A5034211199- Gene Regulatory Network Analysis
- Microbial Metabolic Engineering and Bioproduction
- Bacterial Genetics and Biotechnology
- RNA and protein synthesis mechanisms
- Systemic Lupus Erythematosus Research
- Photosynthetic Processes and Mechanisms
- Rheumatoid Arthritis Research and Therapies
- Bioinformatics and Genomic Networks
- Erythrocyte Function and Pathophysiology
- Monoclonal and Polyclonal Antibodies Research
- Genomics and Phylogenetic Studies
- Amyloidosis: Diagnosis, Treatment, Outcomes
- DNA Repair Mechanisms
- Neonatal Health and Biochemistry
- Algal biology and biofuel production
- Light effects on plants
- Cytokine Signaling Pathways and Interactions
- Interstitial Lung Diseases and Idiopathic Pulmonary Fibrosis
- Protein Structure and Dynamics
- Pancreatic function and diabetes
- Cell Image Analysis Techniques
- Autoimmune and Inflammatory Disorders Research
- Hepatitis Viruses Studies and Epidemiology
- Scientific Computing and Data Management
- Metabolism, Diabetes, and Cancer
Kyoto University
2007-2025
Tenri Hospital
2019-2022
Keio University
2000-2012
Keio University Shonan Fujisawa
2000-2007
Nara Institute of Science and Technology
2007
Kyushu Institute of Technology
2007
Bioinformatics Institute
2000
Urawa University
1994
Saitama University
1994
Toray (United States)
1992
Abstract Motivation: Molecular biotechnology now makes it possible to build elaborate systems models, but the biology community needs information standards if models are be shared, evaluated and developed cooperatively. Results: We summarize Systems Biology Markup Language (SBML) Level 1, a free, open, XML-based format for representing biochemical reaction networks. SBML is software-independent language describing common research in many areas of computational biology, including cell...
Analysis of cellular components at multiple levels biological information can provide valuable functional insights. We performed high-throughput measurements to study the response Escherichia coli cells genetic and environmental perturbations. metabolic enzyme gene disruptants revealed unexpectedly small changes in messenger RNA proteins for most disruptants. Overall, metabolite were also stable, reflecting rerouting fluxes network. In contrast, E. actively regulated maintain a stable state...
Abstract Summary: A new version of the E-Cell simulation system, which runs on Windows as well Linux, has been released free software under terms GNU General Public License. Availability: Downloadable from http://www.E-Cell.org
Reports on dermatomyositis (DM) sine dermatitis (DMSD) are scarce, and the concept of disease has not been widely accepted.To confirm existence DMSD, determine its prevalence, characterize serologic features.This is a cohort study that reviewed clinical information, laboratory data, muscle pathology slides from January 2009 to August 2019. We further assessed follow-up data 14 patients with DMSD. The median (interquartile range) period was 34 (16-64) months. Muscle biopsy samples, along...
When erythrocytes are exposed to hypoxia, hemoglobin (Hb) stabilizes in the T-state by capturing 2,3-bisphosphoglycerate. This process could reduce intracellular pool of glycolytic substrates, jeopardizing cellular energetics. Recent observations suggest that hypoxia-induced activation enzymes is correlated with their release from Band III (BIII) on cell membrane. Based these data, we developed a mathematical model erythrocyte metabolism and compared differences predicted activities enzymes,...
Polyunsaturated fatty acids (PUFAs) are healthy fats that contain a double carbon bond. They made up of omega (ω)-3 and ω-6 PUFAs, where ω-3 PUFAs exhibit beneficial effects, such as the suppression cardiovascular events improvement abnormal lipid metabolism. Though, their effects on rheumatoid arthritis (RA) unclear. Epoxy (EpFAs), which intermediate metabolites formed through action cytochrome P possess anti-inflammatory properties. However, they quickly converted into inactive forms by...
