Article
Biochemical Research Methods
Kate E. Dray, Joseph J. Muldoon, Niall M. Mangan, Neda Bagheri, Joshua N. Leonard
Summary: Mathematical modeling is crucial for understanding and designing synthetic biological systems. However, the model development process is complex and nonintuitive, requiring iteration and comparison with experimental data. To address these challenges, we introduce the GAMES workflow, which combines automated and human-in-the-loop processes. This workflow enables biologists to more easily build and analyze models for various applications.
ACS SYNTHETIC BIOLOGY
(2022)
Review
Medicine, Research & Experimental
Lin Zhou, Tian Wang, Yawen Yu, Mingan Li, Xiaohui Sun, Wenhao Song, Yunjie Wang, Ce Zhang, Fenghua Fu
Summary: Approximately one in three ischemic stroke survivors suffer from post-stroke depression (PSD), which affects functional rehabilitation and quality of life. This study focuses on the stroke-induced hyperactivity of the hypothalamic-pituitary-adrenal (HPA) axis and its role in PSD. The review summarizes possible etiologies of PSD, including stress and proinflammatory cytokines release, and discusses the effects of HPA axis hyperactivity on specific brain structures, enzymes expression, excitotoxicity, intestinal permeability, microglial activation, neuroendocrine regulation, inflammation, and therapy options.
BIOMEDICINE & PHARMACOTHERAPY
(2022)
Article
Mathematics
Anastasia I. Lavrova, Dilyara S. Esmedljaeva, Eugene B. Postnikov
Summary: This work addresses a model describing lung damage caused by tuberculosis, taking into account key metabolic pathways controlled by bacteria. The researchers explored the characteristics of the mathematical model by simulating the interaction between biomarkers and the pathogen and compared the model dynamics with real clinical data.
Article
Computer Science, Information Systems
Dawoon Jung, Hyunmin Do, Taeyong Choi, Jongwoo Park, Joono Cheong
Summary: In this paper, a robust method for estimating the parameters of robot manipulators using the torque separation technique is proposed. Mathematical analysis and experimentation verify that this method is more robust than conventional methods, and an iterative scheme is introduced to mitigate parameter estimation errors.
Article
Food Science & Technology
Jesus Miguel Zamudio Lara, Laurent Dewasme, Hector Hernandez Escoto, Alain Vande Wouwer
Summary: Two dynamic models of beer fermentation are proposed in this study, and their parameters are estimated using experimental data. The structural identifiability of the measurement configuration and kinetic model structure is analyzed, and the predictive capability of the model is investigated. The model can be used for monitoring and controlling the beer fermentation process.
Article
Mathematics
Vyacheslav M. Boyko, Michael Kunzinger, Roman O. Popovych
Summary: The well-known solution theory for linear ordinary differential equations changes significantly when introducing an additional real parameter, with properties like the existence of fundamental sets of solutions or characterizations of such sets being sensitive to the topological properties of the underlying domain. By investigating the topological properties of the domain, a complete characterization of the solvability of parameter-dependent equations and systems can be achieved.
JOURNAL OF DIFFERENTIAL EQUATIONS
(2021)
Article
Multidisciplinary Sciences
Daniel Galvis, Eder Zavala, Jamie J. Walker, Thomas Upton, Stafford L. Lightman, Gianni D. Angelini, Jon Evans, Chris A. Rogers, Kirsty Phillips, Ben Gibbison
Summary: Major surgery and critical illness can cause a potentially life-threatening systemic inflammatory response. The hypothalamic-pituitary-adrenal (HPA) axis plays a crucial role in counterbalancing this inflammation through changes in ACTH and cortisol. By studying patients undergoing cardiac surgery, researchers have identified three phenotypes of HPA axis response, each with different physiological mechanisms.
JOURNAL OF THE ROYAL SOCIETY INTERFACE
(2022)
Letter
Biology
Hamed Malek, Mohammad Mehdi Ebadzadeh, Reza Safabakhsh, Alireza Razavi
Summary: The HPA axis generates ultradian rhythms through the pituitary-adrenal network, and can sustain even in the absence of CRH secretion. A two-dimensional delayed dynamical model based on ACTH and cortisol demonstrates the ability to capture low frequency rhythms.
