High-confidence active/inactive segments
Following are segments whose state assignments agree across all 5 different segmentations.Specifically, coordinates of the "Active" segments below fell in state 1 for the four-track, H3ac, and Affy segmentations, and in state 0 for H3K27me3 and TR50. Coordinates of the "Inactive" segments fell in state 0 for the four-track, H3ac, and Affy segmenations, and in state 1 for H3K27me3 and TR50. Active/Inactive segment statistics
- one-track segmentation of 51.2kb wavelet-smoothed Affy RNA
- one-track segmentation of 64kb wavelet-smoothed Sanger H3ac
- one-track segmentation of 64kb wavelet-smoothed UCSD H3K27me3
- one-track segmentation of TR50
- four-track segmentation of all of the above
- Number of segments
- Inactive: 43
- Active: 51
- Total size (bp)
- Inactive: 4241811
- Active: 6086065
- Avg. segment length
- Inactive: 98647
- Active: 119335
- Median segment length
- Inactive: 73999
- Active: 72775
- Minimum segment length
- Inactive: 2599
- Active: 1174
- Maximum segment length
- Inactive: 306283
- Active: 495865
Gene overlap
Bed files below contain one line for each gene whose Tx start sits inside the given state. Columns are chr, start, stop, gene ID, fraction of gene sitting inside the segment, strand, and segment ID
- Overlap with active state
- GO term analysis -- biological process
- GO term analysis -- molecular function
- GO term analysis -- cellular components
- Overlap with inactive state
Enrichment/depletion of various elements
Enrichment p-values are computed by permuting state labels on the fixed segmentation 10000 times, with adjusted p-values using method "BH".Element inactive active inact enr inact enr p inact adj p act enr act enr p act adj p ------------------------- ------------ ------------ --------- ----------- ----------- --------- ---------- ---------- Num_Gencode_TxStarts 196 1339 -0.512 0.001 0.002462 1.326 0 0 Num_mRNA_TxStarts 346 2703 -0.494 0.0237 0.03992 1.753 0 0 Num_Spliced.EST_TxStarts 8168 96898 -0.583 0.1498 0.1917 2.449 0 0 EST_Ovr 2619036 4836685 -0.053 0.2387 0.2829 0.219 0 0 CpG.UCSC_Isl_Ovr 6709 172629 -0.880 0 0 1.153 0 0 RptMskr_Ovr 1887499 2751102 -0.013 0.3224 0.3439 0.003 0.465 0.48 RptMskr_DNA_Ovr 116887 121057 0.001 0.494 0.494 -0.277 0 0 RptMskr_LINE.L1_Ovr 700111 494945 0.173 0.0196 0.03689 -0.422 0 0 RptMskr_LINE.L2_Ovr 172048 176078 0.207 0.0014 0.002987 -0.139 0.0277 0.04233 RptMskr_LTR_Ovr 340543 244932 0.137 0.0291 0.04233 -0.430 0 0 RptMskr_SINE.ALU_Ovr 304553 1436181 -0.440 0.0002 0.0005818 0.840 0 0 SimpRep_Ovr 91268 167620 -0.142 0.215 0.2646 0.098 0.3131 0.3439 MSA_strict_Ovr 76840 205982 -0.242 0.0341 0.04744 0.416 0.0012 0.002743 MSA_moderate_Ovr 170597 402256 -0.184 0.0473 0.06307 0.341 0.0007 0.001867 MSA_loose_Ovr 430412 859687 -0.139 0.029 0.04233 0.198 0.0021 0.0042 MSA_non.exonic_Ovr 141673 130217 0.112 0.2595 0.2966 -0.287 0.0223 0.03964