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Fasting Analysis

Select Tissue

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Select P-Value

Transcription Factors within Oscillating Gene Lists

526 Transcript Factors Liver (Illumina)
Strn3 Vhl Cebpb Cebpz Ubp1 Arid4a Rtf1 Btg2
Rpap2 Ppp1r8 Flii Mbtps1 Murc Zfhx2 Klf13 Mphosph8
Ncl Zfp445 Zfp148 Sec14l2 Zbed6 Foxo3 Thap11 Cela1
Lefty1 Rlim Kdm1a Mtor Zfp691 Irf6 Irf5 Irf9
Ppargc1a Sfpq Zbtb14 Zbtb18 Ino80 Sfmbt1 Brf2 Ing3
Ddit3 Gtf2h3 Gtf2h5 Gtf2h4 Ldb1 Cpeb3 Hivep2 3110052m02rik
Zfp639 Hdac4 Hdac8 Litaf Usp13 Usp16 Zfp654 Tada1
Tada3 Zfp524 Ikzf5 Ino80d Mbtd1 H2afy Zfp454 Dnmt3a
Mypop Maml1 Lmcd1 Uchl5 Rcbtb1 Cd40 Rb1cc1 Foxn2
Smad2 Ncoa5 Csnk2a2 Tfdp1 Zfp281 Sumo1 Klf10 Dkk3
Rnf6 Rnf4 Klf16 Dmd Zfp191 Tbx15 Irak4 Mapk12
Gtf2e2 Phf19 Gpbp1l1 Nr1i3 Zfp866 Cdk5 Cdk8 Zfp14
Zfp605 Wasl Bdp1 Wwp1 Zfp784 Cdca7 Zfp512 Wnt5a
Xrn2 Med28 Wdtc1 Chtop Men1 2210018m11rik Dvl1 Pogk
Cnot7 Irak1bp1 Calcoco1 Nfic Atxn7 Nfix Atxn1 Hax1
Elf3 Bhlhe40 Junb Insr Nr1h5 Nr1h2 Nr1h3 Nfxl1
Zmym2 Zkscan6 Zfp612 Id3 Ell3 Wwc1 Fam58b Rasl11a
Med31 Tgs1 Pdlim1 Nfx1 Supt4a Rbm39 Fgf1 Ccdc62
Ptprk Relb Rela Prmt3 Map3k7 Zbtb1 Zbtb6 Zbtb5
Ube2i Myd88 Aw146154 Med14 Dgkq Six1 Ogt Dnttip2
Gmeb2 Hlf Zfp882 Ehmt2 Elk3 Ablim1 Nfyc Zfp36
Cdk5rap2 Zfp809 Pbx1 Stat5b Stat5a Thrb Zfp119b Foxk1
Eif2ak2 Zfp319 Iws1 Zfp276 Mafg Gdf6 Zfp871 Bahd1
Tshz1 Zfp131 Hyal2 Chaf1b Onecut2 Tnni2 Pcgf1 Creb3l1
Zzz3 Ablim3 Gata4 Zfp40 Fosl2 Tmsb4x Zfp414 Rbm10
Rbm14 Nedd4 Snapc3 Snapc2 Uri1 Zfp780b Ezh1 Ppargc1b
Tfam Esrrb Prkd2 Med9 Il11 Zfp932 Zfp933 Zfp931
Chd3 Chd7 Chd6 Chd9 Per1 Nr2f6 Flcn Cby1
Srfbp1 Helz2 Map2k6 Zfp641 Dnajc2 Glo1 Pdcd11 Tnfrsf1a
