Living Architecture

Livrables

The production of a 2D array of bioreactors with sensors and controllers that collectively perceives its environment makes decision about reconfiguration of the reactors contents and performs basic computational primitives with their closest neighbours

LIAR hardware

LIAR hardware, of MFCs running in both large partition panels and active wall sections capable of performing wastewater treatment, generating electricity and producing biomass.

ODACS part 2 and updates

These goals extend the project objectivesExploitationQuality control advisory board checksevaluation process and troubleshooting strategyOutreach launch website event schedule professional and publicDesign intentions update hardware software wetware

Progress Report Period 1

Period 1 progress report

Bioreactor Implementation Report

Final Report

Progress Report Period 2

Period 2 progress report

ODACS part 3

Addition to ODACS with schedule for integration of bioreactors (and evaluation of progress) through design/computation/experimental work

ODACS part 1

Outline Design and Contact Specification Document these goals build the team objectivesDesign intentions hardware software wetwareImplementation strategy meeting rota procurement assemblyManagement website document management system communications system

Final Report

Compiling of final report

LIAR website

Creation and running of LIAR website

Publications

FLYCOP: metabolic modeling-based analysis and engineering microbial communities

Auteurs: Beatriz García-Jiménez, José Luis García, Juan Nogales
Publié dans: Bioinformatics, Numéro 34/17, 2018, Page(s) i954-i963, ISSN 1367-4803
Éditeur: Oxford University Press
DOI: 10.1093/bioinformatics/bty561

Quantifying dynamic mechanisms of auto-regulation in Escherichia coli with synthetic promoter in response to varying external phosphate levels

Auteurs: Cansu Uluşeker, Jesús Torres-Bacete, José L. García, Martin M. Hanczyc, Juan Nogales, Ozan Kahramanoğulları
Publié dans: Scientific Reports, Numéro 9/1, 2019, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-018-38223-w

Living architecture: workshop report from the European Conference on Artificial Life, Lyon, France, 4 September 2017

Auteurs: Martin M Hanczyc, Barbara Imhof, Andrew Adamatzky
Publié dans: Adaptive Behavior, Numéro 26/2, 2018, Page(s) 85-88, ISSN 1059-7123
Éditeur: SAGE Publications
DOI: 10.1177/1059712318761518

Regenerated silk fibroin membranes as separators for transparent microbial fuel cells

Auteurs: Grzegorz Pasternak, Yuejiao Yang, Bruno Bosquiroli Santos, Federico Brunello, Martin M. Hanczyc, Antonella Motta
Publié dans: Bioelectrochemistry, Numéro 126, 2019, Page(s) 146-155, ISSN 1567-5394
Éditeur: Elsevier BV
DOI: 10.1016/j.bioelechem.2018.12.004

Novel method for detecting and quantifying phenol with transient response of glycolytic oscillations of synchronised yeast cells

Auteurs: Grzegorz Pasternak, Martin M. Hanczyc
Publié dans: Sensing and Bio-Sensing Research, Numéro 22, 2019, Page(s) 100259, ISSN 2214-1804
Éditeur: Elsevier BV
DOI: 10.1016/j.sbsr.2019.100259

Artificial neural network simulating microbial fuel cells with different membrane materials and electrode configurations

Auteurs: Michail-Antisthenis Tsompanas, Jiseon You, Lauren Wallis, John Greenman, Ioannis Ieropoulos
Publié dans: Journal of Power Sources, Numéro 436, 2019, Page(s) 226832, ISSN 0378-7753
Éditeur: Elsevier BV
DOI: 10.1016/j.jpowsour.2019.226832

Modelling the energy harvesting from ceramic-based microbial fuel cells by using a fuzzy logic approach

Auteurs: Alberto de Ramón-Fernández, M.J. Salar-García, Daniel Ruiz-Fernández, J. Greenman, I. Ieropoulos
Publié dans: Applied Energy, Numéro 251, 2019, Page(s) 113321, ISSN 0306-2619
Éditeur: Pergamon Press Ltd.
DOI: 10.1016/j.apenergy.2019.113321

Modelling Microbial Fuel Cells using lattice Boltzmann methods

Auteurs: Michail-Antisthenis Tsompanas, Andy Adamatzky, Ioannis Ieropoulos, Neil Phillips, Georgios Ch. Sirakoulis, John Greenman
Publié dans: IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2018, Page(s) 1-1, ISSN 1545-5963
Éditeur: IEEE Computer Society
DOI: 10.1109/tcbb.2018.2831223

Cellular non-linear network model of microbial fuel cell

Auteurs: Michail-Antisthenis Tsompanas, Andrew Adamatzky, Ioannis Ieropoulos, Neil Phillips, Georgios Ch. Sirakoulis, John Greenman
Publié dans: Biosystems, Numéro 156-157, 2017, Page(s) 53-62, ISSN 0303-2647
Éditeur: Elsevier BV
DOI: 10.1016/j.biosystems.2017.04.003