Ozoralizumab (OZR) is a next-generation anti-TNF NANOBODY® compound. The primary objective was to evaluate the efficacy of OZR in patients with rheumatoid arthritis (RA) varying factor (RF) and anti-citrullinated peptide antibody (ACPA) titres. secondary changes RF ACPA titres following treatment. A post hoc analysis conducted on data from Phase II/III OHZORA trial, which included 381 Japanese RA who were treated either 30 or 80 mg over 52 weeks after demonstrating an inadequate response...
Methemoglobin (metHb), an oxidized form of hemoglobin, is unable to bind and carry oxygen. Erythrocytes are continuously subjected oxidative stress nitrite exposure, which results in the spontaneous formation metHb. To avoid accumulation metHb, reductive pathways mediated by cytochrome b 5 or flavin, coupled with NADH‐dependent NADPH‐dependent metHb reductases, respectively, keep level erythrocytes at less than 1% total hemoglobin under normal conditions. In this work, a mathematical model...
Abstract Objectives Anaemia, a common comorbidity of RA, is related to high disease activity and poor prognosis. It unknown which biologic/targeted synthetic (b/ts)-DMARDs are optimal for patients with anaemia RA in regulating controlling activity. Methods We investigated the change haemoglobin (Hb) levels, drug retention rates activities after administration b/ts-DMARDs different modes action [TNF inhibitors (TNFis), immunoglobulin fused cytotoxic T-lymphocyte antigen (CTLA-4-Ig), IL-6...
In the cyanobacterium, Synechococcus elongatus, most promoters are regulated by a circadian clock under continuous light (LL) conditions. Nevertheless, basic oscillation is primarily generated alternating KaiC phosphorylation/dephosphorylation reactions at posttranslational level. Indeed, phosphorylation cycle was recently reconstituted in vitro incubating KaiA, KaiB, and proteins with ATP. However, molecular dynamics of this chemical mechanism that drives transcription/translation rhythms...
Abstract Background Cell simulation, which aims to predict the complex and dynamic behavior of living cells, is becoming a valuable tool. In silico models human red blood cell (RBC) metabolism have been developed by several laboratories. An RBC model using E-Cell simulation system has developed. This prototype consists three major metabolic pathways, namely, glycolytic pathway, pentose phosphate pathway nucleotide pathway. Like previous Joshi Palsson, it also physical effects such as osmotic...
Abstract Background Successful realization of a "systems biology" approach to analyzing cells is grand challenge for our understanding life. However, current modeling approaches cell simulation are labor-intensive, manual affairs, and therefore constitute major bottleneck in the evolution computational biology. Results We developed Genome-based Modeling (GEM) System purpose automatically prototyping models cell-wide metabolic pathways from genome sequences other public biological...
Abstract Data on the safety of Janus kinase inhibitors (JAKis) in patients with renal impairment are lacking. This study aimed to investigate JAKis compared biological (b) DMARDs rheumatoid arthritis (RA) and impairment. We used a multi-centre observational registry RA Japan (the ANSWER cohort). assessed drug retention rates b/targeted synthetic different modes action (tumour necrosis factor (TNFis), immunoglobulins fused cytotoxic T-lymphocyte antigen (CTLA-4-Ig), interleukin-6 receptor...
Abstract Background Many computer studies have employed either dynamic simulation or metabolic flux analysis (MFA) to predict the behaviour of biochemical pathways. Dynamic determines time evolution pathway properties in response environmental changes, whereas MFA provides only a snapshot within particular set conditions. However, owing large amount kinetic data required for simulation, MFA, which requires less information, has been used manipulate large-scale pathways determine outcomes....
Abstract Background In order to improve understanding of metabolic systems there have been attempts construct S-system models from time courses. Conventionally, non-linear curve-fitting algorithms used for modelling, because the properties parameter estimation series. However, huge iterative calculations required hindered development large-scale pathway models. To solve this problem we propose a novel method involving power-law modelling pathways Jacobian targeted system and steady-state...