Zfat Gtf2b Eny2 Zfp422 Lbh Egr2 Egr1 Tnip1
Zfp334 Lrpprc Rasd1 Rnf141 Sap130 Ccnl1 Nos1 Srsf1
Esrra Nck2 Nfkbia Nfkbiz Maf1 Meox1 Mapk14 Bmyc
Mapk15 Rbbp5 Klf7 Klf3 Arap1 Picalm Tnip2 Pim2
Zfp653 Fgfr2 Fgfr1 Dynll1 9830147e19rik Wwox Cnot10 Zfp579
Gtf2ird1 Gtf2ird2 Tead3 Nlrc5 Tead1 Ago1 Tead4 Rnf14
Cir1 Rnf10 Arhgap22 Zfp329 Zfp326 Tsc22d3 Tsc22d2 Crym
Rhoa Dyrk1b Rps14 Birc2 Snai1 Rere Pcgf5 Col1a1
Taf1d Atf5 Atf6 Nr4a2 Gm14420 Batf2 Erf Acvr2b
Prr13 Ybx1 Ybx3 Hexim1 Safb2 Sox18 Sirt1 Sox13
Taf1a Zscan25 Zscan21 Chd1 Ash2l Zfp93 Pik3r1 Ifnar2
Srebf1 Scmh1 Zfp943 Ddx3x Frzb Rnf168 Mecp2 Ube2l3
Nacc2 Chek1 Tceb3 Mybl2 Ccdc85b Mycbp2 Fbxw11 Erbb4
Glis1 Rbm15b Csdc2 Fnip2 Hinfp Zbtb7b Cbx7 Cbx5
Cbx4 Gcfc2 Ccl3 Brwd1 0610009b22rik Tlr2 Mdm2 Mdm4
Carf Ctdsp1 Hmox1 S1pr1 Hfe2 Ciao1 Crtc3 Crtc2
Hsf4 Ctnnd1 Bclaf1 Gm5595 Anp32a Rbl2 Smarcal1 Tfcp2
Mtf1 Son Kdm4a Mapk1 Kat2b Kat2a Rcor3 Txnip
Etv5 Pir Scai Sub1 Smyd1 Smyd3 Esf1 Ell
Zfp808 Zbtb41 Zkscan5 Zkscan7 Zbtb48 Phtf2 Pml Nab2
E2f7 Zfp599 Sebox Taf6 Bcl10 Map2k5 Edn1 Etohi1
Cask Uimc1 Cand1 Serpinf2 Ptrf Asf1b Csrnp2 Topors
Zfp54 Trib3 Rbmx Med1 Thrsp Ppard Dcaf6 Brca1
Brca2 Baz1b Stat3 Yeats4 Zfp960 Pex14 Pnn Zkscan17
Ccnt2 Dach1 Senp2 Tcf25 Tcf21 Mnt Slfn1 Usf2
Irf2bp2 Trak2 Ctnnb1 Kat5 Zfp354a Taf6l Adar Vegfa
Ssbp3 Lpin1 Asxl2 Pias4 Hipk3 Dmrt2 Pkn1 Tceanc
Commd7 Sfswap Gmnn Fnip1 Sp5 Zfp97 Sin3a Zfp942
Agap2 Tcf3 Zbtb22 Zbtb20 Sap30bp Zfp959 Ring1 Cc2d1a
Apbb2 Zfp775 Esr1 Efemp1 Rhog Nelfb Daxx Spdef
Mafk Maff Gas6 Parp14 Hdac11 Zfp397 Akirin2 Zfp867
Eid3 Gata6 Nfe2l3 Nfe2l2 Ccnd1 Zfp160 Trim11 Smad9
Vprbp Hbp1 Thap7 Carhsp1 Tgfbr1 Brd7 Cep290 Zfp946
Zfp945 Zfp944 Gm14325 Zfp948 Shh Nfkbie Phf20 Ripply1
Sema4d Foxp2 Foxp1 Taf4b Zc3h8 Ppp3ca Hcfc1 Atrx