COMPUTERS IN BIOLOGY AND MEDICINE
(2021)
Article
Endocrinology & Metabolism
Johannes M. Hennings, Marcus Ising, Manfred Uhr, Florian Holsboer, Susanne Lucae
Summary: The study found that patients who were weary of life showed an increased response in ACTH and cortisol following stress hormone tests, while there was no significant difference in stress hormone response between suicide attempters and ideators and non-suicidal patients. Repeated suicide attempts in patients' history were associated with more pronounced stress hormone attenuation.
PSYCHONEUROENDOCRINOLOGY
(2021)
Review
Psychiatry
Felim Murphy, Anurag Nasa, Dearbhla Cullinane, Kesidha Raajakesary, Areej Gazzaz, Vitallia Sooknarine, Madeline Haines, Elena Roman, Linda Kelly, Aisling O'Neill, Mary Cannon, Darren William Roddy
Summary: Studies show that early life stress impacts developmental trajectories and can create vulnerability to psychological and psychiatric issues later in life. The mechanisms affecting the developing brain in children and the incorporation of adverse environmental stimuli into the adult brain are important areas of research focus.
FRONTIERS IN PSYCHIATRY
(2022)
Article
Multidisciplinary Sciences
Nina E. Ahlers, Sandra J. Weiss
Summary: The study found that increased prenatal exposure to PM2.5 was associated with more severe depressive symptoms in the third trimester. Greater PM2.5 exposure was also linked to higher cortisol AUCG and average cortisol levels among women, though no cortisol parameter appeared to mediate the relationship between PM2.5 exposure and depressive symptoms.
Article
Biochemistry & Molecular Biology
Sebastien Bullich, Sarah Delcourte, Nasser Haddjeri, Bruno P. Guiard
Summary: The study found that 5d-RFSS mice exhibited strong depressive characteristics in the FST, but the model has limitations in replicating the broad spectrum of depressive symptoms observed in other chronic models. However, it showed a significant impact on the hypothalamic-pituitary-adrenal axis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Environmental Sciences
Jia Luo, Zheng Yan, Yao Shen, Denong Liu, Mingli Su, Jie Yang, Jiarong Xie, Hui Gao, Julin Yang, Aiming Liu
Summary: This study found that chronic low-intensity noise exposure exacerbated NAFLD in mice on a high-fat diet, affecting lipid metabolism and inflammation levels in the liver. Activation of the HPA axis played a critical role in the development of NAFLD, while depression played an intermediate role in exacerbating the condition.
SCIENCE OF THE TOTAL ENVIRONMENT
(2024)
Article
Psychiatry
Ana Teresa D. D'Elia, Mario F. Juruena, Bruno M. Coimbra, Marcelo F. Mello, Andrea F. Mello
Summary: Sexual assault is associated with adverse psychological and physical health outcomes, including PTSD and depression. Neurobiological research has shown variations related to HPA axis, immune alterations, metabolic function, and brain circuitry in individuals with PTSD. The study found that women with PTSD after sexual assault had higher levels of ACTH and cortisol, which increased with symptom severity, especially in those with comorbid depression.
Review
Neurosciences
Joanna Mikulska, Gabriela Juszczyk, Monika Gawronska-Grzywacz, Mariola Herbet
Summary: The HPA axis is implicated in the pathophysiology of neuropsychiatric disorders like depression and schizophrenia. Increased HPA axis activity is associated with chronic stress and depression, with a correlation to gut microbiota. New therapeutic strategies for depression and schizophrenia involve targeting the HPA axis.
Article
Biology
Johnny T. Ottesen, Rasmus K. Pedersen, Zamra Sajid, Johanne Gudmand-Hoeyer, Katrine O. Bangsgaard, Vibe Skov, Lasse Kjaer, Trine A. Knudsen, Niels Pallisgaard, Hans C. Hasselbalch, Morten Andersen
JOURNAL OF THEORETICAL BIOLOGY
(2019)
Article
Hematology
Marc J. B. Dam, Rasmus K. Pedersen, Trine A. Knudsen, Morten Andersen, Vibe Skov, Lasse Kjaer, Hans C. Hasselbalch, Johnny T. Ottesen
Summary: The study suggests that for patients with myeloproliferative neoplasms (MPNs), treatment with Hydroxyurea does not lead to a sustained decrease in the JAK2V617F allele burden or sustained normalization of elevated cell counts.
