TY - JOUR
T1 - Development of a fixed module repertoire for the analysis and interpretation of blood transcriptome data
AU - Altman, Matthew C.
AU - Rinchai, Darawan
AU - Baldwin, Nicole
AU - Toufiq, Mohammed
AU - Whalen, Elizabeth
AU - Garand, Mathieu
AU - Syed Ahamed Kabeer, Basirudeen
AU - Alfaki, Mohamed
AU - Presnell, Scott R.
AU - Khaenam, Prasong
AU - Ayllón-Benítez, Aaron
AU - Mougin, Fleur
AU - Thébault, Patricia
AU - Chiche, Laurent
AU - Jourde-Chiche, Noemie
AU - Phillips, J. Theodore
AU - Klintmalm, Goran
AU - O’Garra, Anne
AU - Berry, Matthew
AU - Bloom, Chloe
AU - Wilkinson, Robert J.
AU - Graham, Christine M.
AU - Lipman, Marc
AU - Lertmemongkolchai, Ganjana
AU - Bedognetti, Davide
AU - Thiebaut, Rodolphe
AU - Kheradmand, Farrah
AU - Mejias, Asuncion
AU - Ramilo, Octavio
AU - Palucka, Karolina
AU - Pascual, Virginia
AU - Banchereau, Jacques
AU - Chaussabel, Damien
N1 - Publisher Copyright:
© 2021, The Author(s).
PY - 2021/12/1
Y1 - 2021/12/1
N2 - 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/.
AB - 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/.
UR - http://www.scopus.com/inward/record.url?scp=85110882944&partnerID=8YFLogxK
U2 - 10.1038/s41467-021-24584-w
DO - 10.1038/s41467-021-24584-w
M3 - Article
C2 - 34282143
AN - SCOPUS:85110882944
SN - 2041-1723
VL - 12
JO - Nature communications
JF - Nature communications
IS - 1
M1 - 4385
ER -