Towards implementation of cellular automata in Microbial Fuel Cells

Auteurs: Michail-Antisthenis I. Tsompanas, Andrew Adamatzky, Georgios Ch. Sirakoulis, John Greenman, Ioannis Ieropoulos
Publié dans: PLOS ONE, Numéro 12/5, 2017, Page(s) e0177528, ISSN 1932-6203
Éditeur: Public Library of Science
DOI: 10.1371/journal.pone.0177528

Genexput: A rapid and standarised method for large genome expansion of Pseudomonas putida

Auteurs: Mesa-Galán, A., Blázquez, B., Nogales, J.
Publié dans: Biosaia: Revista de los másteres de Biotecnología Sanitaria y Biotecnología Ambiental, Industrial y Alimentaria, Numéro vol. 1, no 8, 2019, ISSN 2254-3821
Éditeur: Universidad Pablo de Olavide

Engineering self-regulated synthetic gene expression systems and its application on controlled protein expression

Auteurs: Ronco-Campaña, A.; Torres-Bacete, J.; Nogales, J.
Publié dans: Biosaia: Revista de los másteres de Biotecnología Sanitaria y Biotecnología Ambiental, Industrial y Alimentaria, Numéro vol. 1, no 8., 2019, ISSN 2254-3821
Éditeur: Universidad Pablo de Olavide

The inclusion of side metabolic reactions in the genome-scale metabolic model of Pseudomonas putida highlights to underground metabolism as key player in metabolic robustness

Auteurs: Canalejo, F. J.; Nogales, J.
Publié dans: Biosaia: Revista de los másteres de Biotecnología Sanitaria y Biotecnología Ambiental, Industrial y Alimentaria, Numéro vol. 1, no 8, 2019, ISSN 2254-3821
Éditeur: Universidad Pablo de Olavide

Soft Living Architecture - An Alternative View of Bio-informed Practice

Auteurs: Armstrong,R
Publié dans: 2018, ISBN 978-1-3500-1133-5
Éditeur: BLOOMSBURY ACADEMIC
DOI: 10.5040/9781350011366

Liquid Life: On Nonlinear Materiality

Auteurs: Armstrong, R., Ferracina, S., Hughes, R.
Publié dans: 2019
Éditeur: Punctum
DOI: 10.21983/p3.0246.1.00

Experimental Architecture - Designing the Unknown

Auteurs: Armstrong, R
Publié dans: 2019, ISBN 9781-351272483
Éditeur: ROUTLEDGE
DOI: 10.4324/9781351272483

Quantifying Information Flow in Chemical Reaction Networks

Auteurs: Ozan Kahramanoğulları
Publié dans: Algorithms for Computational Biology, Numéro 10252, 2017, Page(s) 155-166, ISBN 978-3-319-58162-0
Éditeur: Springer International Publishing
DOI: 10.1007/978-3-319-58163-7_11

Living Architecture (LIAR): Metabolically engineered building units

Auteurs: Armstrong R, Ferracina S, Caldwell G, Ieropoulos I, Rimbu G, Adamatzky A, Phillips N, De Lucrezia D, Imhof B, Hanczyc MM, Nogales J, Garcia J.
Publié dans: In: Heisel, F; Hebel, D, ed. Cultivated Building Materials: Industrialized Natural Resources for Architecture and Construction., 2017
Éditeur: Birkhauser

A dynamic model of the phosphate response system with synthetic promoters in Escherichia coli

Auteurs: Cansu Uluşeker, Jesus Torres, José L. García, Martin M. Hanczyc, Juan Nogales, Ozan Kahramanoğulları
Publié dans: Proceedings of the 14th European Conference on Artificial Life ECAL 2017, 2017, Page(s) 412-419, ISBN 978-0-262-34633-7
Éditeur: MIT Press
DOI: 10.7551/ecal_a_069

Mechanisms of Switching Response to External Phosphate Levels in Escheria coli

Auteurs: Cansu Uluşeker, Martin M. Hanczyc, Ozan Kahramanoğulları
Publié dans: The 2018 Conference on Artificial Life, 2018, Page(s) 633-640
Éditeur: MIT Press
DOI: 10.1162/isal_a_00116

QUANTIFYING MECHANISMS OF BACTERIAL PHOSPHATE ECONOMY FOR SYNTHETIC APPS

Auteurs: Kahramanog ̆ulları O.,. Hanczyc M.M.
Publié dans: enth Conference Dynamical Systems Applied to Biology and Natural Sciences DSABNS, 2019, ISBN 978-989-98750-6-7
Éditeur: DSABNS

Enumerating Dominant Pathways in Biological Networks by Information Flow Analysis

Auteurs: Kahramanoğulları O.
Publié dans: International Conference on Algorithms for Computational Biology, Numéro 11488, 2019, Page(s) 39-51, ISBN 978-3-030-18173-4
Éditeur: Springer
DOI: 10.1007/978-3-030-18174-1_3

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