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Configure Tracks on UCSC Genome Browser: D. melanogaster Aug. 2014 (BDGP Release 6 + ISO1 MT/dm6)
  Tracks:    Groups:
Control track and group visibility more selectively below.
-   Hub: insulators track hub    
chipseq insulators track hub chipseq tracks for insulators track hub
mapping insulators track hub mapping tracks for insulators track hub
-   Hub: brain-chipseq-dm6 track hub    
chipseq brain-chipseq-dm6 track hub chipseq tracks for brain-chipseq-dm6 track hub
mapping brain-chipseq-dm6 track hub mapping tracks for brain-chipseq-dm6 track hub
-   Hub: dahong-shep-brain-rnaseq track hub    
mapping dahong-shep-brain-rnaseq track hub mapping tracks for dahong-shep-brain-rnaseq track hub
rnaseq dahong-shep-brain-rnaseq track hub rnaseq tracks for dahong-shep-brain-rnaseq track hub
-   Hub: Track Collections    
APF82h_FACS_RNAseq_UUU_NoDup New Collection (1) description
FourC_dsGFP New Collection description
FourC_dsShep New Collection (1) description
APF82h_ATAC_dicer_100 APF82h_ATAC_dicer_100
APF82h_ATAC_UUU_100 APF82h_ATAC_UUU_100
APF82h_ATAC_dicer_150bp APF82h_ATAC_dicer_150bp
APF82h_ATAC_UUU_150bp New Collection (1) description
larval_dicer_ATAC_150 New Collection (1) description
larval_UUU_ATAC_150 New Collection (2) description
APF18h_dicer_ATAC_150bp New Collection description
APF18h_UUU_ATAC_150bp New Collection (1) description
APF48h_dicer_ATAC_150bp New Collection description
APF48h_UUU_ATAC_150bp New Collection (1) description
-   Custom Tracks    
18h_vs_48h_closing 18h_vs_48h_closing
18h_vs_48h_opening 18h_vs_48h_opening
48h_vs_82h_closing 48h_vs_82h_closing
48h_vs_82h_opening 48h_vs_82h_opening
82h_ATAC_dicer1_150bp_q0.1 82h_ATAC_dicer1_150bp_q0.1
82h_ATAC_FDR0.1_150bp_down 82h_ATAC_FDR0.1_150bp_down
82h_ATAC_FDR0.1_150bp_up 82h_ATAC_FDR0.1_150bp_up
82h_ATAC_q0.1PE_FDR0.1_up 82h_ATAC_q0.1PE_FDR0.1_up
82h_dicer1_PEq0.1 82h_dicer1_PEq0.1
82h_rerun_dicer1_PEq0.1_peaks 82h_rerun_dicer1_PEq0.1_peaks
82h_vs_larva_q0.1PE_FDR0.1_up 82h_vs_larva_q0.1PE_FDR0.1_up
all_tads All Li 2015 TADs
intergenic intergenic
larva_vs_82h_opening larva_vs_82h_opening
larval_vs_18h_closing larval_vs_18h_closing
larval_vs_18h_opening larval_vs_18h_opening
larval_vs_82h_closing larval_vs_82h_closing
tad_active Li 2015 TAD Active
tad_borders Li 2015 TAD Borders
tad_inactive Li 2015 TAD Active
tad_PcG Li 2015 TAD PcG
82h_ATAC_dicer2_150bp_q0.1 82h_ATAC_dicer2_150bp_q0.1
82h_ATAC_q0.1PE_FDR0.1_down 82h_ATAC_q0.1PE_FDR0.1_down
82h_dicer2_PEq0.1 82h_dicer2_PEq0.1
82h_rerun_dicer2_PEq0.1_peaks 82h_rerun_dicer2_PEq0.1_peaks
82h_vs_larva_q0.1PE_FDR0.1_down 82h_vs_larva_q0.1PE_FDR0.1_down
82h_ATAC_dicer3_150bp_q0.1 82h_ATAC_dicer3_150bp_q0.1
82h_dicer3_PEq0.1 82h_dicer3_PEq0.1
82h_rerun_dicer3_PEq0.1_peaks 82h_rerun_dicer3_PEq0.1_peaks
82h_ATAC_UUU1_150bp_q0.1 82h_ATAC_UUU1_150bp_q0.1
82h_rerun_UUU1_PEq0.1_peaks 82h_rerun_UUU1_PEq0.1_peaks
82h_UUU1_PEq0.1 82h_UUU1_PEq0.1
82h_ATAC_UUU2_150bp_q0.1 82h_ATAC_UUU2_150bp_q0.1
82h_rerun_UUU2_PEq0.1_peaks 82h_rerun_UUU2_PEq0.1_peaks
82h_UUU2_PEq0.1 82h_UUU2_PEq0.1
82h_ATAC_UUU3_150bp_q0.1 82h_ATAC_UUU3_150bp_q0.1
82h_rerun_UUU3_PEq0.1_peaks 82h_rerun_UUU3_PEq0.1_peaks
82h_UUU3_PEq0.1 82h_UUU3_PEq0.1
-   Mapping and Sequencing    
Base Position Chromosome position in bases. (Clicks here zoom in 3x)
Chromosome Band Chromosome Bands
Assembly Assembly from Fragments
Gap Gap Locations
GC Percent GC Percent in 5-Base Windows
INSDC Accession at INSDC - International Nucleotide Sequence Database Collaboration
RefSeq Acc RefSeq Accession
Restr Enzymes Restriction Enzymes from REBASE
Short Match Perfect Matches to Short Sequence ()
-   Genes and Gene Predictions    
NCBI RefSeq RefSeq genes from NCBI
AUGUSTUS AUGUSTUS ab initio gene predictions v3.1
CRISPR CRISPR/Cas9 Sp. Pyog. target sites
     CRISPR Targets     CRISPR/Cas9 -NGG Targets
     CRISPR Regions     Genome regions processed to find CRISPR/Cas9 target sites (exons +/- 200 bp)
Ensembl Genes Ensembl Genes
Genscan Genes Genscan Gene Predictions
Other RefSeq Non-D. melanogaster RefSeq Genes
Pfam in RefSeq Pfam Domains in RefSeq Genes
UniProt UniProt SwissProt/TrEMBL Protein Annotations
-   mRNA and EST    
Spliced ESTs D. melanogaster ESTs That Have Been Spliced
D. melanogaster ESTs D. melanogaster ESTs Including Unspliced
D. melanogaster mRNAs D. melanogaster mRNAs from GenBank
Other mRNAs Non-D. melanogaster mRNAs from GenBank
-   Expression and Regulation    
CpG Islands CpG Islands (Islands < 300 Bases are Light Green)
     Unmasked CpG     CpG Islands on All Sequence (Islands < 300 Bases are Light Green)
     CpG Islands     CpG Islands (Islands < 300 Bases are Light Green)
ORegAnno Regulatory elements from ORegAnno
ReMap ChIP-seq ReMap Atlas of Regulatory Regions
-   Comparative Genomics    
Conservation Multiz Alignment & Conservation (27 Species)
Cons 124 Insects Multiz Alignment & Conservation (124 insects)
Insects Chain/Net Insects Chain and Net Alignments
-   Variation and Repeats    
new EVA SNP Short Genetic Variants from European Variant Archive
Interrupted Rpts Fragments of Interrupted Repeats Joined by RepeatMasker ID
Microsatellite Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
Simple Repeats Simple Tandem Repeats by TRF
UniProt Variants UniProt/SwissProt Amino Acid Substitutions
WM + SDust Genomic Intervals Masked by WindowMasker + SDust
RepeatMasker Repeating Elements by RepeatMasker