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Curated WormBase Genes
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- Tracks
- Chromatin Structure
-  Chromatin Modifying Enzymes
   
Centromere Specificaton ChIP-chip arrays [?] [showing 2/2 subtracks] Chromosome-Nuclear Envelope Interaction [?] [showing 2/2 subtracks] Dosage Compensation ChIP-chip arrays [?] [showing 16/16 subtracks]
-  Histone Modifications and Variants
   
Core Histones ChIP-chip arrays [?] [showing 6/6 subtracks] Histone Modifications ChIP-chip arrays [?] [showing 36/36 subtracks] Histone Variants ChIP-chip arrays [?]
-  Nucleosome Structure
   
Chromatin fractions extracted with NaCl [?] [showing 3/3 subtracks] Mononucleosomes [?] [showing 2/2 subtracks] 
H3.3 Chromatin fractions extracted with NaCl [?] [showing 3/3 subtracks] Mononucleosomes 80mM NaCl [?] [showing 2/2 subtracks] 
- Gene Structure
-  Single Exon Genes
   
Mass-spec MRM [?]  
- Gene Models
- Exons
   
non-redundant exons from 14 stages [?]  
- Integrated Transcripts
- Developmental Timecourse
   
Adult spe-9 (colored by exon) embryo him-8 (colored by exon) mid-L2 (colored by exon)
Adult spe-9 (colored by mRNA) embryo him-8 (colored by mRNA) mid-L2 (colored by mRNA)
dauer daf-2 25dC 91hrs (colored by exon) late embryo (colored by exon) mid-L3 (colored by exon)
dauer daf-2 25dC 91hrs (colored by mRNA) late embryo (colored my mRNA) mid-L3 (colored by mRNA)
dauer entry daf-2 25dC 48hrs (colored by exon) male mid-L4 dpy28 him-8 25dC 30hrs (colored by exon) mid-L4 (colored by exon)
dauer entry daf-2 25dC 48hrs (colored by mRNA) male mid-L4 dpy28 him-8 25dC 30hrs (colored by mRNA) mid-L4 (colored by mRNA)
dauer exit daf-2 25dC 91hrs 15dC 12hrs (colored by exon) mid-L1 (colored by exon) RNAseq Aggregate fourteen stages (colored by exon)
dauer exit daf-2 25dC 91hrs 15dC 12hrs (colored by mRNA) mid-L1 (colored by mRNA) RNAseq Aggregate fourteen stages (colored by mRNA)
early embryo (colored by exon) mid-L1 lin-35 (colored by exon) Young Adult (colored by exon)
early embryo (colored by mRNA) mid-L1 lin-35 (colored by mRNA) Young Adult (colored by mRNA)
- Introns
   
Adult spe-9 confirmed introns [?] embryo him-8 confirmed introns [?] mid-L2 confirmed introns [?]
dauer daf-2 25dC 91hrs confirmed introns [?] late embryo confirmed introns [?] mid-L3 confirmed introns [?]
dauer entry daf-2 25dC 48hrs confirmed introns [?] male mid-L4 dpy28 him-8 25dC 30hrs confirmed introns [?] mid-L4 confirmed introns [?]
dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed introns [?] mid-L1 confirmed introns [?] RNAseq Aggregate fourteen stages confirmed introns [?]
early embryo confirmed introns [?] mid-L1 lin-35 confirmed introns [?] Young Adult confirmed introns [?]
- PolyA
   
Adult spe-9 confirmed polyA [?] embryo him-8 confirmed polyA [?] mid-L2 confirmed polyA [?]
dauer daf-2 25dC 91hrs confirmed polyA [?] late embryo confirmed polyA [?] mid-L3 confirmed polyA [?]
dauer entry daf-2 25dC 48hrs confirmed polyA [?] male mid-L4 dpy28 him-8 25dC 30hrs confirmed polyA [?] mid-L4 confirmed polyA [?]
dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed polyA [?] mid-L1 confirmed polyA [?] RNAseq Aggregate fourteen stages confirmed polyA [?]
early embryo confirmed polyA [?] mid-L1 lin-35 confirmed polyA [?] Young Adult confirmed polyA [?]
- Splice Leaders
   
Adult spe-9 confirmed SLs [?] embryo him-8 confirmed SLs [?] mid-L2 confirmed SLs [?]
dauer daf-2 25dC 91hrs confirmed SLs [?] late embryo confirmed SLs [?] mid-L3 confirmed SLs [?]
dauer entry daf-2 25dC 48hrs confirmed SLs [?] male mid-L4 dpy28 him-8 25dC 30hrs confirmed SLs [?] mid-L4 confirmed SLs [?]
dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed SLs [?] mid-L1 confirmed SLs [?] RNAseq Aggregate fourteen stages confirmed SLs [?]
early embryo confirmed SLs [?] mid-L1 lin-35 confirmed SLs [?] Young Adult confirmed SLs [?]
- Introns
   
