Comparison of sample preparation methods for ChIP-chip assays.

@article{OGeen2006ComparisonOS,
  title={Comparison of sample preparation methods for ChIP-chip assays.},
  author={Henriette O'Geen and Charles Meyer Nicolet and Kim Blahnik and Roland Green and Peggy J. Farnham},
  journal={BioTechniques},
  year={2006},
  volume={41 5},
  pages={
          577-80
        }
}
A single chromatin immunoprecipitation (ChIP) sample does not provide enough DNA for hybridization to a genomic tiling array. A commonly used technique for amplifying the DNA obtained from ChIP assays is ligation-mediated PCR (LM-PCR). However; using this amplification method, we could not identify Oct4 binding sites on genomic tiling arrays representing 1% of the human genome (ENCODE arrays). In contrast, hybridization of a pool of 10 ChIP samples to the arrays produced reproducible binding… CONTINUE READING

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References

Publications referenced by this paper.
SHOWING 1-9 OF 9 REFERENCES

Suz 12 silences large regions of the genome in a cell type - specific manner

D. Inman
  • Genome Res .
  • 2006

A high - resolution map of active promoters in the human genome

J. Tsao, P. Yau, P. J. Farnham
  • Nature
  • 2005

High throughput screening of chromatin immunoprecipitates using CpG island microarrays

R. Green
  • Methods Enzymol .
  • 2004

E 2 F 6 negatively regulates BRCA 1 in human cancer cells without methylation of histone H 3 on lysine 9

M. Cechvala, T. Huang, P. J. Farnham
  • J . Biol . Chem .
  • 2003

Identification of novel pRb binding sites using CpG microarrays suggests that E 2 F recruits pRb to specific genomic sties during S phase

T. H.-M. Huang, P. J. Farnham
  • Oncogene
  • 2003