The challenge of gene expression profiling in heterogeneous clinical samples

F. German Rodriguez-Gonzalez; Dana A.M. Mustafa; Bianca Mostert; Anieta M. Sieuwerts

doi:10.1016/j.ymeth.2012.05.005

The challenge of gene expression profiling in heterogeneous clinical samples

F. German Rodriguez-Gonzalez, Dana A.M. Mustafa, Bianca Mostert, Anieta M. Sieuwerts^*

^*Corresponding author for this work

Research output: Contribution to journal › Review article › Academic › peer-review

15 Citations (Scopus)

Abstract

Almost all samples used in tumor biology, such as tissues and bodily fluids, are heterogeneous, i.e., consist of different cell types. Evaluating the degree of heterogeneity in samples can increase our knowledge on processes such as clonal selection and metastasis. In addition, generating expression profiles from specific sub populations of cells can reveal their distinct functions. Tissue heterogeneity also poses a challenge, as it can confound the interpretation of gene expression data. This chapter will (1) give a brief overview on how heterogeneity may influence gene expression profiling data and (2) describe the methods that are currently available to assess transcriptional biomarkers in a heterogeneous cell population.

Original language	English
Pages (from-to)	47-58
Number of pages	12
Journal	Methods
Volume	59
Issue number	1
DOIs	https://doi.org/10.1016/j.ymeth.2012.05.005
Publication status	Published - Jan 2013

Bibliographical note

Funding Information:
The authors were supported in part by the 7th Framework Program Cooperation Project Breast Cancer Somatic Genetics Study (BASIS, Grant 242006 ), the Dutch Cancer Society (KWF Grant EMCR 2009-4553 ) and The Netherlands Genomics Initiative (NGI)/Netherlands Organization for Scientific Research (NWO).

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abstract = "Almost all samples used in tumor biology, such as tissues and bodily fluids, are heterogeneous, i.e., consist of different cell types. Evaluating the degree of heterogeneity in samples can increase our knowledge on processes such as clonal selection and metastasis. In addition, generating expression profiles from specific sub populations of cells can reveal their distinct functions. Tissue heterogeneity also poses a challenge, as it can confound the interpretation of gene expression data. This chapter will (1) give a brief overview on how heterogeneity may influence gene expression profiling data and (2) describe the methods that are currently available to assess transcriptional biomarkers in a heterogeneous cell population.",

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N2 - Almost all samples used in tumor biology, such as tissues and bodily fluids, are heterogeneous, i.e., consist of different cell types. Evaluating the degree of heterogeneity in samples can increase our knowledge on processes such as clonal selection and metastasis. In addition, generating expression profiles from specific sub populations of cells can reveal their distinct functions. Tissue heterogeneity also poses a challenge, as it can confound the interpretation of gene expression data. This chapter will (1) give a brief overview on how heterogeneity may influence gene expression profiling data and (2) describe the methods that are currently available to assess transcriptional biomarkers in a heterogeneous cell population.

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The challenge of gene expression profiling in heterogeneous clinical samples

Abstract

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