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Tytuł :
Iterative community-driven development of a SARS-CoV-2 tissue simulator.
Autorzy :
Getz M; Department of Intelligent Systems Engineering, Indiana University. Bloomington, IN USA.
Wang Y; Department of Intelligent Systems Engineering, Indiana University. Bloomington, IN USA.
An G; The University of Vermont Medical Center, Burlington, VT USA.
Asthana M; Agricultural and Biological Engineering, Purdue University. West Lafayette, IN USA.
Becker A; The University of Vermont Medical Center, Burlington, VT USA.
Cockrell C; The University of Vermont Medical Center, Burlington, VT USA.
Collier N; Decision and Infrastructure Sciences, Argonne National Laboratory. Lemont, IL USA.; Consortium for Advanced Science and Engineering, University of Chicago. Chicago, IL USA.
Craig M; Department of Mathematics, University of Montreal. Montreal, QC Canada.; CHU Sainte-Justine Research Centre, Montreal, QC Canada.
Davis CL; Natural Science Division, Pepperdine University, Malibu, CA USA.
Faeder JR; Department of Computational and Systems Biology, University of Pittsburgh. Pittsburgh, PA USA.
Versypt ANF; School of Chemical Engineering, Oklahoma State University, Stillwater, OK USA.; Oklahoma Center for Respiratory and Infectious Diseases, Oklahoma State University, Stillwater, OK USA.; Department of Chemical and Biological Engineering, University at Buffalo, The State University of New York, Buffalo, NY USA.
Mapder T; Division of Clinical Pharmacology, Department of Medicine, Indiana University School of Medicine, Indianapolis, IN, USA.
Gianlupi JF; Department of Intelligent Systems Engineering, Indiana University. Bloomington, IN USA.
Glazier JA; Department of Intelligent Systems Engineering, Indiana University. Bloomington, IN USA.
Hamis S; School of Mathematics and Statistics, University of St Andrews, St Andrews, Scotland.
Heiland R; Department of Intelligent Systems Engineering, Indiana University. Bloomington, IN USA.
Hillen T; Department of Mathematical and Statistical Sciences, University of Alberta. Edmonton, AB Canada.
Hou D; Department of Mathematics, Rutgers University. New Brunswick, NJ USA.
Islam MA; School of Chemical Engineering, Oklahoma State University, Stillwater, OK USA.; Department of Chemical and Biological Engineering, University at Buffalo, The State University of New York, Buffalo, NY USA.
Jenner AL; Department of Mathematics, University of Montreal. Montreal, QC Canada.; CHU Sainte-Justine Research Centre, Montreal, QC Canada.
Kurtoglu F; Department of Intelligent Systems Engineering, Indiana University. Bloomington, IN USA.
Larkin CI; Department of Computational and Systems Biology, University of Pittsburgh. Pittsburgh, PA USA.
Liu B; Department of Computational and Systems Biology, University of Pittsburgh. Pittsburgh, PA USA.
Macfarlane F; School of Mathematics and Statistics, University of St Andrews, St Andrews, Scotland.
Maygrundter P; Citizen scientist. Austin, TX USA.
Morel PA; Department of Immunology, University of Pittsburgh. Pittsburgh, PA USA.
Narayanan A; National Center for Biodefense and Infectious Disease, George Mason University. Manassas, VA USA.
Ozik J; Decision and Infrastructure Sciences, Argonne National Laboratory. Lemont, IL USA.; Consortium for Advanced Science and Engineering, University of Chicago. Chicago, IL USA.
Pienaar E; Weldon School of Biomedical Engineering, Purdue University. West Lafayette, IN USA.
Rangamani P; Department of Mechanical and Aerospace Engineering, University of California. San Diego, CA USA.
Saglam AS; Department of Computational and Systems Biology, University of Pittsburgh. Pittsburgh, PA USA.
Shoemaker JE; Department of Chemical and Petroleum Engineering, University of Pittsburgh. Pittsburgh, PA USA.
Smith AM; Department of Pediatrics, University of Tennessee Health Science Center, Memphis, TN USA.
Weaver JJA; Department of Chemical and Petroleum Engineering, University of Pittsburgh. Pittsburgh, PA USA.
Macklin P; Department of Intelligent Systems Engineering, Indiana University. Bloomington, IN USA.
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Źródło :
BioRxiv : the preprint server for biology [bioRxiv] 2021 Apr 29. Date of Electronic Publication: 2021 Apr 29.
Typ publikacji :
Preprint
Tytuł :
Persistence as an Optimal Hedging Strategy.
Autorzy :
Browning AP; School of Mathematical Sciences, Queensland University of Technology, Queensland, Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Queensland, Australia. Electronic address: .
Sharp JA; School of Mathematical Sciences, Queensland University of Technology, Queensland, Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Queensland, Australia.
