track name='GSEA Genes regulated by NF-kB in response to TNF' type=bedDetail description='Custom track by Enrique Medina-Acosta (UENF), using the downloaded Molecular Signatures Database v6.1 (MSigDB) from Gene Set Enrichment Analysis (GSEA) HALLMARK_TNFA_SIGNALING_VIA_NFKB (n=200 genes regulated by NF-kB in response to TNF [GeneID=7124]; version 5.0) online accessed 03/14/2018 http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB), lifted from hg38 via BioMart. GSEA references: Tamayo, et al. (2005, PNAS 102, 15545-15550) and Mootha, Lindgren, et al. (2003, Nat Genet 34, 267-273)). ' db=hg19 visibility='2' color=0,0,153 url=http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB chr start hg19 end hg19 Name ID Description chr9 107543283 107690518 ABCA1 1
Gene regulated by NF-kB in response to TNF [GeneID=7124]: ABCA1
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
chr4 75310851 75320726 AREG 2
Gene regulated by NF-kB in response to TNF [GeneID=7124]: AREG
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
chr1 212738676 212794119 ATF3 3
Gene regulated by NF-kB in response to TNF [GeneID=7124]: ATF3
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
chr12 89981826 90103077 ATP2B1 4
Gene regulated by NF-kB in response to TNF [GeneID=7124]: ATP2B1
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
chr9 33104080 33167354 B4GALT1 5
Gene regulated by NF-kB in response to TNF [GeneID=7124]: B4GALT1
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
chr20 48249482 48330415 B4GALT5 6
Gene regulated by NF-kB in response to TNF [GeneID=7124]: B4GALT5
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
chr15 80253231 80263788 BCL2A1 7
Gene regulated by NF-kB in response to TNF [GeneID=7124]: BCL2A1
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
chr19 45250962 45263301 BCL3 8
Gene regulated by NF-kB in response to TNF [GeneID=7124]: BCL3
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
chr3 187439165 187463515 BCL6 9
Gene regulated by NF-kB in response to TNF [GeneID=7124]: BCL6
Source: http://www.broadinstitute.org/gsea/msigdb/cards/HALLMARK_TNFA_SIGNALING_VIA_NFKB
track name="Known iPEGs in postmortem prefrontal cortex" description="Custom track by Enrique Medina-Acosta (UENF), using list of confirmed (known) paternally expressed imprinted genes (iPEGs)" type=bedDetail db=hg19 visibility=1 itemRgb="On" chr chr start hg19 chr end hg19 name score strand thickStart thickEnd itemRgb blockCount blockSizes blockStarts Description chr15 25200134 25223729 SNURF_(ENST00000338094) 0 + 25200195 25213184 91,155,213 10 75,96,151,146,152,112,153,139,126,176, 0,7126,12944,19323,20370,21317,21889,22790,23205,23419,
Gene symbol: SNURF
Ensembl transcript: ENST00000338094
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -15.816550
chr15 25200073 25223870 SNRPN_(ENST00000390687) 0 + 25219600 25223591 91,155,213 10 136,96,151,146,152,112,153,139,126,317, 0,7187,13005,19384,20431,21378,21950,22851,23266,23480,
Gene symbol: SNRPN
Ensembl transcript: ENST00000390687
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -15.621650
chr19 57324515 57352094 PEG3_(ENST00000598410) 0 - 57325042 57335645 91,155,213 9 4432,93,103,104,84,90,166,87,145, 0,4598,5452,8503,9605,10442,11114,22870,27434,
Gene symbol: PEG3
Ensembl transcript: ENST00000598410
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -15.475220
chr19 57335653 57352096 PEG3_(ENST00000594706) 0 - 57352096 57352096 91,155,213 5 142,76,131,87,147, 0,2102,9004,11732,16296,
Gene symbol: PEG3
Ensembl transcript: ENST00000594706
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -13.963630
chr19 57285961 57347446 ZIM2_(ENST00000601070) 0 - 57286055 57335645 91,155,213 11 936,96,169,80,103,104,84,90,166,76,61, 0,4783,7359,15278,44006,47057,48159,48996,49668,51794,61424,
Gene symbol: ZIM2
Ensembl transcript: ENST00000601070
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -13.862149
chr2 207139386 207179148 ZDBF2_(ENST00000374423) 0 + 207146573 207176317 91,155,213 5 284,53,109,128,9708, 0,4877,7138,22583,30054,
Gene symbol: ZDBF2
Ensembl transcript: ENST00000374423
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -13.629600
chr15 25101697 25223729 SNRPN_(ENST00000400097) 0 + 25219600 25223591 91,155,213 12 166,74,114,96,151,146,152,112,153,139,126,176, 0,29965,63460,105563,111381,117760,118807,119754,120326,121227,121642,121856,
Gene symbol: SNRPN
Ensembl transcript: ENST00000400097
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -13.411980
chr19 57285929 57352097 ZIM2_(ENST00000391708) 0 - 57286055 57335645 91,155,213 12 968,96,169,80,103,104,84,90,253,76,87,143, 0,4815,7391,15310,44038,47089,48191,49028,49700,51826,61456,66025,
Gene symbol: ZIM2
Ensembl transcript: ENST00000391708
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -13.240126
chr19 57285929 57352097 ZIM2_(ENST00000221722) 0 - 57286055 57335645 91,155,213 11 968,96,169,80,103,104,84,90,166,87,143, 0,4815,7391,15310,44038,47089,48191,49028,49700,61456,66025,
Gene symbol: ZIM2
Ensembl transcript: ENST00000221722
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -12.647832
chr15 25218865 25223721 SNRPN_(ENST00000444203) 0 + 25220089 25223591 91,155,213 8 738,316,152,112,153,139,126,168, 0,923,1639,2586,3158,4059,4474,4688,
Gene symbol: SNRPN
Ensembl transcript: ENST00000444203
Expressed allele: Paternal
ASE = [(Log10(Ma)-Log10(Pa) (Non-ASD)]: -12.583550