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Table 3 Overlapping regulatory targets: comparison with other studies

From: A comparative genomics approach to identifying the plasticity transcriptome

Symbol Gene Name Accession #a Conserved siteb Type of studyc Reference
Clcn3 chloride channel 3 NM007711 CREB ChIP/SACO 25
Cycs cytochrome c, somatic NM007808 CREB ChIP/SACO 25
Fn1 fibronectin 1 AK147683 CREB ChIP/SACO 25
FosB FosB NM008036 CREB ChIP/SACO 25
Ldh1 lactate dehydrogenase 1, A chain BC066858 CREB ChIP/SACO 25
Mlf2 myeloid leukemia factor 2 NM145385 CREB ChIP/SACO 25
Nf1 neurofibromatosis 1 NM010897 CREB ChIP/SACO 25
Ppargc2 peroxisome proliferative activated receptor, gamma, coactivator 1 alpha NM008904 CREB ChIP/SACO 25
Sstr2 somatostatin receptor 2 NM009217 CREB ChIP/SACO 25
St13 suppression of tumorigenicity 13 NM133726 CREB ChIP/SACO 25
Socs7 suppressor of cytokine signaling 7 NM138657 CREB ChIP/SACO 25
TpT1 tumor protein, translationally-controlled 1 NM009429 CREB ChIP/SACO 25
JunD1 Jun proto-oncogene related gene d1 NM010592, 16478 CREB ChIP/SACO, CREB overexpression 25, 37
Maff v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian) NM_010755, 17133 CREB ChIP/SACO, CREB overexpression 25, 37
Arg2 arginase type II 11847 CREB CREB overexpression 37
Avpi1 arginine vasopressin-induced 1 69534 CREB CREB overexpression 37
Arih1 ariadne ubiquitin-conjugating enzyme E2 binding protein homolog 1 (Drosophila) 23806 CREB CREB overexpression 37
Cd2ap CD2-associated protein 12488 CREB CREB overexpression 37
Dhx36 DEAH (Asp-Glu-Ala-His) box polypeptide 36 72162 CREB CREB overexpression 37
Dusp1 dual specificity phosphatase 1 19252 CREB CREB overexpression 37
Ell2 elongation factor RNA polymerase II 2 192657 CREB CREB overexpression 37
AW050020 expressed sequence AW050020 268420 CREB CREB overexpression 37
Foxd3 forkhead box D3 15221 CREB CREB overexpression 37
Gem GTP binding protein (gene overexpressed in skeletal muscle) 14579 CREB CREB overexpression 37
Mcm2 minichromosome maintenance deficient 2 mitotin (S. cerevisiae) 17216 CREB CREB overexpression 37
Mlf1 myeloid leukemia factor 1 17349 CREB CREB overexpression 37
Myh10 myosin, heavy polypeptide 10, non-muscle 77579 CREB CREB overexpression 37
Nek1 NIMA (never in mitosis gene a)-related expressed kinase 1 18004 CREB CREB overexpression 37
Pde7a phosphodiesterase 7A 18583 CREB CREB overexpression 37
Psmb8 proteosome (prosome, macropain) subunit, beta type 8 (large multifunctional peptidase 7) 16913 CREB CREB overexpression 37
2700085E05Rik RIKEN cDNA 2700085E05 gene 67201 CREB CREB overexpression 37
4933407C03Rik RIKEN cDNA 4933407C03 gene 74440 CREB CREB overexpression 37
6330407G11Rik RIKEN cDNA 6330407G11 gene 68050 CREB CREB overexpression 37
Rbms2 RNA binding motif, single stranded interacting protein 2 56516 CREB CREB overexpression 37
St7 Suppression of tumorigenicity 7 64213 CREB CREB overexpression 37
Tgif2 TGFB-induced factor 2 228839 CREB CREB overexpression 37
Trip6 thyroid hormone receptor interactor 6 22051 CREB CREB overexpression 37
Tle3 transducin-like enhancer of split 3, homolog of Drosophila E(spl) 21887 CREB CREB overexpression 37
Tpm4 tropomyosin 4 326618 CREB CREB overexpression 37
Trp53inp2 tumor protein p53 inducible nuclear protein 2 68728 CREB CREB overexpression 37
Th tyrosine hydroxylase 21823 CREB CREB overexpression 37
Wbp5 WW domain binding protein 5 22381 CREB CREB overexpression 37
Xpr1 xenotropic and polytropic retrovirus receptor 1 19775 CREB CREB overexpression 37
Znrd1 zinc ribbon domain containing, 1 66136 CREB CREB overexpression 37
Sgta small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha NM024499 Zif268 Zif268 overexpression 57
  1. aAccession numbers for CREB overexpression experiments are the GeneID, not the mRNA acession number.
  2. bGene target had a conserved mouse-human transcription factor binding site in the promoter region and was also identified in the referenced study.
  3. cType of experimental analysis carried out in the referenced study. ChIP indicated chromatin immunoprecipitation followed by a serial analysis of chromatin occupancy in DNA isolated from rat PC12 cells that had been stimulated with forskolin to increase intracellular cAMP 15 minutes prior to DNA extraction [25]. Zif268 overexpression refers to studies where zif268 was overexpressed in PC12 cells, and RNA was extracted 48 hrs post-transfection [57]. CREB overexpression refers to studies where a super-active form of CREB is expressed in mice for 1 to 5 weeks. RNA is extracted from hippocampus and run on Affymetrix GeneChip Murine Genome U74 Version 2 Set MG-U74A [37]. Our analysis of the data was done using GSEA as described in the methods.