Mapder T; School of Mathematical Sciences, Queensland University of Technology, Queensland, Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Queensland, Australia; Department of Medicine, Indiana University School of Medicine, Indianapolis, Indiana.
Baker CM; School of Mathematical Sciences, Queensland University of Technology, Queensland, Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Queensland, Australia; School of Mathematics and Statistics, University of Melbourne, Melbourne, Australia.
Burrage K; School of Mathematical Sciences, Queensland University of Technology, Queensland, Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Queensland, Australia; Department of Computer Science, University of Oxford, Oxford, United Kingdom.
Simpson MJ; School of Mathematical Sciences, Queensland University of Technology, Queensland, Australia.
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Źródło :
Biophysical journal [Biophys J] 2021 Jan 05; Vol. 120 (1), pp. 133-142. Date of Electronic Publication: 2020 Nov 28.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
MeSH Terms :
Bacteria*
Biological Evolution*
Computer Simulation ; Population Dynamics ; Stochastic Processes
Czasopismo naukowe
Tytuł :
Trends of mutation accumulation across global SARS-CoV-2 genomes: Implications for the evolution of the novel coronavirus.
Autorzy :
Roy C; College of Veterinary Medicine, Western University of Health Sciences, 309 East Second Street, Pomona, CA 91766, USA.
Mandal SM; Central Research Facility, Indian Institute of Technology Kharagpur, Kharagpur 721302, West Bengal, India.
Mondal SK; Central Research Facility, Indian Institute of Technology Kharagpur, Kharagpur 721302, West Bengal, India.
Mukherjee S; Department of Botany, Prasannadeb Women's College, Jalpaiguri, West Bengal, India.
Mapder T; Division of Clinical Pharmacology, Department of Medicine, Indiana University School of Medicine, Indianapolis, IN 46202, USA.
Ghosh W; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VII M, Kolkata 700054, West Bengal, India. Electronic address: .
Chakraborty R; Department of Biotechnology, University of North Bengal, Raja Rammohanpur, Darjeeling 734013, West Bengal, India. Electronic address: .
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Źródło :
Genomics [Genomics] 2020 Nov; Vol. 112 (6), pp. 5331-5342. Date of Electronic Publication: 2020 Nov 05.
Typ publikacji :
Journal Article
MeSH Terms :
Evolution, Molecular*
Genome, Viral*
Mutation Accumulation*
SARS-CoV-2/*genetics
Asia ; Genomics/methods ; India ; Mutation Rate ; Mutation, Missense ; Phylogeny ; Spike Glycoprotein, Coronavirus/genetics ; Viral Proteins/genetics ; Viroporin Proteins/genetics
Czasopismo naukowe
Tytuł :
Aerobic microbial communities in the sediments of a marine oxygen minimum zone.
Autorzy :
Bhattacharya S; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Roy C; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Mandal S; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Sarkar J; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Rameez MJ; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Mondal N; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Mapder T; Department of Chemistry, Bose Institute, 93/1 APC Road, Kolkata 700009, India.
Chatterjee S; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Pyne P; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Alam M; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Haldar PK; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Roy R; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
Fernandes S; Gas Hydrate Research Group, Geological Oceanography, CSIR-National Institute of Oceanography, Dona Paula, Goa 403004, India.
Peketi A; Gas Hydrate Research Group, Geological Oceanography, CSIR-National Institute of Oceanography, Dona Paula, Goa 403004, India.
Chakraborty R; Department of Biotechnology, University of North Bengal, Raja Rammohanpur, District - Darjeeling, West Bengal 734013, India.
Mazumdar A; Gas Hydrate Research Group, Geological Oceanography, CSIR-National Institute of Oceanography, Dona Paula, Goa 403004, India.
Ghosh W; Department of Microbiology, Bose Institute, P-1/12 CIT Scheme VIIM, Kolkata 700054, India.
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Źródło :
FEMS microbiology letters [FEMS Microbiol Lett] 2020 Oct 16; Vol. 367 (19).
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Aquatic Organisms/*metabolism
Bacteria/*metabolism
Geologic Sediments/*microbiology
Microbiota/*physiology
Oxygen/*metabolism
Aerobiosis ; Bacteria/classification ; Oceans and Seas
Czasopismo naukowe
Tytuł :
Designing combination therapies using multiple optimal controls.
Autorzy :
Sharp JA; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia. Electronic address: .
Browning AP; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia.
Mapder T; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia.
Baker CM; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia; School of Mathematics and Statistics, The University of Melbourne, Australia.
Burrage K; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia; Department of Computer Science, University of Oxford, UK (Visiting Professor).
Simpson MJ; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia.
