Chromatin immunoprecipitation assays: application of ChIP-on-chip for defining dynamic transcriptional mechanisms in bone cells.

Margaretha van der Deen, Mohammad Q. Hassan, Jitesh Pratap, Nadiya M. Teplyuk, Daniel W. Young, Amjad Javed, Sayyed K. Zaidi, Jane B. Lian, Martin Montecino, Janet L. Stein, Gary S. Stein, Andre J. van Wijnen

Resultado de la investigación: Article

Resumen

Normal cell growth and differentiation of bone cells requires the sequential expression of cell type specific genes to permit lineage specification and development of cellular phenotypes. Transcriptional activation and repression of distinct sets of genes support the anabolic functions of osteoblasts and the catabolic properties of osteoclasts. Furthermore, metastasis of tumors to the bone environment is controlled by transcriptional mechanisms. Insights into the transcriptional regulation of genes in bone cells may provide a conceptual basis for improved therapeutic approaches to treat bone fractures, genetic osteopathologies, and/or cancer metastases to bone. Chromatin immunoprecipitation (ChIP) is a powerful technique to establish in vivo binding of transcription factors to the promoters of genes that are either activated or repressed in bone cells. Combining ChIP with genomic microarray analysis, colloquially referred to as "ChIP-on-chip," has become a valuable method for analysis of endogenous protein/DNA interactions. This technique permits assessment of chromosomal binding sites for transcription factors or the location of histone modifications at a genomic scale. This chapter discusses protocols for performing chromatin immunoprecipitation experiments, with a focus on ChIP-on-chip analysis. The information presented is based on the authors' experience with defining interactions of Runt-related (RUNX) transcription factors with bone-related genes within the context of the native nucleosomal organization of intact osteoblastic cells.

Idioma originalEnglish
Páginas (desde-hasta)165-176
Número de páginas12
PublicaciónMethods in molecular biology (Clifton, N.J.)
Volumen455
EstadoPublished - 2008

Huella dactilar

Chromatin Immunoprecipitation
Bone and Bones
Transcription Factors
Genes
Histone Code
Neoplasm Metastasis
Controlled Environment
Bone Development
Bone Fractures
Osteoclasts
Microarray Analysis
Osteoblasts
Transcriptional Activation
Cell Differentiation
Neoplasms
Binding Sites
Phenotype
DNA
Proteins

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

Citar esto

van der Deen, M., Hassan, M. Q., Pratap, J., Teplyuk, N. M., Young, D. W., Javed, A., ... van Wijnen, A. J. (2008). Chromatin immunoprecipitation assays: application of ChIP-on-chip for defining dynamic transcriptional mechanisms in bone cells. Methods in molecular biology (Clifton, N.J.), 455, 165-176.
van der Deen, Margaretha ; Hassan, Mohammad Q. ; Pratap, Jitesh ; Teplyuk, Nadiya M. ; Young, Daniel W. ; Javed, Amjad ; Zaidi, Sayyed K. ; Lian, Jane B. ; Montecino, Martin ; Stein, Janet L. ; Stein, Gary S. ; van Wijnen, Andre J. / Chromatin immunoprecipitation assays : application of ChIP-on-chip for defining dynamic transcriptional mechanisms in bone cells. En: Methods in molecular biology (Clifton, N.J.). 2008 ; Vol. 455. pp. 165-176.
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abstract = "Normal cell growth and differentiation of bone cells requires the sequential expression of cell type specific genes to permit lineage specification and development of cellular phenotypes. Transcriptional activation and repression of distinct sets of genes support the anabolic functions of osteoblasts and the catabolic properties of osteoclasts. Furthermore, metastasis of tumors to the bone environment is controlled by transcriptional mechanisms. Insights into the transcriptional regulation of genes in bone cells may provide a conceptual basis for improved therapeutic approaches to treat bone fractures, genetic osteopathologies, and/or cancer metastases to bone. Chromatin immunoprecipitation (ChIP) is a powerful technique to establish in vivo binding of transcription factors to the promoters of genes that are either activated or repressed in bone cells. Combining ChIP with genomic microarray analysis, colloquially referred to as {"}ChIP-on-chip,{"} has become a valuable method for analysis of endogenous protein/DNA interactions. This technique permits assessment of chromosomal binding sites for transcription factors or the location of histone modifications at a genomic scale. This chapter discusses protocols for performing chromatin immunoprecipitation experiments, with a focus on ChIP-on-chip analysis. The information presented is based on the authors' experience with defining interactions of Runt-related (RUNX) transcription factors with bone-related genes within the context of the native nucleosomal organization of intact osteoblastic cells.",
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van der Deen, M, Hassan, MQ, Pratap, J, Teplyuk, NM, Young, DW, Javed, A, Zaidi, SK, Lian, JB, Montecino, M, Stein, JL, Stein, GS & van Wijnen, AJ 2008, 'Chromatin immunoprecipitation assays: application of ChIP-on-chip for defining dynamic transcriptional mechanisms in bone cells.', Methods in molecular biology (Clifton, N.J.), vol. 455, pp. 165-176.

