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Chromatin ChIP-chip of Modified Histones in C. elegans

experiment: Chromatin ChIP-chip of Modified Histones in C. elegans project: Chromatin Function PI: Jason Lieb Labs: Jason Lieb, Julie Ahringer, Susan Strome
The focus of our analysis will be elements that specify nucleosome positioning and occupancy, control domains of gene expression, induce repression of the X chromosome, guide mitotic segregation and genome duplication, govern homolog pairing and recombination during meiosis, and organize chromosome positioning within the nucleus. Our 126 strategically selected targets include key histone modifications and histone variants. We will integrate information generated with existing knowledge on the biology of the targets and perform ChIP-chip analysis on mutant and RNAi extracts lacking selected target proteins.

All features generated by this experiment:
Feature Export
BindingSite 57588
This represents 56251 unique BindingSites
TAB CSV GFF3 (for UCSC) SEQ
NO GBROWSE TRACKS FOR THIS EXPERIMENT
There are 12 ChIP-chip submissions for this experiment:
DCC id Name developmental stage antibody strain temperature Embargoed until Features, GBrowse and Data Files
modENCODE_3202

AB2886 H3K79ME1361912 N2 MXEMB Mixed Stage Embryos [ALL]
AB2886 H3K79me1:361912 [ALL] /
target: H3K79me1
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 8754   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB2886_H3K79ME1361912_N2_MXEMB_2_peaks.gff3: 71   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB2886_H3K79ME1361912_N2_MXEMB_1_EE4+2_peaks.gff3: 3087   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB2886_H3K79ME1361912_N2_MXEMB_1_EE4_peaks.gff3: 5596   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_6005

chip-ab78517 H4K20me3 N2 L3 L3 Larval Stage [ALL]
ab78517-H4K20me3-6F8D9 [ALL] /
target: H4K20me3
N2 [ALL]
20 degree celsius [ALL]
embargo expired

6 files Download data files
modENCODE_3203

UP07448 H3K27ME124439 N2 L3 L3 Larval Stage [ALL]
UP07448_H3K27me1:24439 [ALL] /
target: H3K27me1
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 924   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/UP07448_H3K27ME124439_N2_L3_2_peaks.gff3: 43   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/UP07448_H3K27ME124439_N2_L3_1_peaks.gff3: 510   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/UP07448_H3K27ME124439_N2_L3_1+2_peaks.gff3: 371   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_3179

UP07448 H3K27ME124439 N2 EEMB Early Stage Embryos [ALL]
UP07448_H3K27me1:24439 [ALL] /
target: H3K27me1
WormStrain;N2&oldid=19052 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 5305   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/UP07448_H3K27ME124439_N2_EEMB_1_OID26641_peaks.gff3: 2512   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/UP07448_H3K27ME124439_N2_EEMB_1_OID26641+2_OID27924_peaks.gff3: 2144   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/UP07448_H3K27ME124439_N2_EEMB_2_OID27924_peaks.gff3: 649   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_3204

AB3594 H3K79ME2346021 N2 MXEMB Mixed Stage Embryos [ALL]
AB3594 H3K79me2:346021 [ALL] /
target: H3K79me2
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 13605   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB3594_H3K79ME2346021_N2_MXEMB_2_peaks.gff3: 4271   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB3594_H3K79ME2346021_N2_MXEMB_1_EE4+2_peaks.gff3: 4456   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB3594_H3K79ME2346021_N2_MXEMB_1_EE4_peaks.gff3: 4878   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_3322

AB2621 H3K79ME3 361576 N2 L3 L3 Larval Stage [ALL]
AB2621 H3K79me3:361576 [ALL] /
target: H3K79me3
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 8785   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB2621_H3K79ME3_361576_N2_L3_1_A+2_A_peaks.gff: 3831   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB2621_H3K79ME3_361576_N2_L3_1_A_peaks.gff: 3786   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB2621_H3K79ME3_361576_N2_L3_2_A_peaks.gff: 1168   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_3171

HK00013 H3K27ME3:1E7 N2 EEMB Early Stage Embryos [ALL]
HK00013 H3K27me3:1E7:JL:1 [ALL] /
target: H3K27me3
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 3   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_3320

AB2886 H3K79ME1 361912 N2 L3 L3 Larval Stage [ALL]
AB2886 H3K79me1:361912 [ALL] /
target: H3K79me1
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 2138   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB2886_H3K79ME1_361912_N2_L3_1_A_peaks.gff: 1302   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB2886_H3K79ME1_361912_N2_L3_2_A_peaks.gff: 114   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB2886_H3K79ME1_361912_N2_L3_1_A+2_A_peaks.gff: 722   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_3321

AB3594 H3K79ME2 346021 N2 L3 L3 Larval Stage [ALL]
AB3594 H3K79me2:346021 [ALL] /
target: H3K79me2
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 5861   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB3594_H3K79ME2_346021_N2_L3_1_A_peaks.gff: 3024   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB3594_H3K79ME2_346021_N2_L3_2_A_peaks.gff: 700   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
AB3594_H3K79ME2_346021_N2_L3_1_A+2_A_peaks.gff: 2137   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_3196

DISN147 H4K20ME1001 N2 LTEMB DevStageWorm:Late Embryos:JL:1 [ALL]
DISN147_H4K20me1:001 [ALL] /
target: H4K20me1
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 6786   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/DISN147_H4K20ME1001_N2_LTEMB_2_OID30311_peaks.gff3: 2538   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/DISN147_H4K20ME1001_N2_LTEMB_1_OID30311+2_OID30311_peaks.gff3: 2394   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/DISN147_H4K20ME1001_N2_LTEMB_1_OID30311_peaks.gff3: 1854   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files
modENCODE_6006

chip-ab9051 H4K20me1 dpy21 e428 L3 L3 Larval Stage [ALL]
ab9051_H4K20me1:104513 [ALL] /
target: H4K20me1
MES4FLAG [ALL]
CB428 [ALL]
20 degree celsius [ALL]
embargo expired

6 files Download data files
modENCODE_3151

AB2621 H3K79ME3361576 N2 MXEMB Mixed Stage Embryos [ALL]
AB2621 H3K79me3:361576 [ALL] /
target: H3K79me3
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 5427   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB2621_H3K79ME3361576_N2_MXEMB_1_EE4_peaks.gff3: 2355   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB2621_H3K79ME3361576_N2_MXEMB_2_peaks.gff3: 564   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB2621_H3K79ME3361576_N2_MXEMB_1_EE4+2_peaks.gff3: 2508   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]


9 files Download data files