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Chromatin ChIP-chip of non-Histone Chromosomal Proteins in C. elegans

experiment: Chromatin ChIP-chip of non-Histone Chromosomal Proteins in C. elegans project: Chromatin Function PI: Jason Lieb Labs: Jason Lieb
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 RNA polymerase II isoforms, dosage-compensation proteins, centromere components, homolog-pairing facilitators, recombination markers, and nuclear-envelope constituents. 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 25280
This represents 24802 unique BindingSites
TAB CSV GFF3 (for UCSC) SEQ
All GBrowse tracks generated for this experiment:
GBrowse tracks: by chromosome
All 7 tracks I II III IV V X
All entries in public repositories generated by this experiment
There are 7 ChIP-chip submissions for this experiment:
DCC id Name developmental stage antibody strain temperature Embargoed until Features, GBrowse and Data Files
modENCODE_3165

SDQ3891 LEM2 VC1317 MXEMB Mixed Stage Embryos [ALL]
SDQ3891_LEM2 [ALL] / lem-2
VC1317 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 818   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: SDQ3891_LEM2_VC1317_MXEMB


4 files Download data files
modENCODE_3361

JL00006 ZFP1 RB774 MXEMB Mixed Stage Embryos [ALL]
JL00006_ZFP1 [ALL] / zfp-1
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 1007   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: JL00006_ZFP1_RB774_MXEMB
GEO: GSM686622


4 files Download data files
modENCODE_3166

SDQ4051 LEM2 N2 MXEMB Mixed Stage Embryos [ALL]
SDQ4051_LEM2 [ALL] / lem-2
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 1076   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: SDQ4051_LEM2_N2_MXEMB
GEO: GSM644516


4 files Download data files
modENCODE_3164

SDQ4051 LEM2 SP646 MXEMB SP646 Mixed Stage Embryos [ALL]
SDQ4051_LEM2 [ALL] / lem-2
SP646 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 471   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: SDQ4051_LEM2_SP646_MXEMB
GEO: GSM644514


4 files Download data files
modENCODE_3389

SDQ3891 LEM2 SP646 MXEMB Mixed Stage Embryos [ALL]
SDQ3891_LEM2 [ALL] / lem-2
SP646 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 115   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: SDQ3891_LEM2_SP646_MXEMB


4 files Download data files
modENCODE_3153

AB46540 NIGG N2 MXEMB Mixed Stage Embryos [ALL]
AB46540_NIgG [ALL] /
target: N/A (negative control IgG)
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 1586   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB46540_NIGG_N2_MXEMB_2_A_EE4_peaks.gff3: 568   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB46540_NIGG_N2_MXEMB_1_A_peaks.gff3: 317   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
computed_peaks/AB46540_NIGG_N2_MXEMB_1_A+2_A_EE4_peaks.gff3: 701   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: AB46540_NIGG_N2_MXEMB


9 files Download data files
modENCODE_2969

JL00006 ZFP1 N2 MXEMB Mixed Stage Embryos [ALL]
JL00006_ZFP1 [ALL] / zfp-1
N2 [ALL]
20 degree celsius [ALL]
embargo expired
BindingSite: 20207   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
JL00006_ZFP1_N2_MXEMB_2_EE1_peaks.gff: 5980   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
JL00006_ZFP1_N2_MXEMB_4_B_peaks.gff: 3716   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
JL00006_ZFP1_N2_MXEMB_1_2_4B_combined.peaks.gff: 5514   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
JL00006_ZFP1_N2_MXEMB_1_EE2_13805601.peaks.gff: 4997   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: JL00006_ZFP1_N2_MXEMB


13 files Download data files