Green Lab confirmed introns (all) [?] [showing 6/6 subtracks] Green Lab confirmed introns 2009-09-21 Chromosome II [?] Green Lab ESTs 2008-12-02 set 3 [?]
Green Lab confirmed introns 2008-12-02 set 1 [?] Green Lab confirmed introns 2010-01-26 set 5 [?] Green Lab ESTs 2008-12-02 set 4 [?]
Green Lab confirmed introns 2008-12-02 set 2 [?] Green Lab ESTs (all) [?] [showing 7/7 subtracks] Green Lab ESTs 2009-09-21 Chromosome II [?]
Green Lab confirmed introns 2008-12-02 set 3 [?] Green Lab ESTs 2008-12-02 set 1 [?] Green Lab ESTs 2010-01-26 Chromosome I [?]
Green Lab confirmed introns 2008-12-02 set 4 [?] Green Lab ESTs 2008-12-02 set 2 [?] 
- Partial Gene Models (Genelets)
- Partial Gene Models (Genelets)
   
Adult Harposporium control exp. OP50 2-24hrs (colored by exon) dauer exit daf-2 25dC 91hrs 15dC 12hrs Genelets (colored by exon) mid-L1 lin-35 Genelets (colored by exon)
Adult Harposporium control exp. OP50 2-24hrs (colored by mRNA) dauer exit daf-2 25dC 91hrs 15dC 12hrs Genelets (colored by mRNA) mid-L1 lin-35 Genelets (colored by mRNA)
Adult Harposporium exp. 2-24hrs (colored by exon) early embryo Genelets (colored by exon) mid-L2 Genelets (colored by exon)
Adult Harposporium exp. 2-24hrs (colored by mRNA) early embryo Genelets (colored by mRNA) mid-L2 Genelets (colored by mRNA)
Adult S.macescens control exp. OP50 1-24hrs (colored by exon) embryo him-8 Genelets (colored by exon) mid-L3 Genelets (colored by exon)
Adult S.macescens control exp. OP50 1-24hrs (colored by mRNA) embryo him-8 Genelets (colored by mRNA) mid-L3 Genelets (colored by mRNA)
Adult S.macescens Db10 exp. 1-24hrs (colored by exon) L4 soma no DNAse I (colored by exon) mid-L4 Genelets (colored by exon)
Adult S.macescens Db10 exp. 1-24hrs (colored by mRNA) L4 soma no DNAse I (colored by mRNA) mid-L4 Genelets (colored by mRNA)
Adult spe-9 Genelets (colored by exon) late embryo Genelets (colored by exon) RNAseq Aggregate fourteen stages (colored by exon)
Adult spe-9 Genelets (colored by mRNA) late embryo Genelets (colored my mRNA) RNAseq Aggregate fourteen stages (colored by RNA)
dauer daf-2 25dC 91hrs Genelets (colored by exon) male mid-L4 dpy28 him-8 25dC 30hrs Genelets (colored by exon) Young Adult Genelets (colored by exon)
dauer daf-2 25dC 91hrs Genelets (colored by mRNA) male mid-L4 dpy28 him-8 25dC 30hrs Genelets (colored by mRNA) Young Adult Genelets (colored by mRNA)
dauer entry daf-2 25dC 48hrs Genelets (colored by exon) mid-L1 Genelets (colored by exon)  
dauer entry daf-2 25dC 48hrs Genelets (colored by mRNA) mid-L1 Genelets (colored by mRNA)  
- Introns
   
Adult Harposporium control exp. OP50 2-24hrs confirmed introns [?] dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed introns [?] mid-L1 lin-35 confirmed introns [?]
Adult Harposporium exp. 2-24hrs confirmed introns [?] early embryo confirmed introns [?] mid-L2 confirmed introns [?]
Adult S.macescens control exp. OP50 1-24hrs confirmed introns [?] embryo him-8 confirmed introns [?] mid-L3 confirmed introns [?]
Adult S.macescens Db10 exp. 1-24hrs confirmed introns [?] L4 soma no DNAse I confirmed introns [?] mid-L4 confirmed introns [?]
Adult spe-9 confirmed introns [?] late embryo confirmed introns [?] RNAseq Aggregate fourteen stages confirmed introns [?]
dauer daf-2 25dC 91hrs confirmed introns [?] male mid-L4 dpy28 him-8 25dC 30hrs confirmed introns [?] Young Adult confirmed introns [?]
dauer entry daf-2 25dC 48hrs confirmed introns [?] mid-L1 confirmed introns [?] 
- PolyA
   