Ppm1a Gclc Trim24 Ern1 Tle3 Tle1 Psmd10 Vgll4
Pcbd1 Lum Zfp316 Bmp7 Rxrg Setd8
41 Transcript Factors Liver (Tuxedo)
Cd28 9830147e19rik Tceal7 Sall4 Klf13 Klf15 Nr1d2 Gm14420
Has3 Musk Per3 Dbp Hdac9 Notch3 Mef2c Hils1
Mamstr Tet1 Plcb1 Mafa Mafb Lpin2 5730507c01rik Smad3
Sfrp4 Adipoq Med26 Zfp946 Tal2 Gal Bhlhe41 Scx
Alx4 Zfp872 Pitx3 Irx3 Sfrp2 Zfp599 Wnt10b Map2k6
Maf
202 Transcript Factors Liver (Kallisto)
Zfp846 Brip1 Cebpz Sorbs3 Klf10 Supt16 Zfp445 Zfp148
Foxo3 Thap11 Cela1 Lefty1 Nr1d2 Irf7 Irf6 Litaf
Rarb Usp13 Zfp524 Hmga1 Zfp281 Cnot6 Phf17 Akirin2
Gpbp1l1 Nr1i3 Cdk5 Ripply1 Atf7ip Zfp605 Zfp607 Tshz1
Zfp516 Zfp512 Xrn2 Brwd1 Dvl2 Uchl5 Cyr61 Scand1
Atxn7 Prkd2 Klf16 Wnt4 Lime1 Nr1h5 Id3 Wwc1
Zfp503 Rasl11a Tgs1 Tet1 Dap Relb Zfp263 Zfp260
Erf Bzw1 Hlf Gmeb1 Xbp1 Dnmt3b Mga Shh
Stat5b Zfp316 Foxk1 Eif2ak2 Per3 Per2 Purb Nufip1
Tfcp2l1 Phb Mamstr Creb3l3 Ablim3 Ablim2 Zfp40 Fosl2
Ring1 Uri1 Eya2 Cdyl Zfp597 Npas2 Thoc1 Map2k5
Glo1 Zfp53 Zfp251 Ankrd1 Nck1 Rbbp8 Med13l Cux2
Phf2 Ell3 9830147e19rik Zfp69 Zfp81 Hif1a Habp4 Dyrk1b
Zfp131 Snai3 2700050l05rik Nfkb1 Nfkb2 Smarca2 Slc11a1 Gm14420
Eny2 Ybx3 Hexim1 Zfp938 Vps72 Pik3r1 Srebf1 Rnf168
Chek2 Hoxd9 Mybl2 Ccdc85b Sox9 Lpin2 Hinfp Cbx4
Zfp354a 5730507c01rik Crebl2 Mdm4 Ctdsp1 S1pr1 Ciao1 Gm129
Ash2l Zfp691 Cav1 Cenpb Hoxd10 Hoxc4 Hoxc6 Zfp809
Nupr1 Pitx3 Dpf2 Zfp599 Mavs Uimc1 Serpinf2 Ptrf
Asf1a Asf1b Topors Trib3 Med7 Thrsp Dcaf6 Ppara
Brca2 Baz1b Zc3h8 Gdnf Kat5 Ifi205 Dmrt2 Commd7
Nlk Uhrf1 Pdcd11 Agap2 Zbtb22 Hils1 Ppm1a Zfp953
Ogg1 Zfp775 Esr1 Rhog Mafb 3110052m02rik Hmgn5 Smad9
Jup Arnt2 Arntl Brd7 Zfp944 Gm14325 Pcbd1 Phf11d
Zfp768 Actr8 Zfp560 Stat5a Zfp384 Gclc Thra Gatad2b
Bmp7 Rxra

