A Comparative Transcriptomics Workflow for Analyzing Microarray Data From CHO Cell Cultures

A Comparative Transcriptomics Workflow for Analyzing Microarray Data From CHO Cell Cultures IntroductionChinese hamster ovary (CHO) cells are the predominant cellular factories used in the biopharmaceutical industry for recombinant protein production due to the human‐like glycosylation properties. Despite the success of empirical approaches toward process development around CHO cells over the past few decades, mechanism‐driven approaches are more impactful to understand multi‐dimensional relationships between critical quality attributes (CQAs) and critical process parameters (CPPs) which is essential for modulating product quality to meet comparability and biosimilarity. To enable mechanism‐driven cell line engineering and bioprocess optimization, a comprehensive understanding of the molecular mechanisms beyond CHO cell physiology is necessary. One avenue to obtain this understanding is through omics approaches which characterize the building blocks within CHO cells including genes, mRNAs, proteins, metabolites, and the interactions among these components.DNA microarray technology is a well‐established omics tool for gene expression profiling in species with sequenced genomes. The lack of annotated sequence data for CHO cells has limited the establishment of a robust CHO‐specific microarray platform. In the past, there have been attempts to build custom CHO microarrays using publicly available and/or proprietary CHO transcriptome sequences. For example, Hu et al. developed a CHO microarray covering 2602 unique transcripts using EST sequencing. A similar CHO microarray http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Biotechnology Journal Wiley

A Comparative Transcriptomics Workflow for Analyzing Microarray Data From CHO Cell Cultures

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Publisher
Wiley
Copyright
© 2018 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim
ISSN
1860-6768
eISSN
1860-7314
D.O.I.
10.1002/biot.201700228
Publisher site
See Article on Publisher Site

Abstract

IntroductionChinese hamster ovary (CHO) cells are the predominant cellular factories used in the biopharmaceutical industry for recombinant protein production due to the human‐like glycosylation properties. Despite the success of empirical approaches toward process development around CHO cells over the past few decades, mechanism‐driven approaches are more impactful to understand multi‐dimensional relationships between critical quality attributes (CQAs) and critical process parameters (CPPs) which is essential for modulating product quality to meet comparability and biosimilarity. To enable mechanism‐driven cell line engineering and bioprocess optimization, a comprehensive understanding of the molecular mechanisms beyond CHO cell physiology is necessary. One avenue to obtain this understanding is through omics approaches which characterize the building blocks within CHO cells including genes, mRNAs, proteins, metabolites, and the interactions among these components.DNA microarray technology is a well‐established omics tool for gene expression profiling in species with sequenced genomes. The lack of annotated sequence data for CHO cells has limited the establishment of a robust CHO‐specific microarray platform. In the past, there have been attempts to build custom CHO microarrays using publicly available and/or proprietary CHO transcriptome sequences. For example, Hu et al. developed a CHO microarray covering 2602 unique transcripts using EST sequencing. A similar CHO microarray

Journal

Biotechnology JournalWiley

Published: Jan 1, 2018

Keywords: ; ; ; ;

References

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