Chromatin immunoprecipitation assays : application of ChIP-on-chip for defining dynamic transcriptional mechanisms in bone cells. / van der Deen, Margaretha; Hassan, Mohammad Q.; Pratap, Jitesh; Teplyuk, Nadiya M.; Young, Daniel W.; Javed, Amjad; Zaidi, Sayyed K.; Lian, Jane B.; Montecino, Martin; Stein, Janet L.; Stein, Gary S.; van Wijnen, Andre J.

En: Methods in molecular biology (Clifton, N.J.), Vol. 455, 2008, p. 165-176.

Resultado de la investigación: Article

TY - JOUR

T1 - Chromatin immunoprecipitation assays

T2 - application of ChIP-on-chip for defining dynamic transcriptional mechanisms in bone cells.

AU - van der Deen, Margaretha

AU - Hassan, Mohammad Q.

AU - Pratap, Jitesh

AU - Teplyuk, Nadiya M.

AU - Young, Daniel W.

AU - Javed, Amjad

AU - Zaidi, Sayyed K.

AU - Lian, Jane B.

AU - Montecino, Martin

AU - Stein, Janet L.

AU - Stein, Gary S.

AU - van Wijnen, Andre J.

PY - 2008

Y1 - 2008

N2 - Normal cell growth and differentiation of bone cells requires the sequential expression of cell type specific genes to permit lineage specification and development of cellular phenotypes. Transcriptional activation and repression of distinct sets of genes support the anabolic functions of osteoblasts and the catabolic properties of osteoclasts. Furthermore, metastasis of tumors to the bone environment is controlled by transcriptional mechanisms. Insights into the transcriptional regulation of genes in bone cells may provide a conceptual basis for improved therapeutic approaches to treat bone fractures, genetic osteopathologies, and/or cancer metastases to bone. Chromatin immunoprecipitation (ChIP) is a powerful technique to establish in vivo binding of transcription factors to the promoters of genes that are either activated or repressed in bone cells. Combining ChIP with genomic microarray analysis, colloquially referred to as "ChIP-on-chip," has become a valuable method for analysis of endogenous protein/DNA interactions. This technique permits assessment of chromosomal binding sites for transcription factors or the location of histone modifications at a genomic scale. This chapter discusses protocols for performing chromatin immunoprecipitation experiments, with a focus on ChIP-on-chip analysis. The information presented is based on the authors' experience with defining interactions of Runt-related (RUNX) transcription factors with bone-related genes within the context of the native nucleosomal organization of intact osteoblastic cells.

AB - Normal cell growth and differentiation of bone cells requires the sequential expression of cell type specific genes to permit lineage specification and development of cellular phenotypes. Transcriptional activation and repression of distinct sets of genes support the anabolic functions of osteoblasts and the catabolic properties of osteoclasts. Furthermore, metastasis of tumors to the bone environment is controlled by transcriptional mechanisms. Insights into the transcriptional regulation of genes in bone cells may provide a conceptual basis for improved therapeutic approaches to treat bone fractures, genetic osteopathologies, and/or cancer metastases to bone. Chromatin immunoprecipitation (ChIP) is a powerful technique to establish in vivo binding of transcription factors to the promoters of genes that are either activated or repressed in bone cells. Combining ChIP with genomic microarray analysis, colloquially referred to as "ChIP-on-chip," has become a valuable method for analysis of endogenous protein/DNA interactions. This technique permits assessment of chromosomal binding sites for transcription factors or the location of histone modifications at a genomic scale. This chapter discusses protocols for performing chromatin immunoprecipitation experiments, with a focus on ChIP-on-chip analysis. The information presented is based on the authors' experience with defining interactions of Runt-related (RUNX) transcription factors with bone-related genes within the context of the native nucleosomal organization of intact osteoblastic cells.

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M3 - Article

C2 - 18463819

VL - 455

SP - 165

EP - 176

JO - Methods in molecular biology (Clifton, N.J.)

JF - Methods in molecular biology (Clifton, N.J.)

SN - 1064-3745

ER -