### TF motifs bedfiles track TFAP2A_motifs bigDataUrl TFAP2A_motifs_0.1_sorted.bigbed shortLabel TFAP2A_motifs longLabel TFAP2A_motifs_0.1FDR visibility dense type bigBed 6 track TP63_motifs bigDataUrl TP63_motifs_0.1_sorted.bigbed shortLabel TP63_motifs longLabel TP63_motifs_0.1FDR visibility dense type bigBed 6 track EHF_motifs bigDataUrl EHF_motifs_0.1_sorted.bigbed shortLabel EHF_motifs longLabel EHF_motifs_0.1FDR visibility dense type bigBed 6 track ELF3_motifs bigDataUrl ELF3_motifs_0.1_sorted.bigbed shortLabel ELF3_motifs longLabel ELF3_motifs_0.1FDR visibility dense type bigBed 6 track OTX1_motifs bigDataUrl OTX1_motifs_0.1_sorted.bigbed shortLabel OTX1_motifs longLabel OTX1_motifs_0.1FDR visibility dense type bigBed 6 track PAX6_motifs bigDataUrl PAX6_motifs_0.1_sorted.bigbed shortLabel PAX6_motifs longLabel PAX6_motifs_0.1FDR visibility dense type bigBed 6 track FOXC1_motifs bigDataUrl FOXC1_motifs_0.1_sorted.bigbed shortLabel FOXC1_motifs longLabel FOXC1_motifs_0.1FDR visibility dense type bigBed 6 ###chipseq peakfiles track LSC_TP63_peaks bigDataUrl LSCp63pk.bigNarrowPeak shortLabel LSC_p63_peaks longLabel LSC_p63_peaks visibility dense color 141,160,203 type bigNarrowPeak track LSC_FOXC1_peaks bigDataUrl LSCFOXC1pk.bigNarrowPeak shortLabel LSC_FOXC1_peaks longLabel LSC_FOXC1_peaks visibility dense color 102,194,165 type bigNarrowPeak track LSC_PAX6_peaks bigDataUrl LSCPAX6pk.bigNarrowPeak shortLabel LSC_PAX6_peaks longLabel LSC_PAX6_peaks visibility dense color 252,141,98 type bigNarrowPeak track LSC_RUNX1_peaks bigDataUrl LSCRUNX1pk.bigNarrowPeak shortLabel LSC_RUNX1_peaks longLabel LSC_RUNX1_peaks color 166,216,84 visibility dense type bigNarrowPeak track LSC_SMAD3_peaks bigDataUrl LSCSMAD3pk.bigNarrowPeak shortLabel LSC_SMAD3_peaks longLabel LSC_SMAD3_peaks color 231,138,195 visibility dense type bigNarrowPeak #track KC_TP63_peaks #bigDataUrl GRCh38.p13-KC_p63.bignarrowPeak #shortLabel KC_p63_peaks #longLabel KC_p63_peaks #visibility dense #type bigNarrowPeak #track KC_RUNX1_peaks #bigDataUrl GRCh38.p13-KC_RUNX1.bignarrowPeak #shortLabel KC_RUNX1_peaks #longLabel KC_RUNX1_peaks #visibility dense #type bigNarrowPeak #track LSC_PAX6_FISHER #bigDataUrl FISHER_LSCPAX6pk.bigNarrowPeak #shortLabel LSC_PAX6_FISHER #longLabel LSC_PAX6_FISHER #visibility dense #type bigNarrowPeak #track LSC_PAX6_IDR #bigDataUrl IDR_LSCPAX6pk.bigNarrowPeak #shortLabel LSC_PAX6_IDR #longLabel LSC_PAX6_IDR #visibility dense #type bigNarrowPeak #track LSC_PAX6_peaks_r1 #bigDataUrl LSCPAX6rep1Ouyangpk.bigNarrowPeak #shortLabel LSC_PAX6_rep1 #longLabel LSC_PAX6_rep1 #visibility dense #type bigNarrowPeak #track LSC_PAX6_peaks_r2 #bigDataUrl LSCPAX6rep2Ouyangpk.bigNarrowPeak #shortLabel LSC_PAX6_rep2 #longLabel LSC_PAX6_rep2 #visibility dense #type bigNarrowPeak ###TP63 chipseq files track TP63_chipseq_data container multiWig shortLabel TP63 _chipseq_data longLabel TP63 _chipseq_data description="all LSC TP63 replica's" type bigWig viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 2 