Sugiyama-Badr Laboratory

Kozue Okamura, Kota Oishi, Sara Badr, Akira Yamada, Hirokazu Sugiyama
"Data-driven parameterization and development of mechanistic cell cultivation models in monoclonal antibody production processes: Shifts in cell metabolic behavior"
Computers & Chemical Engineering, Accepted

Kozue Okamura, Sara Badr, Yusuke Ichida, Akira Yamada, Hirokazu Sugiyama
“Modeling of cell cultivation for monoclonal antibody production processes considering lactate metabolic shifts”
Biotechnology progresss, Accepted

Mohamed Rami Gaddem, Junu Kim, Kensaku Matsunami, Yusuke Hayashi, Sara Badr, Hirokazu Sugiyama
“Roles of mechanistic, data-driven, and hybrid modeling approaches for pharmaceutical process design and operation”
Current Opinion in Chemical Engineering , 44 (2024)

Junu Kim, Yusuke Hayashi, Sara Badr, Kazuya Okamoto, Toshikazu Hakogi, Haruo Furukawa, Satoshi Yoshikawa, Hayao Nakanishi, Hirokazu Sugiyama
"Kinetic study and model-based design space determination for a drug substance flow synthesis using amination reaction via nucleophilic aromatic substitution"
Organic Process Research & Development, 28, 5, 1793–1805 (2024)

Junu Kim, Kensaku Matsunami, Yusuke Ichida, Kozue Okamura, Sara Badr, Hirokazu Sugiyama
"Scenario analysis of vaccine supply for COVID-19 in Japan using mathematical models of infectious diseases"
Journal of Chemical Engineering of Japan, 57 (2024)

Kozue Okamura, Hiroki Tsuchiya, Risa Hamada, Yusuke Hayashi, Sara Badr, Seiichi Ohta, Hirokazu Sugiyama
"A systems evaluation model for the development of companion diagnostics and associated molecularly targeted therapies"
Journal of Pharmaceutical Innovation, 199, 507–514 (2023)

Junu Kim, Yusuke Hayashi, Sara Badr, Kazuya Okamoto, Toshikazu Hakogi, Haruo Furukawa, Satoshi Yoshikawa, Hayao Nakanishi, and Hirokazu Sugiyama "Hybrid Modeling of an Active Pharmaceutical Ingredient Flow Synthesis in a Ring-Opening Reaction of an Epoxide with a Grignard Reagent"
Industrial & Engineering Chemistry Research, 62, 43, 17824–17834 (2023)

Junu Kim, Yusuke Hayashi, Sara Badr, Kazuya Okamoto, Toshikazu Hakogi, Haruo Furukawa, Satoshi Yoshikawa, Hayao Nakanishi, Hirokazu Sugiyama "Mechanistic insights into the amination via nucleophilic aromatic substitution"
Reaction Chemistry & Engineering, 8, 2060–2070 (2023)

Sara Badr, Kota Oishi, Kozue Okamura, Sei Murakami, Hirokazu Sugiyama "Hybrid modelling and data-driven parameterization of monoclonal antibody cultivation processes: Shifts in cell metabolic behavior" 33rd European Symposium on Computer Aided Process Engineering, Elsevier, Computer Aided Chemical Engineering, 52, 985–990 (2023)

Masahiro Yamada, Sara Badr, Yusuke Hayashi, Kenichi Zenitani, Kokichi Kubota, Hayao Nakanishi, Hirokazu Sugiyama
"A comprehensive design approach for injectable manufacturing processes considering new technologies and operational aspects"Journal of Chemical Engineering of Japan, 56, 2201310 (2023)

Isuru A. Udugama, Sara Badr, Keita Hirono, Benedikt X. Scholz, Yusuke Hayashi, Masahiro Kino-oka, Hirokazu Sugiyama "The Role of Process Systems Engineering in Applying Quality by Design (QbD) in Mesenchymal Stem Cell Production" Computers & Chemical Engineering, 108144 (2023)

Kensaku Matsunami, Tomohiro Miura, Keita Yaginuma, Shuichi Tanabe, Sara Badr, Hirokazu Sugiyama "Surrogate modeling of dissolution behavior toward efficient design of tablet manufacturing processes" Computers & Chemical Engineering, 108141 (2023)