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Źródło :
Journal of theoretical biology [J Theor Biol] 2020 Jul 21; Vol. 497, pp. 110277. Date of Electronic Publication: 2020 Apr 13.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
MeSH Terms :
Leukemia, Myeloid, Acute*
Combined Modality Therapy ; Ecology ; Humans
Czasopismo naukowe
Tytuł :
Administration of Defective Virus Inhibits Dengue Transmission into Mosquitoes.
Autorzy :
Mapder T; School of Mathematical Sciences, Queensland University of Technology, Brisbane, QLD 4000, Australia.; Australian Research Council Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Brisbane, QLD 4000, Australia.
Aaskov J; Institute of Health and Biomedical Innovation, Queensland University of Technology, Brisbane, QLD 4059, Australia.
Burrage K; School of Mathematical Sciences, Queensland University of Technology, Brisbane, QLD 4000, Australia.; Australian Research Council Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Brisbane, QLD 4000, Australia.; Department of Computer Science, University of Oxford, Oxford OX1 3QD, UK.
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Źródło :
Viruses [Viruses] 2020 May 18; Vol. 12 (5). Date of Electronic Publication: 2020 May 18.
Typ publikacji :
Journal Article; Research Support, U.S. Gov't, Non-P.H.S.
MeSH Terms :
Defective Viruses/*physiology
Dengue/*prevention & control
Dengue/*transmission
Dengue Virus/*physiology
Mosquito Vectors/*virology
Aedes/virology ; Animals ; Dengue/virology ; Humans ; Models, Theoretical ; Viral Load ; Viremia/virology
Czasopismo naukowe
Tytuł :
Computational study of parameter sensitivity in DevR regulated gene expression.
Autorzy :
Das J; Department of Chemistry, Indian Institute of Engineering Science and Technology, Shibpur, Howrah, India.
Mapder T; Department of Chemistry, Indian Institute of Engineering Science and Technology, Shibpur, Howrah, India.
Chattopadhyay S; Department of Chemistry, Indian Institute of Engineering Science and Technology, Shibpur, Howrah, India.
Banik SK; Department of Chemistry, Bose Institute, Kolkata, India.
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Źródło :
PloS one [PLoS One] 2020 Feb 13; Vol. 15 (2), pp. e0228967. Date of Electronic Publication: 2020 Feb 13 (Print Publication: 2020).
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Bacterial Proteins/*genetics
Computational Biology/*methods
Mycobacterium tuberculosis/*genetics
Protein Kinases/*genetics
Bacterial Proteins/metabolism ; Binding Sites ; DNA-Binding Proteins ; Gene Expression Regulation, Bacterial/genetics ; Kinetics ; Mycobacterium tuberculosis/metabolism ; Phosphorylation ; Protein Kinases/metabolism ; Protein Processing, Post-Translational/genetics ; Transcription Factors/metabolism ; Transcription, Genetic/genetics
Czasopismo naukowe
Tytuł :
A population of bang-bang switches of defective interfering particles makes within-host dynamics of dengue virus controllable.
Autorzy :
Mapder T; School of Mathematical Sciences, Queensland University of Technology, Brisbane, Queensland, Australia.; Australian Research Council Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Brisbane, Queensland, Australia.
Clifford S; Centre for Mathematical Modelling of Infectious Diseases, London School of Hygiene and Tropical Medicine, London, United Kingdom.
Aaskov J; Institute of Health and Biomedical Innovation, Queensland University of Technology, Brisbane, Queensland, Australia.
Burrage K; School of Mathematical Sciences, Queensland University of Technology, Brisbane, Queensland, Australia.; Australian Research Council Centre of Excellence for Mathematical and Statistical Frontiers, Queensland University of Technology, Brisbane, Queensland, Australia.; Department of Computer Science, University of Oxford, Oxford, United Kingdom.
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Źródło :
PLoS computational biology [PLoS Comput Biol] 2019 Nov 11; Vol. 15 (11), pp. e1006668. Date of Electronic Publication: 2019 Nov 11 (Print Publication: 2019).
Typ publikacji :
Journal Article; Research Support, U.S. Gov't, Non-P.H.S.
MeSH Terms :
Dengue/*virology
Dengue Virus/*physiology
Host Microbial Interactions/*physiology
Animals ; Culicidae ; Defective Viruses ; Humans ; Models, Theoretical ; Viral Load/physiology ; Viremia ; Virion ; Virus Replication
Czasopismo naukowe
Tytuł :
Optimal control of acute myeloid leukaemia.
Autorzy :
Sharp JA; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia.
Browning AP; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia.
Mapder T; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia.
Burrage K; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia; ARC Centre of Excellence for Mathematical and Statistical Frontiers, QUT, Australia; Department of Computer Science, University of Oxford, UK.