Adult Harposporium control exp. OP50 2-24hrs confirmed polyA [?] dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed polyA [?] mid-L1 lin-35 confirmed polyA [?]
Adult Harposporium exp. 2-24hrs confirmed polyA [?] early embryo confirmed polyA [?] mid-L2 confirmed polyA [?]
Adult S.macescens control exp. OP50 1-24hrs confirmed polyA [?] embryo him-8 confirmed polyA [?] mid-L3 confirmed polyA [?]
Adult S.macescens Db10 exp. 1-24hrs confirmed polyA [?] L4 soma no DNAse I confirmed polyA [?] mid-L4 confirmed polyA [?]
Adult spe-9 confirmed polyA [?] late embryo confirmed polyA [?] RNAseq Aggregate fourteen stages confirmed polyA [?]
dauer daf-2 25dC 91hrs confirmed polyA [?] male mid-L4 dpy28 him-8 25dC 30hrs confirmed polyA [?] Young Adult confirmed polyA [?]
dauer entry daf-2 25dC 48hrs confirmed polyA [?] mid-L1 confirmed polyA [?] 
- Splice Leaders
   
Adult Harposporium control exp. OP50 2-24hrs confirmed SLs [?] dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed SLs [?] mid-L1 lin-35 confirmed SLs [?]
Adult Harposporium exp. 2-24hrs confirmed SLs [?] early embryo confirmed SLs [?] mid-L2 confirmed SLs [?]
Adult S.macescens control exp. OP50 1-24hrs confirmed SLs [?] embryo him-8 confirmed SLs [?] mid-L3 confirmed SLs [?]
Adult S.macescens Db10 exp. 1-24hrs confirmed SLs [?] L4 soma no DNAse I confirmed SLs [?] mid-L4 confirmed SLs [?]
Adult spe-9 confirmed SLs [?] late embryo confirmed SLs [?] RNAseq Aggregate fourteen stages confirmed SLs [?]
dauer daf-2 25dC 91hrs confirmed SLs [?] male mid-L4 dpy28 him-8 25dC 30hrs confirmed SLs [?] Young Adult confirmed SLs [?]
dauer entry daf-2 25dC 48hrs confirmed SLs [?] mid-L1 confirmed SLs [?] 
- Splice Leaders
   
Green Lab confirmed SL acceptor sites Set 1 [?] Green Lab ESTs SL Set 1 [?] 
- RNA Expression Profiling
- mRNA
-  polyA mRNA reads, developmental timecourse
   
Adult spe-9 [?] embryo him-8 20dC [?] mid-L1 lin-35 25dC 40hrs [?]
dauer daf-2 25dC 91hrs [?] L4 soma no DNAse I [?] mid-L2 25dC 14 hrs [?]
dauer entry daf-2 25dC 48hrs [?] late embryo 20dC 45hrs [?] mid-L3 25dC 25hrs [?]
dauer exit daf-2 25dC 91hrs 15dC 12hrs [?] male mid-L4 dpy28 him-8 25dC 30hrs [?] mid-L4 25dC 36hrs [?]
early embryo [?] mid-L1 20dC 4hrs [?] Young Adult 25dC 46hrs [?]
-  polyA mRNA reads, pathogen exposure
   
Adult Harposporium control exp. OP50 2-24hrs [?] Adult S.macescens Db10 control exp. OP50 1-24hr [?] 
Adult Harposporium exp. 2-24hrs [?] Adult S.macescens Db10 exp. 1-24hr [?] 
- NimbleGen Array
   
mRNA microarray N2 Embryos [?]  
- Tiling Array
   
Development Stages [?] [showing 11/11 subtracks] Pathogen Exposure [?] [showing 6/6 subtracks] 
- Tiling Array, FACS-sorted cells
   
Embryo FACS-sorted cells [?] [showing 16/16 subtracks] Post-Embryo FACS-sorted cells [?] [showing 15/15 subtracks] 
- ncRNA
- RNA-Seq
-  miRNA, developmental timecourse
   
Adult spe-9 Day 0 miRNA expression change [?] Embryo miRNA expression change [?] mid-L4 miRNA expression change [?]
Adult spe-9 Day 12 miRNA expression change [?] mid-L1 Embryo miRNA expression change [?] Young Adult male dpy-5;him-8 miRNA expression change [?]
Adult spe-9 Day 5 miRNA expression change [?] mid-L2 miRNA expression change [?] Young Adult miRNA expression change [?]
Adult spe-9 Day 8 miRNA expression change [?] mid-L3 miRNA expression change [?] 
-  small RNA, developmental timecourse
   
