A Novel Repertoire of Blood Transcriptome Modules Based on Co-expression Patterns Across Sixteen Disease and Physiological States

Altman, M. C.; Rinchai, D.; Baldwin, N.; Whalen, E.; Garand, M.; Kabeer, B. A.; Toufiq, M.; Presnell, S.; Chiche, L.; Jourde-Chiche, N.; Phillips, T.; Klintmalm, G.; O'Garra, A.; Berry, M.; Bloom, C.; Wilkinson, R. J.; Graham, C. M.; Lipman, M.; Lertmemongkolchai, G.; Bedognetti, D.; Kheradmand, F.; Mejias, A.; Ramilo, O.; Palucka, K.; Pascual, V.; Banchereau, J.; Chaussabel, D.

doi:10.1101/525709

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bioRxiv · 10.1101/525709

A Novel Repertoire of Blood Transcriptome Modules Based on Co-expression Patterns Across Sixteen Disease and Physiological States

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Abstract

As the capacity for generating large scale data continues to grow the ability to extract meaningful biological knowledge from it remains a limitation. Here we describe the development of a new fixed repertoire of transcriptional modules. It is meant to serve as a stable reusable framework for the analysis and interpretation of blood transcriptome profiling data. It is supported by customized resources, which include analysis workflows, fingerprint grid plots data visualizations, interactive web applications providing access to a vast number of module-specific functional profiling reports, reference transcriptional profiles and give users the ability to visualize of changes in transcript abundance across the modular repertoire at different granularity levels. A use case focusing on a set of six modules comprising interferon-inducible genes is also provided. Altogether we hope that this resource will also serve as a framework for improving over time our collective understanding of the immunobiology underlying blood transcriptome profiling data.

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Altman, M. C., Rinchai, D., Baldwin, N., Whalen, E., Garand, M., Kabeer, B. A., Toufiq, M., Presnell, S., Chiche, L., Jourde-Chiche, N., Phillips, T., Klintmalm, G., O'Garra, A., Berry, M., Bloom, C., Wilkinson, R. J., Graham, C. M., Lipman, M., Lertmemongkolchai, G., Bedognetti, D., Kheradmand, F., Mejias, A., Ramilo, O., Palucka, K., Pascual, V., Banchereau, J., Chaussabel, D.. 2019-01-23. A Novel Repertoire of Blood Transcriptome Modules Based on Co-expression Patterns Across Sixteen Disease and Physiological States. https://doi.org/10.1101/525709

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