Simpson MJ; School of Mathematical Sciences, Queensland University of Technology (QUT), Australia. Electronic address: .
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Źródło :
Journal of theoretical biology [J Theor Biol] 2019 Jun 07; Vol. 470, pp. 30-42. Date of Electronic Publication: 2019 Mar 08.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Models, Immunological*
Hematopoietic Stem Cells/*immunology
Leukemia, Myeloid, Acute/*immunology
Leukemia, Myeloid, Acute/*therapy
Neoplastic Stem Cells/*immunology
Humans
Czasopismo naukowe
Tytuł :
In silico modeling of phosphorylation dependent and independent c-Myc degradation.
Autorzy :
Chakravorty D; Bioinformatics Centre, Bose Institute, Kolkata, India.
Banerjee K; Bioinformatics Centre, Bose Institute, Kolkata, India.
Mapder T; ARC CoE for Mathematical and Statistical Frontiers, School of Mathematical Sciences, Queensland University of Technology, Brisbane, Australia. .
Saha S; Bioinformatics Centre, Bose Institute, Kolkata, India. .
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Źródło :
BMC bioinformatics [BMC Bioinformatics] 2019 May 08; Vol. 20 (1), pp. 230. Date of Electronic Publication: 2019 May 08.
Typ publikacji :
Journal Article
MeSH Terms :
Computer Simulation/*standards
Phosphorylation/*physiology
Proto-Oncogene Proteins c-myc/*metabolism
Cell Proliferation ; Humans
Czasopismo naukowe
Tytuł :
Author Correction: Salinity stratification controlled productivity variation over 300 ky in the Bay of Bengal.
Autorzy :
Da Silva R; CSIR, National Institute of Oceanography, Donapaula, Goa, 403004, India.
Mazumdar A; CSIR, National Institute of Oceanography, Donapaula, Goa, 403004, India. .
Mapder T; ACEMS, Queensland University of Technology, Brisbane, QLD4000, Australia.
Peketi A; CSIR, National Institute of Oceanography, Donapaula, Goa, 403004, India.
Joshi RK; Geological Survey of India, Salt lake, Kolkata, 700091, India.
Shaji A; Centre for Marine Living Resources & Ecology, Kochi, 682037, Kerala, India.
Mahalakshmi P; Flat No. CS-1, Block-C, Astral Garden, Panaji, 403004, Goa, India.
Sawant B; CSIR, National Institute of Oceanography, Donapaula, Goa, 403004, India.
Naik BG; CSIR, National Institute of Oceanography, Donapaula, Goa, 403004, India.
Carvalho MA; CSIR, National Institute of Oceanography, Donapaula, Goa, 403004, India.
Molletti SK; Delta Studies Institute, Andhra University, Visakhapatnam, 530017, Andhra Pradesh, India.
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Źródło :
Scientific reports [Sci Rep] 2018 Apr 11; Vol. 8 (1), pp. 6038. Date of Electronic Publication: 2018 Apr 11.
Typ publikacji :
Published Erratum
Tytuł :
Deciphering Parameter Sensitivity in the BvgAS Signal Transduction.
Autorzy :
Mapder T; Department of Chemistry, Indian Institute of Engineering Science and Technology, Shibpur, Howrah 711103, India.
Talukder S; Department of Chemistry, University of Calcutta, 92 A P C Road, Kolkata 700 009, India.
Chattopadhyay S; Department of Chemistry, Indian Institute of Engineering Science and Technology, Shibpur, Howrah 711103, India.
Banik SK; Department of Chemistry, Bose Institute, 93/1 A P C Road, Kolkata 700 009, India.
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Źródło :
PloS one [PLoS One] 2016 Jan 26; Vol. 11 (1), pp. e0147281. Date of Electronic Publication: 2016 Jan 26 (Print Publication: 2016).
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Signal Transduction*
Bordetella pertussis/*metabolism
Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Bordetella pertussis/genetics ; Models, Theoretical ; Operon/genetics ; Phosphorylation ; Transcription, Genetic
Czasopismo naukowe
Tytuł :
Effect of dielectric interface on charge aggregation in the voltage-gated K(+) ion channel.
Autorzy :
Adhya L; Department of Engineering Physics, B. P. Poddar Institute of Management and Technology, Kolkata, West Bengal, India.
Mapder T; Department of Engineering Physics, B. P. Poddar Institute of Management and Technology, Kolkata, West Bengal, India.
Adhya S; Department of Engineering Physics, B. P. Poddar Institute of Management and Technology, Kolkata, West Bengal, India.
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Źródło :
Journal of natural science, biology, and medicine [J Nat Sci Biol Med] 2015 Jan-Jun; Vol. 6 (1), pp. 188-97.
Typ publikacji :
Journal Article
Czasopismo naukowe

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