Adult spe-9 Day 0 [?] embryo N2 hermaphrodite [?] L4 N2 hermaphrodite [?]
Adult spe-9 Day 5 [?] L1 N2 hermaphrodite [?] Young Adult dpy-28 him-8 male [?]
Adult spe-9 Day 8 [?] L2 N2 hermaphrodite [?] Young Adult N2 hermaphrodite [?]
Adult spe-9 Day 8 [?] L3 N2 hermaphrodite [?] 
- Sequence
   
3-frame translation (forward) [?] 3-frame translation (reverse) [?] DNA/GC Content
- Transcription Factors
-  Control N2 ChIP
   
Pol II Combined (N2 ChIP) [?] [showing 7/7 subtracks]  
-  GFP ChIP
   
ALR-1 Combined (GFP ChIP) [?] ELT-3 Combined (GFP ChIP) [?] MDL-1 Combined (GFP ChIP) [?]
AMA-1 Combined (GFP ChIP) [?] EOR-1 L3 Combined (GFP ChIP) [?] MEP-1 Combined (GFP ChIP) [?]
BLMP-1 Combined (GFP ChIP) [?] GEI-11 Combined (GFP ChIP) [?] NHR-6.v2 Combined (GFP ChIP) [?]
CEH-14 Combined (GFP ChIP) [?] HLH-1 Combined (GFP ChIP) [?] PES-1 Combined (GFP ChIP) [?]
CEH-30 Combined (GFP ChIP) [?] LIN-11 Combined (GFP ChIP) [?] PHA-4 Combined (GFP ChIP) [?] [showing 6/6 subtracks]
DAF-16 Combined (GFP ChIP) [?] LIN-13 Combined (GFP ChIP) [?] PQM-1 Combined (GFP ChIP) [?]
DPY-27 Combined (GFP ChIP) [?] LIN-15B Combined (GFP ChIP) [?] SKN-1 Combined (GFP ChIP) [?]
EGL-27 Combined (GFP ChIP) [?] LIN-39 Combined (GFP ChIP) [?] UNC-130 Combined (GFP ChIP) [?]
EGL-5 Combined (GFP ChIP) [?] MAB-5 Combined (GFP ChIP) [?] 
-  PolII ChIP
   
AMA-1 Combined (Pol II ChIP) [?] EOR-1 Combined (Pol II ChIP) [?] PHA-4 Combined (Pol II ChIP) [?] [showing 3/3 subtracks]
DAF-16 Combined (Pol II ChIP) [?] HLH-8 Combined (Pol II ChIP) [?] 
EGL-5 Combined (Pol II ChIP) [?] MAB-5 Combined (Pol II ChIP) [?] 
-  PolII Isoforms ChIP
   
Polymerase II Isoforms ChIP-chip arrays [?] [showing 4/4 subtracks]  
-  Transcription and Chromatin
   
CBP-1 ChIP-chip arrays [?] MRG-1 ChIP-chip arrays [?] 
MES-4 ChIP-chip arrays [?] [showing 3/3 subtracks] No Antibody (IGG) ChIP-chip arrays [?] 
- WormBase Reference Data
- Expression
   
ESTs (all) [?] ESTs (spliced) [?] ORFeome sequence tags [?]
- Genes
   
Curated WormBase Genes [?] Non-coding RNAs [?] 
- modENCODE Tracks
-  Snyder Group
-  Binding Sites
   
Binding Sites (anti GFP) [?] [showing 6/6 subtracks] Binding Sites (anti Pol II) [?] [showing 6/6 subtracks] 
-  Signal Graphs (anti GFP)
   
Combined (anti GFP) [?] [showing 6/6 subtracks] Replicates (anti GFP) [?] [showing 12/12 subtracks] 
-  Signal Graphs (anti Pol II)
   
Combined (anti Pol II) [?] [showing 6/6 subtracks] Replicates (anti Pol II) [?] [showing 12/12 subtracks] 
- non-modENCODE Reference Data
-  mRNAs from WormBase
   
Mixed-stage tiling arrays [?] N2 tiling arrays [?] smg-1 tiling arrays [?]
- Chromatin Structure Information from WormBase
   
DNAse I Hypersensitivity sites [?] Nucleosome Coverage [?] 
- Predicted Genes from nGASP
   
nGASP: AUGUSTUS [?] nGASP: JIGSAW combined genes [?] 
nGASP: FGENESH [?] nGASP: mGENE [?] 
- Analysis
   
Restriction Sites UCSC Conservation  
UCSC Chains UCSC Nets  

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