ArticleProceedings of the National Academy of Sciences of the United States of America2014
Surprisal analysis characterizes the free energy time course of cancer cells undergoing epithelial-to-mesenchymal transition.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
What it found
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
35 citing papers in PubMed, 61 citations in OpenAlex.
- Trial
- Signalling Entropy Across Measurement Scales: A Compositional Dilution Lemma and Cross-Modality Invariance for Information-Theoretic Analysis of Cancer Transcriptomes.Entropy (Basel, Switzerland) · 2026Article
- Multiomic State-Transitions Reveal Post-Treatment Transcriptome Desynchronization in Acute Myeloid Leukemia.bioRxiv : the preprint server for biology · 2026Article
- Sequential transcriptional waves and NF-κB-driven chromatin remodeling direct drug-induced dedifferentiation in cancer.Nature communications · 2026Article
- The ubiquitin ligase KLHL6 drives resistance to CD8Nature · 2026Article
- Phenotype structuring in collective cell migration: a tutorial of mathematical models and methods.Journal of mathematical biology · 2025Review
- SurprisalAnalysis: an open-source software for information-theoretic analysis of gene expression.Bioinformatics advances · 2025Article
- Kinetic Trajectories of Glucose Uptake in Single Cancer Cells Reveal a Drug-Induced Cell-State Change Within Hours of Drug Treatment.The journal of physical chemistry. B · 2024Article
- Epithelial-mesenchymal plasticity in cancer: signaling pathways and therapeutic targets.MedComm · 2024Review
- The essence of phase transitions in condensed matter by an information theoretic approach.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- SCA: recovering single-cell heterogeneity through information-based dimensionality reduction.Genome biology · 2023Article
- Fame through surprise: How fame-seeking mass shooters diversify their attacks.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Regulation of TGF-Cancers · 2022Article
- The Role ofCancers · 2022Review
- Transcriptional census of epithelial-mesenchymal plasticity in cancer.Science advances · 2022Article
- Article
- TMEA: A Thermodynamically Motivated Framework for Functional Characterization of Biological Responses to System Acclimation.Entropy (Basel, Switzerland) · 2020Article
- Thermodynamic energetics underlying genomic instability and whole-genome doubling in cancer.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- State-Transition Analysis of Time-Sequential Gene Expression Identifies Critical Points That Predict Development of Acute Myeloid Leukemia.Cancer research · 2020Article
- TGFβ-induced metabolic reprogramming during epithelial-to-mesenchymal transition in cancer.Cellular and molecular life sciences : CMLS · 2020Review
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The epithelial-to-mesenchymal transition (EMT) initiates the invasive and metastatic behavior of many epithelial cancers. Mechanisms underlying EMT are not fully known. Surprisal analysis of mRNA time course data from lung and pancreatic cancer cells stimulated to undergo TGF-β1-induced EMT identifies two phenotypes. Examination of the time course for these phenotypes reveals that EMT reprogramming is a multistep process characterized by initiation, maturation, and stabilization stages that correlate with changes in cell metabolism. Surprisal analysis characterizes the free energy time course of the expression levels throughout the transition in terms of two state variables. The landscape of the free energy changes during the EMT for the lung cancer cells shows a stable intermediate state. Existing data suggest this is the previously proposed maturation stage. Using a single-cell ATP assay, we demonstrate that the TGF-β1-induced EMT for lung cancer cells, particularly during the maturation stage, coincides with a metabolic shift resulting in increased cytosolic ATP levels. Surprisal analysis also characterizes the absolute expression levels of the mRNAs and thereby examines the homeostasis of the transcription system during EMT.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.