configurable on autoScale on dragAndDrop subtracks track TP63_LSC_1 bigDataUrl PRIMLSCp63chipbw.bigWig shortLabel TP63_LSC_1 longLabel TP63_LSC_1 type bigWig parent TP63_chipseq_data color 141,160,203 track TP63_LSC_2 bigDataUrl PRIM2LSCunsurep63chipbw.bigWig shortLabel TP63_LSC_2 longLabel TP63_LSC_2 parent TP63_chipseq_data type bigWig color 141,160,203 ###FOXC1 chipseq files track FOXC1_chipseq_data container multiWig shortLabel FOXC1_chipseq_data longLabel FOXC1_chipseq_data description="all LSC FOXC1 replica's" type bigWig viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 2 configurable on autoScale on dragAndDrop subtracks track FOXC1_LSC_1 bigDataUrl LSCFOXC1rep1Ouyangbw.bigWig shortLabel FOXC1_LSC_1 longLabel FOXC1_LSC_1 type bigWig parent FOXC1_chipseq_data color 102,194,165 track FOXC1_LSC_2 bigDataUrl LSCFOXC1rep2Ouyangbw.bigWig shortLabel FOXC1_LSC_2 longLabel FOXC1_LSC_2 parent FOXC1_chipseq_data type bigWig color 102,194,165 ###Pax6 chipseq files track PAX6_chipseq_data container multiWig shortLabel PAX6_chipseq_data longLabel PAX6_chipseq_data description="all LSC PAX6 replica's" type bigWig viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 2 configurable on autoScale on dragAndDrop subtracks track PAX6_LSC_1 bigDataUrl LSC1PAX6bw.bigWig shortLabel PAX6_LSC_1 longLabel PAX6_LSC_1 type bigWig parent PAX6_chipseq_data color 252,141,98 track PAX6_LSC_2 bigDataUrl LSC2PAX6bw.bigWig shortLabel PAX6_LSC_2 longLabel PAX6_LSC_2 parent PAX6_chipseq_data type bigWig color 252,141,98 ##### RUNX1 chipseq files track RUNX1_chipseq_data container multiWig shortLabel RUNX1_chipseq_data longLabel RUNX1_chipseq_data description="all LSC RUNX1 replica's" type bigWig viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 2 configurable on autoScale on dragAndDrop subtracks track RUNX1_LSC_1 bigDataUrl LSCRUNX1rep1Ouyangbw.bigWig shortLabel RUNX1_LSC_1 longLabel RUNX1_LSC_1 type bigWig parent RUNX1_chipseq_data color 166,216,84 track RUNX1_LSC_2 bigDataUrl LSCRUNX1rep2Ouyangbw.bigWig shortLabel RUNX1_LSC_2 longLabel RUNX1_LSC_2 parent RUNX1_chipseq_data type bigWig color 166,216,84 #### SMAD3 chipseq files track SMAD3_chipseq_data container multiWig shortLabel SMAD3_chipseq_data longLabel SMAD3_chipseq_data description="all LSC SMAD3 replica's" type bigWig viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 2 configurable on autoScale on dragAndDrop subtracks track SMAD3_LSC_1 bigDataUrl LSCSMAD3rep1Ouyangbw.bigWig shortLabel SMAD3_LSC_1 longLabel SMAD3_LSC_1 type bigWig parent SMAD3_chipseq_data color 231,138,195 track SMAD3_LSC_2 bigDataUrl LSCSMAD3rep2Ouyangbw.bigWig shortLabel SMAD3_LSC_2 longLabel SMAD3_LSC_2 parent SMAD3_chipseq_data type bigWig color 231,138,195 ##########################Annotation tracks track Promoters_ATAC_annotated bigDataUrl Promoters_ATAC_regions.bigBed shortLabel ATAC_annotated longLabel CREs_annotated priority 3.1 visibility pack type bigBed 9 itemRgb on description='all the promoters measuring H3K4me3' track Promoters_H3K27ac_annotated