EUROPEAN JOURNAL OF HAEMATOLOGY
(2021)
Article
Oncology
Johnny T. Ottesen, Morten Andersen
Summary: This study presents and analyzes a novel mechanism-based computational model coupling cancer and infection to the adaptive immune system. The research finds that the progression of cancer and the effectiveness of treatments depend on various factors, including cancer burden, infection level, and adaptive immune system efficiency. Early treatment is crucial for disease remission. CAR T-cell Immunotherapy shows improved efficacy when combined with antibiotics or immunomodulation.
Article
Oncology
Marc J. B. Dam, Rasmus K. Pedersen, Trine A. Knudsen, Morten Andersen, Christina Ellervik, Morten Kranker Larsen, Lasse Kjaer, Vibe Skov, Hans C. Hasselbalch, Johnny T. Ottesen
Summary: This study describes a novel index for assessing hematological and molecular responses in MPN patients during treatment with IFN or HU. The results demonstrate the superiority of IFN over HU in normalizing cell counts. Further validation and studies on the safety and efficacy of combination therapy are warranted.
Article
Cell & Tissue Engineering
Rasmus Kristoffer Pedersen, Morten Andersen, Vibe Skov, Lasse Kjaer, Hans C. Hasselbalch, Johnny T. Ottesen, Thomas Stiehl
Summary: The hematopoietic stem cell niche plays a crucial role in regeneration and malignancy. A mathematical model is developed to investigate the interactions between the niche and hematopoietic and malignant stem cells, providing insights into clinically relevant scenarios and potential therapeutic interventions.
Article
Biology
M. Andersen, K. O. Bangsgaard, J. G. Heaf, J. T. Ottesen
Summary: Chronic kidney diseases require ongoing toxin removal, and hemodialysis is the preferred treatment. We have derived analytical expressions for phosphate clearance during dialysis, including a single pass (SP) model and a multi pass (MP) model. The models were calibrated using clinical data and showed consistent results, providing estimates for kinetic parameters. The formulas also explain the observed rebound effect after dialysis.
JOURNAL OF MATHEMATICAL BIOLOGY
(2023)
Article
Biology
Andrei A. Domogo, Peter Reinstrup, Johnny T. Ottesen
Summary: We developed a mathematical model based on the laws of physics to explain the morphology of the intracranial pressure curve. The model accurately predicted patient-specific intracranial pressure curves and identified pathological peak patterns associated with physiological parameters.
JOURNAL OF THEORETICAL BIOLOGY
(2023)
Review
Cell & Tissue Engineering
Rasmus K. Pedersen, Morten Andersen, Thomas Stiehl, Johnny T. Ottesen
Summary: This review discusses the importance of mathematical modeling and computer simulations in studying the dynamics of hematopoietic stem cells (HSCs) and their impact on healthy blood cell formation. It highlights the significant contributions that mathematical modeling can make in understanding and treating hematologic malignancies.
CURRENT STEM CELL REPORTS
(2023)
Article
Oncology
Johnny T. Ottesen, Morten Andersen
Summary: This study proposes a conceptual model to explain cancer escape and other clinical and epidemiological observations. The model suggests that insufficient immune response can lead to the development of cancer from a pre-cancerous state, and age and chronic inflammatory diseases increase the risk of cancer. The findings are general and provide insights into the understanding of cancer progression.
Article
Multidisciplinary Sciences
Justen R. Geddes, Johnny T. Ottesen, Jesper Mehlsen, Mette S. Olufsen
Summary: This study predicts the dynamics of blood pressure and heart rate in patients with POTS using a cardiovascular compartment model, demonstrating the possibility to simulate different types of POTS patients by modulating baroreflex sensitivity and control parameters.
JOURNAL OF THE ROYAL SOCIETY INTERFACE
(2022)
Article
Management
Zamra Sajid, Morten Andersen, Johnny T. Ottesen
Summary: Blood production is a tightly regulated process, and disturbances can pose a severe risk to human health. The PV model with competing healthy and malignant cells, including erythropoietin (EPO), analyzed the production of EPO and its influence on erythrocytes. Stem cell dynamics can be independently analyzed as a two-dimensional system, with numerical analysis showing agreement with the PV model.
SYSTEM DYNAMICS REVIEW
(2020)
Article
Biology
Elisabeth O. Bangsgaard, Poul G. Hjorth, Mette S. Olufsen, Jesper Mehlsen, Johnny T. Ottesen
BULLETIN OF MATHEMATICAL BIOLOGY
(2017)
