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Connectivity map of a gene network linked to Ranbp2 functions.

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posted on 20.06.2013, 01:50 by Kyoung-in Cho, MdEmdadul Haque, Jessica Wang, Minzhong Yu, Ying Hao, Sunny Qiu, Indulekha C. L. Pillai, Neal S. Peachey, Paulo A. Ferreira

Ingenuity pathway analysis (IPA) of factors modulated by loss of Ranbp2 identified a top network implicated in “Cellular and Nervous System Development and Function, and Carbohydrate Metabolism” (score of 22). Dashed and solid blue arrows were added manually to the network to reflect the down-regulation and up-regulation of genes (shown in green and red), respectively, observed first upon ablation of Ranbp2 in cone photoreceptors as identified by this work. Note that Crx and Mpp11 expressions underwent first transient down-modulation at P7 followed by their sustained up-regulation. Legend: ARPP21, cAMP-regulated phosphoprotein, 21 kDa; BDNF, Brain derived neurotrophic factor; C5orf34, chromosome 5 open reading frame 34; cbp, CREB-binding protein; CCPG1, cell cycle progression 1; CEBPA, CCAAT/enhancer-binding protein alpha; CRX, Cone-rod homeobox protein; Cyp2d1/Cyp2d5, cytochrome P450, family 2, subfamily d, polypeptide 1/cytochrome P450, family 2, subfamily d, polypeptide 5; DNAJC21, DnaJ homolog subfamily C member 21; EP300, also called p300, E1A binding protein p300; FUT1, fucosyltransferase 1; HOXB2, homeobox B2; HTT or Hd, huntingtin; Kcnip2, Kv channel-interacting protein 2; KLF16, Kruppel-like factor 16; let-7, Let-7 microRNA precursor; LHX2, LIM/homeobox protein2; mir-124, microRNA 124; MMP11, Matrix Metalloproteinase 11; MNDA, myeloid cell nuclear differentiation antigen; NDUFA3, NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 3; NEUN, Feminizing Locus on X-3, Fox-3, or Hexaribonucleotide Binding Protein-3; OPN1LW, long-wave-sensitive opsin (cone pigment); OTX2, orthodenticle homeobox 2; PCTP, Phosphatidylcholine transfer protein; PPP1R16B, protein phosphatase 1, regulatory subunit 16B; sn-glycero-3-phosphocholine, 2,3-dihydroxypropyl 2-(trimethylazaniumyl)ethyl phosphate; SP1, Sp1 transcription factor; THRB, thyroid hormone receptor, beta; Taf4, TAF4 RNA polymerase II, TATA box binding protein (TBP)-associated factor; Taf9b, TAF9B RNA polymerase II, TATA box binding protein (TBP)-associated factor; Tbp, TATA box binding protein; TR, Thyroid Hormone Receptor; RXR, Retinoic acid receptor; tretinoin, all-trans retinoic acid or ATRA; WNT2B, wingless-type MMTV integration site (WNT) family2B.