bigDataUrl Promoters_H3K27ac_regions.bigBed shortLabel H3K27ac_annotated longLabel CREs_annotated priority 3.1 visibility pack type bigBed 9 itemRgb on description='all the promoters measuring H3K4me3' track Promoters_H3K4me3_annotated bigDataUrl Promoters_H3K4me3_regions.bigBed shortLabel H3K4me3_annotated longLabel CREs_annotated priority 3.1 visibility pack type bigBed 9 itemRgb on description='all the promoters measuring H3K4me3' track Promoters_H3K27me3_annotated bigDataUrl Promoters_H3K27me3_regions.bigBed shortLabel H3K27me3_annotated longLabel CREs_annotated priority 3.1 visibility pack type bigBed 9 itemRgb on description='all the promoters measuring H3K27me3' track CREs_ATAC_annotated bigDataUrl Accesible_regions_ATAC_regions.bigBed shortLabel H3K4me3_annotated longLabel CREs_annotated priority 3.1 visibility pack type bigBed 9 itemRgb on description='all the annotated regions based on ATAC summits' track CREs_H3K27ac_annotated bigDataUrl Accesible_regions_H3K27ac_regions.bigBed shortLabel H3K27ac_annotated longLabel CREs_annotated priority 3.1 visibility pack type bigBed 9 itemRgb on description='all the annotated regions based on ATAC summits and H3K27ac signal' track CREs_H3K4me3_annotated bigDataUrl Accesible_regions_H3K4me3_regions.bigBed shortLabel H3K4me3_annotated longLabel CREs_annotated priority 3.1 visibility pack type bigBed 9 itemRgb on description='all the annotated regions based on ATAC summits and H3K4me3 signal' track CREs_H3K27me3_annotated bigDataUrl Accesible_regions_H3K27me3_regions.bigBed shortLabel H3K27me3_annotated longLabel CREs_annotated priority 3.1 visibility pack type bigBed 9 itemRgb on description='all the annotated regions based on ATAC summits and H3K27me3 signal' ############################RNAseq tracks ##KC tracks: track KC_RNA container multiWig shortLabel KC_RNA longLabel KC_RNA description="all KC_replica's forward and reverse" type bigWig #viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 2 configurable on autoScale on dragAndDrop subtracks ##LSC tracks: track LSC_RNA container multiWig shortLabel LSC_RNA longLabel LSC_RNA description="all LSC replica's forward and reverse" type bigWig #viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 3 configurable on autoScale on dragAndDrop subtracks ##KC_eye_track tracks: track eye_KC_RNA container multiWig shortLabel eye_KC_RNA longLabel eye_KC_RNA description="all eye KC 3'primed RNAseq samples forward and reverse" type bigWig #viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 1 configurable on autoScale on dragAndDrop subtracks #####################################bigwig files ###forward Reads track HKCday01RNASeqforward bigDataUrl HKCday01RNASeqforward.bigWig shortLabel KC_1 longLabel HKC1_d0 parent KC_RNA type bigWig color 177,89,40 track HKCday02RNASeqforward bigDataUrl HKCday02RNASeqforward.bigWig shortLabel KC_2 longLabel HKC2_d0 parent KC_RNA type bigWig color 177,89,40 track PKC19RNA1forward bigDataUrl PKC19RNA1forward.bigWig shortLabel KC_3 