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Chromatin Binding Site Mapping of non-Histone Chromosomal Proteins in D. melanogaster

experiment: Chromatin Binding Site Mapping of non-Histone Chromosomal Proteins in D. melanogaster project: Regulatory Elements in Drosophila PI: Kevin White Labs: Kevin White
The White Lab is aiming to map the association of many of the non-histone chromosomal proteins on the genome of Drosophila melanogaster. One technique that we use for this purpose is chromatin immunoprecipitation-on-chip (ChIP-on-chip) utilizing whole-genome tiling arrays. The data generated by ChIP-chip experiments consist basically of a plot of signal intensity across the genome. The highest signals correspond to positions in the genome occupied by the tested chromatin-binding protein.

All features generated by this experiment:
Feature Export
ProteinBindingSite 94040
This represents 89685 unique ProteinBindingSites
TAB CSV GFF3 (for UCSC) SEQ
All GBrowse tracks generated for this experiment:
GBrowse tracks: by chromosome
All entries in public repositories generated by this experiment
There are 13 ChIP-chip submissions for this experiment:
DCC id Name developmental stage antibody strain Embargoed until Features, GBrowse and Data Files
modENCODE_903

E8-12 CBP Set2 Embryo 8-12 h [ALL]
CBP_antibody [ALL] /
target: nejire
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 329   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E8_12_CBP_set2
GEO: GSM637635
GEO: GSM637636
GEO: GSM637637
GEO: GSM637638
GEO: GSM637639
...All entries in public repositories generated by this submission



11 files Download data files
modENCODE_2566

E0-12h HDAC6-497 Embryo 0-12 h [ALL]
HDAC6-497 [ALL]
target: HDAC6
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 5385   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC6_497
GEO: GSM637722
GEO: GSM637723
GEO: GSM637724
GEO: GSM637725
GEO: GSM637726
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2558

E0-12h HDAC11-494 Embryo 0-12 h [ALL]
HDAC11-494 [ALL]
target: Histone deacetylase X
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 7215   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC11_494
GEO: GSM637674
GEO: GSM637675
GEO: GSM637676
GEO: GSM637677
GEO: GSM637678
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2565

E0-12h HDAC6-496 Embryo 0-12 h [ALL]
HDAC6-496 [ALL]
target: HDAC6
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 5709   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC6_496
GEO: GSM637716
GEO: GSM637717
GEO: GSM637718
GEO: GSM637719
GEO: GSM637720
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2560

E0-12h HDAC1-501 Embryo 0-12 h [ALL]
HDAC1-501 [ALL]
target: Rpd3
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 9377   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC1_501
GEO: GSM637686
GEO: GSM637687
GEO: GSM637688
GEO: GSM637689
GEO: GSM637690
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2567

E0-12h HDAC11-495 Embryo 0-12 h [ALL]
HDAC11-495 [ALL]
target: Histone deacetylase X
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 2091   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC11_495
GEO: GSM637728
GEO: GSM637729
GEO: GSM637730
GEO: GSM637731
GEO: GSM637732
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2559

E0-12h HDAC1-500 Embryo 0-12 h [ALL]
HDAC1-500 [ALL]
target: Rpd3
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 9940   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC1_500
GEO: GSM637680
GEO: GSM637681
GEO: GSM637682
GEO: GSM637683
GEO: GSM637684
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2562

E0-12h HDAC3-499 Embryo 0-12 h [ALL]
HDAC3-499 [ALL]
target: Histone deacetylase 3
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 12119   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC3_499
GEO: GSM637698
GEO: GSM637699
GEO: GSM637700
GEO: GSM637701
GEO: GSM637702
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2561

E0-12h HDAC3-498 Embryo 0-12 h [ALL]
HDAC3-498 [ALL]
target: Histone deacetylase 3
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 12111   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC3_498
GEO: GSM637692
GEO: GSM637693
GEO: GSM637694
GEO: GSM637695
GEO: GSM637696
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2564

E0-12h HDAC4a-493 Embryo 0-12 h [ALL]
HDAC4a-493 [ALL]
target: HDAC4
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 7309   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC4a_493
GEO: GSM637710
GEO: GSM637711
GEO: GSM637712
GEO: GSM637713
GEO: GSM637714
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_2563

E0-12h HDAC4a-492 Embryo 0-12 h [ALL]
HDAC4a-492 [ALL]
target: HDAC4
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 8965   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E0-12h_HDAC4a_492
GEO: GSM637704
GEO: GSM637705
GEO: GSM637706
GEO: GSM637707
GEO: GSM637708
...All entries in public repositories generated by this submission



8 files Download data files
modENCODE_905

E12-16 CBP ChIP-chip Embryo 12-16 h [ALL]
CBP_antibody [ALL] /
target: nejire
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 7704   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E12_16_CBP
GEO: GSM637644
GEO: GSM637645
GEO: GSM637646


5 files Download data files
modENCODE_906

E12-16 Pol II ChIP-chip Embryo 12-16 h [ALL]
PolII [ALL] /
target: RNA Polymerase II
yellow cinnabar brown speck [ALL]
embargo expired
ProteinBindingSite: 5786   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
  [find nearby features]
GBrowse tracks: E12_16_PolII
GEO: GSM637647
GEO: GSM637648
GEO: GSM637649
GEO: GSM637650
GEO: GSM637651
...All entries in public repositories generated by this submission



11 files Download data files