Junu Kim, Yusuke Hayashi, Sara Badr, Hayao Nakanishi, Hirokazu Sugiyama "Impact of solvent selection on batch and flow syntheses for heterogeneous hydrogenation in drug substance manufacturing: A model-based analysis"
Chemical Engineering Research and Design, 189, 156–166 (2023)

Kozue Okamura, Sara Badr, Sei Murakami, Hirokazu Sugiyama, "Hybrid Modeling of CHO Cell Cultivation in Monoclonal Antibody Production with an Impurity Generation Module" Industrial & Engineering Chemistry Research, 61, 14898–14909 (2022)

Philipp Zürcher, Sara Badr, Stephanie Knüppel, Hirokazu Sugiyama "Data-driven approach towards long-term equipment condition assessment in sterile drug product manufacturing" ACS Omega, 7, 36415–36426 (2022)

Philipp Zürcher, Sara Badr, Stephanie Knüppel, Hirokazu Sugiyama "Data-driven equipment condition monitoring and reliability assessment for sterile drug product manufacturing: method and application for an operating facility" Chemical Engineering Research and Design, 188, 301–314 (2022)

Masahiro Yamada, Isuru A. Udugama, Sara Badr, Kenichi Zenitani, Kokichi Kubota, Hayao Nakanishi, Hirokazu Sugiyama "Integrated design of injectable manufacturing processes considering characteristics of process- and discrete-manufacturing systems" 14th International Symposium on Process System Engineering, Elsevier, Computer Aided Chemical Engineering, 49, 2191–2196 (2022)

Kozue Okamura, Sara Badr, Sei Murakami, Hirokazu Sugiyama "Hybrid modelling of CHO-MK cell cultivation in monoclonal antibody production" 14th International Symposium on Process System Engineering, Elsevier, Computer Aided Chemical Engineering, 49, 2137–2142 (2022)

Philipp Samuel Zuercher, Sara Badr, Stephanie Knueppel, Hirokazu Sugiyama "Data-driven operation support for equipment deterioration detection in drug product manufacturing" 14th International Symposium on Process System Engineering, Elsevier, Computer Aided Chemical Engineering, 49, 1519–1524 (2022)

Junu Kim, Hironori Yonekura, Takeaki Watanabe, Satoshi Yoshikawa, Hayao Nakanishi, Hirokazu Sugiyama, Sara Badr "Rigorous modeling for assessing batch and flow syntheses of drug substance in heterogeneous hydrogenation" 14th International Symposium on Process System Engineering, Elsevier, Computer Aided Chemical Engineering, 49, 877–882 (2022)

Sara Badr, Kozue Okamura, Nozomi Takahashi, Hirokazu Sugiyama "Techno-economic assessment of upstream and downstream process alternatives for the production of monoclonal antibodies" 14th International Symposium on Process System Engineering, Elsevier, Computer Aided Chemical Engineering, 49, 745–750 (2022)

Kensaku Matsunami, Sara Badr, Hirokazu Sugiyama "Framework for designing solid drug product manufacturing processes based on economic and quality assessment" 14th International Symposium on Process System Engineering, Elsevier, Computer Aided Chemical Engineering, 49, 223–228 (2022)

Masahiro Yamada, Sara Badr, Isuru A. Udugama, Shouko Fukuda, Manabu Nakaya, Yasuyuki Yoshioka, Hirokazu Sugiyama, "A systematic techno-economic approach to decide between continuous and batch operation modes for injectable manufacturing" International Journal of Pharmaceutics, 613, 121353 (2022)

Eri Amasawa, Hiroaki Kuroda, Kozue Okamura, Sara Badr, and Hirokazu Sugiyama, "Cost–Benefit Analysis of Monoclonal Antibody Cultivation Scenarios in Terms of Life Cycle Environmental Impact and Operating Cost" ACS Sustainable Chemistry & Engineering, 9, 14012–14021 (2021)

