Histone Modifications (H3K79) ChIP-chip arrays

Lieb AB3594_H3K79ME2346021_N2_MXEMB (Lieb project, Lieb subgroup)

Synchronized C. elegans mixed embryos from strain N2 were treated with the cross-linking reagent formaldehyde. Sonicated chromatin was prepared and immunoprecipitated with an affinity-purified polyclonal antibody that recognizes histone H3 dimethylated on lysine 79. After whole genome amplification, NimbleGen genomic tiling microarrays were used in two-color hybridization experiments to compare the signal from the input DNA versus the fragments pulled-down in the ChIP. Normalized log2(ratios) are shown in this track.



General Description

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.

Protocols

  1. Growth and isolation: Worm L3 extraction:JL:PK1, Worm embryo extraction:JL:SS2, Worm embryo growth and harvest:JL:SS3, Worm L3 growth and harvest:JL:PK1, Worm embryo growth and harvest:JL:5, Worm embryo growth and harvest:JL:SS4, Worm embryo extraction:JL:2
  2. Sample preparation: Worm LM-PCR Amplification for ChIP-chip:JL:IL1, Worm Chromatin Immunoprecipitation:JL:MBJ6, ChIP-chip scanning nimblegen:JL:1, Worm Chromatin Immunoprecipitation:JL:PK1, ChIP-chip label hyb nimblegen:JL:1, ChIP-chip scanning nimblegen:JL:1, Worm LM-PCR Amplification for ChIP-chip:JL:SS2, ChIP-chip scanning nimblegen:JL:2, Worm chromatin immunoprecipitation:JL:IL2, Worm Chromatin Immunoprecipitation:JL:SS4, Worm LM-PCR Amplification:JL:MBJ1, ChIP-chip label hyb nimblegen:JL:2
  3. Other Protocols: ChIP-chip normalization standard zscore:JL:2, ChIP-chip normalization standard nimblegen:JL:1, ChIP-chip peak finding over reps MA2C:JL:1, ChIP-chip normalization standard zscore:JL:2, ChIP-chip peak finding MA2C:JL:1, ChIP-chip normalization standard MA2C:JL:2

Sample Details

  1. Animals/Lines: Early Stage Embryos

  1. Antibodies: AB3594 H3K79me2:346021, AB8898 H3K9ME3:339901, AB2621 H3K79me3:361576


  1. Arrays: 080922_MODENCODE_CE_CHIP_HX1


Release Date: 2010-06-21