Nature Communications (Feb 2023)
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT
- Indranil Paul,
- Dante Bolzan,
- Ahmed Youssef,
- Keith A. Gagnon,
- Heather Hook,
- Gopal Karemore,
- Michael U. J. Oliphant,
- Weiwei Lin,
- Qian Liu,
- Sadhna Phanse,
- Carl White,
- Dzmitry Padhorny,
- Sergei Kotelnikov,
- Christopher S. Chen,
- Pingzhao Hu,
- Gerald V. Denis,
- Dima Kozakov,
- Brian Raught,
- Trevor Siggers,
- Stefan Wuchty,
- Senthil K. Muthuswamy,
- Andrew Emili
Affiliations
- Indranil Paul
- Department of Biochemistry, Boston University School of Medicine, Boston University
- Dante Bolzan
- Department of Computer Science, University of Miami
- Ahmed Youssef
- Graduate Program in Bioinformatics, Boston University
- Keith A. Gagnon
- Department of Biomedical Engineering, Boston University
- Heather Hook
- Department of Biology, Boston University
- Gopal Karemore
- Advanced Analytics, Novo Nordisk A/S
- Michael U. J. Oliphant
- Cancer Research Institute, Department of Medicine, Beth Israel Deaconess Medical Center
- Weiwei Lin
- Department of Biochemistry, Boston University School of Medicine, Boston University
- Qian Liu
- Department of Biochemistry and Medical Genetics, University of Manitoba
- Sadhna Phanse
- Department of Biochemistry, Boston University School of Medicine, Boston University
- Carl White
- Department of Biochemistry, Boston University School of Medicine, Boston University
- Dzmitry Padhorny
- Department of Applied Mathematics and Statistics, Stony Brook University
- Sergei Kotelnikov
- Department of Applied Mathematics and Statistics, Stony Brook University
- Christopher S. Chen
- Department of Biomedical Engineering, Boston University
- Pingzhao Hu
- Department of Biochemistry, Western University
- Gerald V. Denis
- Boston Medical Center Cancer Center, Boston University, Boston University
- Dima Kozakov
- Department of Applied Mathematics and Statistics, Stony Brook University
- Brian Raught
- Discovery Tower (TMDT), 101 College St, Rm. 9-701A, University of Toronto
- Trevor Siggers
- Department of Biology, Boston University
- Stefan Wuchty
- Department of Computer Science, University of Miami
- Senthil K. Muthuswamy
- Laboratory of Cancer Biology and Genetics, Center for Cancer Research, National Cancer Institute, NIH
- Andrew Emili
- Department of Biochemistry, Boston University School of Medicine, Boston University
- DOI
- https://doi.org/10.1038/s41467-023-36122-x
- Journal volume & issue
-
Vol. 14,
no. 1
pp. 1 – 23
Abstract
Epithelial-to-mesenchymal transition (EMT) is a complex process regulated at multiple molecular levels. Here, the authors implement an analytic framework - PAMAF - to integrate data from twelve distinct omics modalities, which they use to understand the molecular changes and regulation during EMT in vitro.
