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Journal Articles Nature Communications Year : 2021

Development of a fixed module repertoire for the analysis and interpretation of blood transcriptome data

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Darawan Rinchai
Mohammed Toufiq
Scott R Presnell
Rodolphe Thiebaut
Farrah Kheradmand
Asuncion Mejias
Octavio Ramilo

Abstract

As the capacity for generating large-scale molecular profiling 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, BloodGen3, that is designed to serve as a stable reusable framework for the analysis and interpretation of blood transcriptome data. The construction of this repertoire is based on co-clustering patterns observed across sixteen immunological and physiological states encompassing 985 blood transcriptome profiles. Interpretation is supported by customized resources, including module-level analysis workflows, fingerprint grid plot visualizations, interactive web applications and an extensive annotation framework comprising functional profiling reports and reference transcriptional profiles. Taken together, this well-characterized and well-supported transcriptional module repertoire can be employed for the interpretation and benchmarking of blood transcriptome profiles within and across patient cohorts. Blood transcriptome fingerprints for the 16 reference cohorts can be accessed interactively via: https://drinchai.shinyapps.io/BloodGen3Module/ .

Dates and versions

hal-03481522 , version 1 (15-12-2021)

Licence

Attribution - CC BY 4.0

Identifiers

Cite

Matthew C Altman, Darawan Rinchai, Nicole Baldwin, Mohammed Toufiq, Elizabeth Whalen, et al.. Development of a fixed module repertoire for the analysis and interpretation of blood transcriptome data. Nature Communications, 2021, 12 (1), ⟨10.1038/s41467-021-24584-w⟩. ⟨hal-03481522⟩
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