16 {'reg_feats' => 'Features from Ensembl Regulatory Build.', 'core' => 'Sites enriched for marks of open chromatin (e.g. DNase1) or transcription factor binding sites.', 'non_core' => 'Sites enriched for histone modifications or polymerase binding.'} Regulatory Build 1 {'type' => 'fg_regulatory_features', 'name' => 'Reg. Feats', 'display' =>'off', 'depth' => 10, 'default' => {'contigviewbottom' => 'normal', 'generegview' => 'normal'} } 71 Fantom 5 TSS/Enhancer Predictions Fantom 5 1 {'type' => 'regulatory_regions', 'colourset' => 'fantom', 'display' =>'off', 'priority' => ['FANTOM robust enhancer'] } 67 Tarbase miRNA target predictions TarBase 1 {'type' => 'mirna_targets', 'colourset' => 'synteny', 'display' =>'off'} 19 VISTA Enhancer Assay (http://enhancer.lbl.gov/) VISTA 1 {'type' => 'regulatory_regions', 'colourset' => 'synteny', 'display' =>'off'} 25 Genomic alignments for ILLUMINA_WG arrays ILLUMINA_WG_ProbeAlign 1 {'type' => '_oligo', 'key' => 'array_chip', 'colourset' => 'feature', 'display' =>'off' } 27 Microarray probes from manufacturers are aligned to the genome by Ensembl, if the probe sequences are provided. The mapping is a two-step procedure outlined here. Probe2Transcript Annotation 0 undef 31 Genomic alignments for AFFY_UTR arrays AFFY_UTR_ProbeAlign 1 {'type' => '_oligo', 'key' => 'array_chip', 'colourset' => 'feature', 'display' =>'off' } 30 Genomic alignments for AFFY_ST arrays AFFY_ST_ProbeAlign 1 {'type' => '_oligo', 'key' => 'array_chip', 'colourset' => 'feature', 'display' =>'off' } 32 Genomic alignments for AGILENT arrays AGILENT_ProbeAlign 1 {'type' => '_oligo', 'key' => 'array_chip', 'colourset' => 'feature', 'display' =>'off' } 33 Genomic alignments for PHALANX arrays PHALANX_ProbeAlign 1 {'type' => '_oligo', 'key' => 'array_chip', 'colourset' => 'feature', 'display' =>'off' } 43 BWA single read alignment BWA 1 \N 46 SWEMBL Peak Caller SWEmbl 1 \N 47 SWEMBL Peak Caller SWEmbl 1 \N 50 Transcript alignments for ILLUMINA_INFINIUM arrays ILLUMINA_INFINIUM_ProbeAlign 1 {'type' => '_oligo', 'key' => 'array_chip', 'colourset' => 'feature', 'display' =>'off' } 51 CCAT Peak Caller CCAT 1 \N 60 Whole Genome Bisulphite Sequencing: 5 Methyl Cytosine (and 5hmC). Merged replicates. WGBS 1 {} 59 Reduced Representation Bisulphite Sequencing: 5 Methyl Cytosine (and 5hmC). Merged replicates, filtered for a minimum of 10 reads RRBS 1 {} 69 SWEmbl Peak Caller with IDR peak filtering SWEMBL IDR 1 \N 70 Position Frequency Matrices from the Jaspar Database (5.0) Jaspar 0 \N 72 A549 Segway segmentation state analysis A549 Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_A549' } 73 DND-41 Segway segmentation state analysis DND-41 Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_DND-41' } 75 HUVEC Segway segmentation state analysis HUVEC Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_HUVEC' } 74 Nhlf Segway segmentation state analysis Nhlf Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_Nhlf' } 76 HSMM Segway segmentation state analysis HSMM Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_HSMM' } 77 GM12878 Segway segmentation state analysis GM12878 Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_GM12878' } 78 HeLa-S3 Segway segmentation state analysis HeLa-S3 Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_HeLa-S3' } 79 H1ESC Segway segmentation state analysis H1ESC Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_H1ESC' } 80 HepG2 Segway segmentation state analysis HepG2 Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_HepG2' } 81 NHEK Segway segmentation state analysis NHEK Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_NHEK' } 82 Osteobl Segway segmentation state analysis Osteobl Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_Osteobl' } 83 NH-A Segway segmentation state analysis NH-A Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_NH-A' } 84 K562 Segway segmentation state analysis K562 Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_K562' } 85 HSMMtube Segway segmentation state analysis HSMMtube Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_HSMMtube' } 86 HMEC Segway segmentation state analysis HMEC Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_HMEC' } 87 Monocytes-CD14+ Segway segmentation state analysis Monocytes-CD14+ Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_Monocytes-CD14+' } 88 NHDF-AD Segway segmentation state analysis NHDF-AD Regulatory Segmentation 1 {'type' =>'fg_segmentation_features', 'colourset' => 'fg_segmentation_features','display' =>'off', key=>'seg_NHDF-AD' }