(A) Ntf3 BAC RP23-79E22 was modified with an EGFP/L10 cassette using BAC homologous recombination methodology as previously described (Gong et al., 2003). EGFP/L10 expression in Ntf3::bacTRAP line PS1046 recapitulates the pattern of endogeneous Ntf3 gene expression (B) (BGEM, ISH) in layer 2 of the medial prefrontal cortex (C, D). The EGFP/L10-positive cells in mPFC have pyramidal cellular morphology with an apical dendrite (E). Translational profiles of eight distinct cell types (F) in the cerebral cortex including distinct pyramidal cell types (NTF3, GLT25D2, S100A10, NTSR1), interneuron cell types (DLX1, NEK7), and glial cell types (ALDH1L1, OLIG2) were compared and shown in a heat map of cell-specific genes at 0.01 specificity index statistic threshold (G). Average normalized expression values of cell-specific enriched genes were z-transformed and plotted. Dark red = highly enriched. (H) Scatter plot of mean log normalized values of NTF3 Cortex IP vs cortex input. Red and blue closed squares represent differentially expressed genes at 0.05 FDR corrected p-values and twofold change in expression. Yellow triangles represent negative control genes that are markers for non-neuronal cell types. Black triangles represent housekeeping genes whose expression is expected to be constant between the NTF3 cortex IP and cortex input. (I) Several layer 2/3 genes were enriched in NTF3 cortex IP such as Wfs1, Penk1, Matn2, Smoc2, Stard8, Cux2, Gsg1l, and Syt17 (www.brain-map.org). (J) Quantitative RT-PCR independently confirm that Ntf3 (2^-ddCT = 12.09 ± 1.37), Wfs1 (2^-ddCT = 3.07 ± 0.86), and Penk1 (2^-ddCT = 2.69 ± 0.31) are enriched in the Ntf3 cortex IP.