longLabel PKC19_replica_1 parent KC_RNA type bigWig color 177,89,40 track LSCRNA1forward bigDataUrl LSCRNA1forward.bigWig shortLabel LSC_1 longLabel LSC_bulk_replica_1 parent LSC_RNA type bigWig color 253,191,111 track LSCRNA2forward bigDataUrl LSCRNA2forward.bigWig shortLabel LSC_2 longLabel LSC_bulk_replica_2 parent LSC_RNA type bigWig color 253,191,111 track SkinFromEyeLid1forward bigDataUrl SkinFromEyeLid1forward.bigWig shortLabel KC_eye_1 longLabel KC_eye_1 parent eye_KC_RNA type bigWig color 110,110,110 track SkinFromEyeLid2forward bigDataUrl SkinFromEyeLid2forward.bigWig shortLabel KC_eye_2 longLabel KC_eye_2 parent eye_KC_RNA type bigWig color 110,110,110 ###reverse Reads track HKCday01RNASeqreverse bigDataUrl HKCday01RNASeqreverse.bigWig shortLabel KC_1 longLabel HKC1_d0 parent KC_RNA type bigWig color 177,157,146 track HKCday02RNASeqreverse bigDataUrl HKCday02RNASeqreverse.bigWig shortLabel KC_2 longLabel HKC2_d0 parent KC_RNA type bigWig color 177,157,146 track PKC19RNA1reverse bigDataUrl PKC19RNA1reverse.bigWig shortLabel KC_3 longLabel HKC2_d0 parent KC_RNA type bigWig color 177,157,146 track PKC19RNA2reverse bigDataUrl PKC19RNA2reverse.bigWig shortLabel KC_3 longLabel HKC2_d0 parent KC_RNA type bigWig color 177,157,146 track LSCRNA1reverse bigDataUrl LSCRNA1reverse.bigWig shortLabel LSC_1 longLabel LSC_bulk_replica_1 parent LSC_RNA type bigWig color 190,167,138 track LSCRNA2reverse bigDataUrl LSCRNA2reverse.bigWig shortLabel LSC_1 longLabel LSC_bulk_replica_1 parent LSC_RNA type bigWig color 190,167,138 track SkinFromEyeLid1reverse bigDataUrl SkinFromEyeLid1reverse.bigWig shortLabel KC_eye_1 longLabel KC_eye_1 parent eye_KC_RNA type bigWig color 189,189,189 track SkinFromEyeLid2reverse bigDataUrl SkinFromEyeLid2forward.bigWig shortLabel KC_eye_2 longLabel KC_eye_2 parent eye_KC_RNA type bigWig color 189,189,189 track LSCRNA2 bigDataUrl LSCouyang1.bigWig shortLabel LSC_ouyang1 longLabel LSC_ouyang1 parent LSC_RNA type bigWig color 253,191,111 track LSCRNA3 bigDataUrl LSCouyang2.bigWig shortLabel LSC_LSCouyang2 longLabel LSC_LSCouyang2 parent LSC_RNA type bigWig color 253,191,111 ################################################################################# Chipseq_broad track signal_H3K27ac container multiWig shortLabel KC_LSC_H3K27ac longLabel KC_LSC_H3K27ac description="all H3K27ac files" type bigWig maxHeightPixels 40 visibility full aggregate none showSubtrackColorOnUi on windowingFunction maximum priority 5 configurable on autoScale on dragAndDrop subtracks track H3K27ac_BAM_KC.bw bigDataUrl H3K27ac_BAM_KC.bw shortLabel H3K27ac_BAM_KC bw longLabel H3K27ac_BAM_KC bigWig type bigWig color 31,120,180 parent signal_H3K27ac priority 12.0 visibility full track H3K27ac_BAM_LSC bigDataUrl H3K27ac_BAM_LSC.bw shortLabel LSC_merged bw longLabel H3K27ac_BAM_LSC bw type bigWig color 166,206,227 parent signal_H3K27ac priority 16.0 visibility full track signal_H3K27me3 container multiWig shortLabel KC_LSC_H3K27me3 longLabel KC_LSC_H3K27me3 description="all H3K27me3files" type