This report mainly focuses on DE_Overall vs. DD_Overall, as well as
DE_Discordant_B vs. DD_Overall, per Andrew’s request. DE analysis is
based on log2 gene expression difference between each pair of MZ twins,
while DD analysis is based on abslute value of the former.
Plot the LNmixR model for top DD genes (Overall)
Plot the LNmixR model for top DD genes (Discordant_B)
Density Plot for Top DE Genes (Overall)
Density Plot for Top DE Genes (Discordant_B)
DE Genes (Overall) vs. DD Genes (Overall)
DE Genes (Overall) overlap DD Genes (Overall)
## [1] "ALDH6A1" "ARD1A" "C12orf26" "C14orf180" "HSD17B8" "NDUFB5"
## [7] "RPAIN" "AKAP12" "ATP5G2" "C2" "LOC285382" "CALCRL"
## [13] "COX7A2" "ESR1" "FLJ35258" "HAX1" "HSD11B1" "LMNA"
## [19] "LOC727935" "MID2" "NEURL2" "PMM1" "PRG2" "SOCS2"
## [25] "SPATA20" "TMEM100" "TMEM54" "ITGB5" "LOC375323" "PXMP2"
## [31] "SCNN1A" "UTP11L" "TUBB2A" "ADSSL1" "C1orf85" "EIF3F"
## [37] "HOXA9" "HSPC047" "IGF1" "LOC199800" "LOC646946" "BATF"
## [43] "DNAH17" "GINS3" "INTS6" "LOC131873" "THYN1" "DMRT2"
## [49] "FLJ14213" "PKD1L2" "SCARA3" "ELF4" "HOXA5" "TRIM26"
## [55] "BCYRN1" "PTEN" "REP15" "IQSEC1" "YARS" "AKR1C3"
## [61] "PKP2" "TWIST1" "DDT" "HOXA4" "HADH" "PHYH"
## [67] "C21orf33" "TAX1BP3" "RENBP" "CEP170L" "LOX"
DE Genes (Discordant_B) vs. DD Genes (Overall)
DE Genes (Discordant_B) overlap DD Genes (Overall)
## [1] "ALDH6A1" "C12orf26" "C14orf180" "DOPEY2" "DYRK4" "ETV5"
## [7] "FASN" "GPR177" "HSD17B8" "LOC647340" "LPPR2" "LSS"
## [13] "NDUFB5" "RPAIN" "SERPINA3" "UNC13C" "ACAN" "AOX1"
## [19] "ATP5G2" "AVPI1" "BCL3" "C10orf90" "C2" "LOC285382"
## [25] "C5" "CACYBP" "CALCRL" "CD68" "COX7A2" "CPM"
## [31] "CSNK2A2" "ESR1" "FKBP11" "FLJ35258" "HAX1" "HSD11B1"
## [37] "HTATIP2" "KCNIP2" "LMNA" "LOC645289" "LOC727935" "LOC731486"
## [43] "LSM12" "MID2" "MSN" "MYEOV" "NDUFA10" "NDUFA12"
## [49] "NEIL2" "NNMT" "NXNL1" "OR4F15" "PCK1" "PMM1"
## [55] "POLR1D" "PRG2" "RPL36" "SLC39A11" "SLC41A1" "SNRPN"
## [61] "SPHK1" "SPRY1" "STAT6" "TMEM100" "TMEM54" "TRAM2"
## [67] "UBB" "UCRC" "VCAM1" "ALCAM" "ALDH3A1" "ANPEP"
## [73] "BDH1" "DARC" "DPM3" "EIF4EBP2" "FXYD5" "HLA.DQA1"
## [79] "ITGB5" "LIN7B" "NOTCH3" "PCYT2" "PXMP2" "SCNN1A"
## [85] "C2orf28" "C6" "ELK1" "LEP" "MRPL41" "S100A4"
## [91] "TF" "TUBB2A" "ADSSL1" "AIFM1" "ATG4B" "C1orf85"
## [97] "C1orf91" "CALU" "DAPK2" "EIF3F" "ELOVL3" "FAM152B"
## [103] "HOXA9" "HSPC047" "IRS1" "NAGK" "PHLPP" "S100A1"
## [109] "STBD1" "TOMM7" "ANKRD33" "CCND2" "GARS" "LOC642852"
## [115] "PRRX2" "BOK" "LGALS12" "MRPS27" "SAP130" "BATF"
## [121] "DNAH17" "DPF2" "FAM129B" "GINS3" "IDH3B" "INTS6"
## [127] "LOC131873" "LOC285047" "LOC441775" "PCK2" "PDIA5" "PRR6"
## [133] "S100A10" "LOC650721" "THYN1" "DMRT2" "C11orf54" "GPSN2"
## [139] "NDUFA8" "NDUFS5" "PC.3" "PTPRF" "RBM41" "TPR"
## [145] "RIOK2" "APBB3" "H2AFY2" "PKD1L2" "SCARA3" "TLN1"
## [151] "CPA4" "EFHD2" "MIF" "SYT17" "C13orf33" "CCND1"
## [157] "ELF4" "HOXA5" "TMEM77" "RCN3" "BCYRN1" "CD48"
## [163] "KIAA0672" "REP15" "YARS" "LOC440503" "MT1G" "AKR1C3"
## [169] "C5orf23" "PKP2" "TWIST1" "NEXN" "DDT" "LOC652545"
## [175] "DEF8" "CTSH" "HADH" "PHYH" "C21orf33" "LGI4"
## [181] "PC" "TAX1BP3" "NT5DC3" "LOC201164" "PDCD2L" "SLC35B4"
## [187] "CCNF" "HCST" "ADM" "LOX"