Table 2 of Tummala, Mol Vis 2010; 16:252-271.

Table 2. Pol-II ChIP-on-Chip prediction of genes experiencing most activation after P2.

Function Count Example genes
Vision 89 Sag, Rho, Rpgrip1, Gnat1, Rp1h, Gucy2e
Phototransduction 10 Rcvrn, Guca1a, Rho, Gnat1, Pdc, Pdcl3
Transport 124 Cacna1f, Kcnj9, Kcnv2, Slc25a35, Slc23a3
Regulation of transcription 92 Ahr, Ankrd33, Cyr2, Nr4a3, Pbx3, Eya3
Gene expression 110 Smad4, Dpf3, Jmjd2c, Nr1d2, Rxra
Neuron development 11 Nfasc, Ntng2, Syngap1, Cacna1f
Nervous system development 21 Map2k1, Cln8, Ablim1, Rora, Lrp2
Ion transport 33 Slc38a3, Slc24a1, Clcn3, Kcnj9
Signal transduction 106 Gngt1, Gnb1, Gucy1a3, Rp1h, Grk1
Synaptic transmission 11 Ache, Cln8, Snap25, Gabra1, Epas1
Chromatin modification 9 Jmjd2c, Sap18, Cbx8, Sirt2
Chromatin organization 15 Smarca2, Jmjd2b, Jmjd2c, Jarid1b
CNS development 6 Cln8, Rora, Sept4, Pex5, Top2b, Lrp2

To select for genes predicted to experience most of their activation increase after age P2, the criteria were: Pol-II signal levels below background threshold at P2, and Pol-II peak signal ratios (P25/P2) ≥1.8. Functional clustering analysis was performed using the DAVID gene ontology database. Complete lists of all genes, with their associated Pol-II peak signal ratios (P25/P2), may be found in Appendix 2.

Tummala, Mol Vis 2010; 16:252-271. http://www.molvis.org/molvis/v16/a32

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