bigWig maxHeightPixels 40 visibility full aggregate none showSubtrackColorOnUi on windowingFunction maximum priority 7 configurable on autoScale on dragAndDrop subtracks track H3K27me3_BAM_KC.bw bigDataUrl H3K27me3_BAM_KC.bw shortLabel H3K27me3_BAM_KC bw longLabel H3K27me3_BAM_KC bigWig type bigWig color 197,67,57 parent signal_H3K27me3 priority 14.0 visibility full track H3K27me3_BAM_LSC bigDataUrl H3K27me3_BAM_LSC.bw shortLabel H3K27me3_BAM_LSC bw longLabel H3K27me3_BAM_LSC bigWig type bigWig color 251,154,153 parent signal_H3K27me3 priority 18.0 visibility full #################################################################Chipseq narrow H3K4me3 track signal_H3K4me3 container multiWig shortLabel KC_LSC_H3K4me3 longLabel KC_LSC_H3K4me3 description="all H3K4me3files" type bigWig maxHeightPixels 40 visibility full aggregate none showSubtrackColorOnUi on windowingFunction maximum priority 6 configurable on autoScale on dragAndDrop subtracks track H3K4me3_BAM_KC bigDataUrl H3K4me3_BAM_KC.bw shortLabel H3K4me3_BAM_KC bw longLabel H3K4me3_BAM_KC bigWig type bigWig color 51,160,44 parent signal_H3K4me3 priority 14.0 visibility full subGroups conditions=DOMH3K4me3 view=signal track H3K4me3_BAM_LSC bigDataUrl H3K4me3_BAM_LSC.bw shortLabel H3K4me3_LSC_merged bw longLabel H3K4me3_BAM_LSC.bw type bigWig color 178,223,138 parent signal_H3K4me3 priority 26.0 visibility full subGroups conditions=PRIMLSCH3K4me3 view=signal #################################################################Chipseq ATAC track ATACseqsamples container multiWig shortLabel ATAC-seq longLabel ATAC-seq description="all merged ATAC files" type bigWig maxHeightPixels 40 visibility full aggregate none showSubtrackColorOnUi on windowingFunction maximum priority 5 configurable on autoScale on dragAndDrop subtracks track ATAC_BAM_KC bigDataUrl ATAC_BAM_KC.bw shortLabel ATAC_BAM_KC bw longLabel ATAC_BAM_KC bw type bigWig color 106,61,154 parent signal priority 12.0 visibility full parent ATACseqsamples track ATAC_BAM_LSC bigDataUrl ATAC_BAM_LSC.bw shortLabel ATAC_BAM_LSC bw longLabel ATAC_BAM_LSC bigWig type bigWig color 229,163,249 parent signal priority 24.0 visibility full parent ATACseqsamples ##### FOSL2 chipseq ###FOSL2 chipseq files track FOSL2_chipseq_data container multiWig shortLabel FOSL2_chipseq_data longLabel FOSL2_chipseq_data description="all LSC FOSL2 replica's" type bigWig viewLimits 0:160 visibility full aggregate solidOverlay showSubtrackColorOnUi on windowingFunction maximum priority 2 configurable on autoScale on dragAndDrop subtracks track FOSL2_LSC_1 bigDataUrl LSCFOSL21bw.bigWig shortLabel FOSL2_LSC_1 longLabel FOSL2_LSC_1 type bigWig parent FOSL2_chipseq_data color 102,153,153 track FOSL2_LSC_2 bigDataUrl LSCFOSL22bw.bigWig shortLabel FOSL2_LSC_2 longLabel FOSL2_LSC_2 parent FOSL2_chipseq_data type bigWig color 102,153,153 track LSC_FOSL2_peaks bigDataUrl LSCFOSL2pk.bigNarrowPeak shortLabel LSC_FOSL2_peaks longLabel LSC_FOSL2_peaks color 102,153,153 visibility dense type bigNarrowPeak