Rev-erb-Alpha (WT and DBD-Mutant)


List of genes that both DBD mutant and REV-ERBα are recruited (10000 Bp Upstream & 90th percentile Signal Intensity):

Full List Recruited Genes

Heatmaps - Oscillating Genes

Illumina Results

Fed Only
Fasting Only
Both

Kallisto Results

Fed Only
Fasting Only
Both

Phase-Amplitude Matrices - Oscillating Genes

Illumina Results
Kallisto Results
Tuxedo Results

Venn Diagrams - Oscillating Genes

Illumina Results
Kallisto Results
Tuxedo Results

Liver/Muscle Comparison




Fed-AloneBothFasting-Alone
Download Fed-Alone Genes Download Both Genes Download Fasting-Alone Genes

In-Phase Muscle Gene Analysis


Peak at ZT12 with lag between 11.91 and 12.834




Download Gene List (At Selected P-Value)

Bmal1/Rev-erb-Alpha CHiP-seq Targets

TF Gene Targets intersected with Oscillating Liver Genes

Reporting gene list with change from Fed to Fasting (Activated, Depressed, Unaltered)

Activated: Oscillatory in Fasting but not Fed

Depressed: Oscillatory in Fed but not Fasting

Unaltered: No change in oscillation from Fed to Fasting

Downloadable by P-Value and Distance from TSS Upstream Allowable

Download Bmal1 Target (10000 Bp Upstream) (At Selected P-Value)
Download Bmal1 Target (5000 Bp Upstream) (At Selected P-Value)
Download Bmal1 Target (2000 Bp Upstream) (At Selected P-Value)
Download Rev-Erb-Alpha (10000 Bp Upstream) (At Selected P-Value)
Download Rev-Erb-Alpha (5000 Bp Upstream) (At Selected P-Value)
Download Rev-Erb-Alpha (2000 Bp Upstream) (At Selected P-Value)

Summaries

Bmal1

Bmal1 (pvalue:0.05, 10000 Bp Upstream)
ActivatedDepressedUnaltered
237733751745
Bmal1 (pvalue:0.01, 10000 Bp Upstream)
ActivatedDepressedUnaltered
14592444600
Bmal1 (pvalue:0.001, 10000 Bp Upstream)
ActivatedDepressedUnaltered
6171304165

Rev_erb-Alpha

Rev_erb-Alpha (pvalue:0.05, 10000 Bp Upstream)
ActivatedDepressedUnaltered
212499273
Rev_erb-Alpha (pvalue:0.01, 10000 Bp Upstream)
ActivatedDepressedUnaltered
158406122
Rev_erb-Alpha (pvalue:0.001, 10000 Bp Upstream)
ActivatedDepressedUnaltered
7726158

Bmal1

Bmal1 (pvalue:0.05, 5000 Bp Upstream)
ActivatedDepressedUnaltered
237633731744
Bmal1 (pvalue:0.01, 5000 Bp Upstream)
ActivatedDepressedUnaltered
14592441600
Bmal1 (pvalue:0.001, 5000 Bp Upstream)
ActivatedDepressedUnaltered
6171304165

Rev_erb-Alpha

Rev_erb-Alpha (pvalue:0.05, 5000 Bp Upstream)
ActivatedDepressedUnaltered
190439234
Rev_erb-Alpha (pvalue:0.01, 5000 Bp Upstream)
ActivatedDepressedUnaltered
142359105
Rev_erb-Alpha (pvalue:0.001, 5000 Bp Upstream)
ActivatedDepressedUnaltered
7022951

Bmal1

Bmal1 (pvalue:0.05, 2000 Bp Upstream)
ActivatedDepressedUnaltered
237533721744
Bmal1 (pvalue:0.01, 2000 Bp Upstream)
ActivatedDepressedUnaltered
14592440600
Bmal1 (pvalue:0.001, 2000 Bp Upstream)
ActivatedDepressedUnaltered
6171304165

Rev_erb-Alpha

Rev_erb-Alpha (pvalue:0.05, 2000 Bp Upstream)
ActivatedDepressedUnaltered
167407203
Rev_erb-Alpha (pvalue:0.01, 2000 Bp Upstream)
ActivatedDepressedUnaltered
12232593
Rev_erb-Alpha (pvalue:0.001, 2000 Bp Upstream)
ActivatedDepressedUnaltered
5820149

Fold Analysis for CLOCK/BMAL && Reverb-Alpha Targets

Analysis was completed at p-value of 0.05

CLOCK/BMAL Target Labels Reverb-Alpha Target Labels

Downloadables

Crick Tables

Contains all transcript expression means and errors. Also includes adjusted p-value, q-value, period, amplitude, and lag (phase).

Crick Table - Illumina - Liver Crick Table - Illumina - Muscle Crick Table - Kallisto - Liver Crick Table - Kallisto - Muscle Crick Table - Tophat - Liver Crick Table - Tophat - Muscle