE=Fkbp1a /UG_TITLE=FK506-binding protein 1 (12kD) /FL=gb:NM_013102.1 gb:D86641.1 gb:U09386.1 NM_013102 4065.1 4010.9 4026.9 3987.7 4038.0 4007.3 1.0 0.153 "all, " Rat_CRE_Prediction PC12_Expression_B
2 1398828_at AI59837280611 25639FK506-binding protein 1a Fkbp1a "gb:U09386.1 /DB_XREF=gi:501063 /FEA=FLmRNA /CNT=64 /TID=Rn.80611.1 /TIER=FL+Stack /STK=26 /UG=Rn.80611 /LL=25639 /UG_GENE=Fkbp1a /DEF=Rattus norvegicus immunophilin FKBP12 mRNA, complete cds. /PROD=immunophilin FKBP12 /FL=gb:NM_013102.1 gb:D86641.1 gb:U09386.1" NM_013102 3508.3 3659.3 3588.6 3593.4 3583.8 3591.0 1.0 0.937 "all, " Rat_CRE_Prediction PC12_Expression_B
3 1369621_s_at NM_05330880611 25639FK506-binding protein 1a Fkbp1a "gb:NM_053308.1 /DB_XREF=gi:17985952 /GEN=Fkbp2 /FEA=FLmRNA /CNT=2 /TID=Rn.80829.1 /TIER=FL /STK=2 /UG=Rn.80829 /LL=29453 /DEF=Rattus norvegicus FK506 binding protein 2 (13 kDa) (Fkbp2), mRNA. /PROD=FK506 binding protein 2 (13 kDa) /FL=gb:U69485.1 gb:NM_053308.1" NM_013102 1846.7 1846.2 1869.1 1886.0 1846.5 1877.5 1.0 0.173 "all, " Rat_CRE_Prediction PC12_Expression_B

The PC12 data is from the following source (GSE2071 at GEO)::
See reference: Impey S, McCorkle SR, Cha-Molstad H, Dwyer JM, Yochum GS, Boss JM, McWeeney S,
Dunn JJ, Mandel G, Goodman RH.

Defining the CREB regulon: a genome-wide analysis of transcription factor regulatory regions. Cell. 2004 Dec 29;119(7):1041-54.

Sample Description:
A comparison of forskolin-induced mRNA vs. an inactive control in the rat PC12 cell pheochromocytoma cell line.
PC12 cells (passage 22) were cultured at 5% CO2 in a 37 C incubator. The growth medium was DMEM (high glucose, Invitrogen) supplemented with 25mM HEPES, 10% FCS, 5% FBS and 1x Pen/Strep (Invitrogen). 1x106 cells were starved overnight in DMEM+25 mM HEPES and treated with 10 uM 1,9 dideoxy forskolin or forskolin for 60 min. The final DMSO concentration was 0.05%. Total RNA was purified using Trizol (Invitrogen) according to the manufacturers protocol. An additional round of purification was conducted using Rneasy columns (Qiagen) according to the manufacturers protocol. cRNA was synthesized and labeled according to standard Affymetrix protocols. 2 biological replicates for the forskolin and 1,9 dideoxy forskolin conditions were run on Affymetrix RAE230 A and B chips for a total of 8 hybridizations.

Microarray Analysis:
Array data was analyzed using the RMA method. Expression values showing here are transformed back from log range.

Guidelines for Choosing cAMP Induced Genes in this Data Set:
Note the values are transformed back from log range (2^RMA_value) so it is easiler to read for human eyes.
The fold change of Forskolin treated sample over control is listed, as well as the p-value from T-test. User can choose an fold change cutoff (e.g. 1.5) together with p-value cutoff (e.g. 0.05) to pick cAMP induced genes.