Table 3

Results of the over-representation analysis of the predicted target genes of the 10 known miRNAs.

Subcategory

Subcategory alternative name

Expected

Observed

Pvalue (FDR)

Target genes

AD

BD

DEP

PD

SCHIZ

Multiple sclerosis


Nervous system development

GO:0007399

159,555

215

0,000921692

ARSB ATM GJA1 JAG1 LEP NDP PTEN PAFAH1B1 TWIST1 DRD1 IGF1R GDF6 SMPD1 KCNMA1 NTRK2 CTNS NF1 INSC SLC6A3 FBXO45 IGF1 ADM APC DLG4 GRIN2A PAX7 PPT1 GPSM1 FEZF1 TSC1 DISC1 GLRB BMPR1B CDK6 CX3CR1 CELSR2 ID4 ERBB3 FGF2 AFF2 GLRA2 GSK3B HOXB3 LAMC1 LRP6 LSAMP NGF NPAS2 OPHN1 P2RY1 PEX13 POU3F1 PTPRZ1 SALL1 SMARCC1 STRN T TFAP2A TGFB2 TIAM1 NR2C2 YWHAH ZIC1 ULK1 ENC1 IRS2 ADAM23 KALRN SEMA5A EDNRB DMD AQP4 GMFB SDHA SLC1A2 GDA VCAN DVL1 EPHA4 EPHA7 KIF5C LRP2 POU4F2 RPS6KA3 SPOCK1 TGFBR1 AXIN2 DCLK1 MED1 ONECUT2 SIM1 CNTN2 ATF1 DLX6 ERBB4 SMAD4 SIX3 NHLH1 POU3F2 REST ABI2 PURA SMAD1 NAB1 SIX1 PPARD PRKCQ CHERP MAB21L2 TBR1 CHL1 FRS2 FKTN BTG2 SHOX2 SLC5A3 ZNF24 WWP1 STMN2 RAPGEF5 PIP5K1C ATXN10 RACGAP1 GREM1 NRG1 CNTNAP2 RPS6KA6 CYFIP1 ULK2 NLGN1 RUFY3 ARHGAP26 NFASC CLASP2 NIPBL SUFU PDGFC HPCAL4 RAPGEFL1 SHC3 FZD3 SIX4 BAIAP2 CSGALNACT1 PCDHB10 NMUR2 VANGL2 SEMA6A CNTN3 LRRC4C RET GNAO1 SCN2A FGF12 XRCC5 NTN4 BCR ADAM22 ACSL4 FGFR1 HTR5A NOTCH2 TTLL7 PGAP1 JHDM1D ATXN3 ZEB1 NDEL1 MAP2 B3GNT5 CHD6 SLITRK6 ELAVL3 HOOK3 ATOH8 WNT3A ZIC5 FGF1 SOX6 PDE5A SNAP25 GRIN3A CREB1 NRXN1 NRXN3 TPM3 FYN SEMA6D HOXA1 BDNF ALDH5A1 UNC5B DMBX1 IL6ST UHMK1 DCX CUX1 ATL1 GLDN RNF6 FAM5C CCNG1 NRP2 GAS7 ACSL3 RCAN1 SYNJ1 PCDH9 MOG RTN1 QKI LIG4 MBNL1 CCDC64 WNK1

DRD1 IGF1R GSK3B FGF1 FYN BDNF

DRD1 DISC1 GSK3B BCR HTR5A BDNF SYNJ1

BCR SNAP25 CREB1 BDNF

BDNF

LEP DRD1 SLC6A3 GRIN2A DISC1 YWHAH SLC1A2 CHL1 NRG1 FZD3 HTR5A SNAP25 BDNF SYNJ1

JAG1


Neuron projection

GO:0043005

49,9516

79

0,00411039

ADRB2 CA2 PAFAH1B1 ATP1A2 DRD1 GABRA6 GAD1 GRM3 IGF1R KCNJ2 NPY1R PGR AR KCNMA1 NF1 TACR1 MYO5B ACTN2 GRM1 APC GRIN2A ATXN1L MYO5A PPT1 OPRM1 TSC1 HTR2A CALCR OPHN1 STRN TGFB2 ULK1 PRSS12 KALRN BNIP3 SLC1A2 DVL1 EPHA7 KIF5C NCAM2 KIF5A CNTN2 ABI2 PURA CAPRIN1 IGF2BP1 SCN1A STMN2 SNCA STAT1 EPB41L3 ATXN10 CNTNAP2 RUFY3 NFASC ERC2 KIAA1598 SEMA6A SCN2A GAN TTLL7 CPEB1 NDEL1 MAP2 PSD2 CALD1 SNAP25 GRIN3A TPM3 AQP11 UHMK1 EXOC8 DICER1 ATL1 ANKS1B RNF6 CCNG1 CACNA1C NRP2

DRD1 IGF1R HTR2A SNCA

DRD1 HTR2A

HTR2A

SNCA

DRD1 GAD1 GRM3 GRIN2A HTR2A SLC1A2 SNAP25

ADRB2


Neuron projection development

GO:0031175

43,1466

67

0,0162232

GJA1 PTEN PAFAH1B1 IGF1R ADM APC FEZF1 DISC1 BMPR1B CELSR2 ERBB3 LAMC1 NGF OPHN1 PTPRZ1 STRN TIAM1 YWHAH ULK1 KALRN DMD VCAN DVL1 EPHA4 EPHA7 KIF5C POU4F2 DCLK1 CNTN2 ATF1 POU3F2 ABI2 SMAD1 TBR1 STMN2 PIP5K1C ATXN10 CYFIP1 ULK2 RUFY3 NFASC FZD3 BAIAP2 SEMA6A LRRC4C GNAO1 ACSL4 FGFR1 NDEL1 MAP2 SLITRK6 WNT3A SNAP25 GRIN3A CREB1 NRXN1 NRXN3 HOXA1 BDNF UNC5B UHMK1 DCX ATL1 RNF6 NRP2 GAS7 CCDC64

IGF1R BDNF

DISC1 BDNF

SNAP25 CREB1 BDNF

BDNF

DISC1 YWHAH FZD3 SNAP25 BDNF

--


Neuron projection morphogenesis

GO:0048812

33,5906

52

0,0462928

GJA1 PAFAH1B1 IGF1R ADM APC FEZF1 BMPR1B CELSR2 ERBB3 NGF OPHN1 PTPRZ1 TIAM1 YWHAH ULK1 KALRN DMD VCAN DVL1 EPHA4 EPHA7 KIF5C POU4F2 DCLK1 CNTN2 POU3F2 SMAD1 TBR1 PIP5K1C CYFIP1 ULK2 RUFY3 NFASC FZD3 BAIAP2 SEMA6A LRRC4C NDEL1 SLITRK6 WNT3A SNAP25 CREB1 NRXN1 NRXN3 HOXA1 BDNF UNC5B DCX ATL1 RNF6 NRP2 GAS7

BDNF IGF1R

BDNF

SNAP25 CREB1 BDNF

BDNF

FZD3 SNAP25 BDNF YWHAH

--


This table lists interesting Gene Ontology (GO) subcategories and over-represented target genes with Pvalues <0.05 and FDR adjustment related to nervous system development. Target genes associated with AD and other neurological diseases are listed separately.

AD: Alzheimer disease; BP: bipolar disorder; DEP: major depression; PD, Parkinson's disease; SCHIZ: schizophrenia

Leidinger et al. Genome Biology 2013 14:R78   doi:10.1186/gb-2013-14-7-r78

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