Junu Kim, Hironori Yonekura, Takeaki Watanabe, Satoshi Yoshikawa, Hayao Nakanishi, Sara Badr, Hirokazu Sugiyama, "Model-based comparison of batch and flow syntheses of an active pharmaceutical ingredient using heterogeneous hydrogenation" Computers & Chemical Engineering, 11, 16416 (2021)

Sara Badr, Kozue Okamura, Nozomi Takahashi, Vera Ubbenjans, Haruku Shirahata, Hirokazu Sugiyama, "Integrated Design of Biopharmaceutical Manufacturing Processes: Operation Modes and Process Configurations for Monoclonal Antibody Production" Computers & Chemical Engineering, 153, 107422 (2021)

Anicia Zeberli, Sara Badr, Christian Siegmund, Markus Mattern, Hirokazu Sugiyama, "Data-driven anomaly detection and diagnostics for changeover processes in biopharmaceutical drug product manufacturing" Chemical Engineering Research and Design, accepted

Samir Diab, Sara Badr, Hirokazu Sugiyama, Dimitrios I. Gerogiorgis, "Dynamic simulation and visualisation of ph-modulated fed-batch fermentation for mab production from CHO cell cultures" Computer Aided Chemical Engineering, 48, 1657–1662 (2020)

Sara Badr, Kozue Okamura, Nozomi Takahashi, Vera Ubbenjans, Haruku Shirahata, Hirokazu Sugiyama "Integrated design of biopharmaceutical manufacturing processes: operation modes and process configurations for monoclonal antibody production"Computer Aided Chemical Engineering, 48, 1609–1614 (2020)

Philipp Samuel Zürcher, Haruku Shirahata, Sara Badr, Hirokazu Sugiyama, "Multi-stage and multi-objective decision-support tool for biopharmaceutical drug product manufacturing: equipment technology evaluation" Chemical Engineering Research and Design, 161, 240–252 (2020)

Masahiro Yamada, Sara Badr, Shouko Fukuda, Manabu Nakaya, Yasuyuki Yoshioka, Hirokazu Sugiyama "Economic Model for Lot-Size Determination in Pharmaceutical Injectable Manufacturing" Journal of Pharmaceutical Innovation, accepted

Sara Badr, Hirokazu Sugiyama "A PSE perspective for the efficient production of monoclonal antibodies: Integration of process, cell, and product design aspects" Current Opinion in Chemical Engineering, 27, 121–128 (2020)

Jane Y. Yap, Jully Tan, Dominic C.Y. Foo, Raymond R. Tan, Stavros Papadokonstantakis, Sara Badr "A Graphical Method for Carbon Dioxide Emissions Reduction in Multi–Product Plants" Process Safety and Environmental Protection, 133, 51–63 (2020)

Haruku Shirahata, Sara Badr, Yuki Shinno, Shuta Hagimori, Hirokazu Sugiyama "Online decision-support tool "TECHoice" for the equipment technology choice in sterile filling processes of biopharmaceuticals" Processes, 7, 448 (2019) [open access, invited article]

Anicia Zeberli, Gioele Casola, Sara Badr, Christian Siegmund, Markus Mattern, Hirokazu Sugiyama "Approach for multicriteria equipment redesign in sterile manufacturing of biopharmaceuticals" Journal of Pharmaceutical Innovation, 15, 15–25 (2020)

Haruku Shirahata, Sara Badr, Shant Dakessian, Hirokazu Sugiyama "Alternative generation and multiobjective evaluation using a design framework: case study on sterile filling processes of biopharmaceuticals" Computers & Chemical Engineering, 123, 286–299 (2019)

Sara Badr, Jerome Frutiger, Konrad Hungerbuehler, Stavros Papadokonstantakis "A framework for the environmental, health and safety hazard assessment for amine-based post combustion CO₂ capture" International Journal of Greenhouse Gas Control, 56, 202–220 (2017)

Athanasios Papadopoulos, Sara Badr, Esther Forte, Theodoros Zarogiannis, Panos Seferlis, Stavros Papadokonstantakis, Amparo Galindo, George Jackson, Claire Adjiman "Computer-aided molecular design and selection of CO₂ capture solvents based on thermodynamics, reactivity and sustainability" Molecular Systems Design & Engineering,1, 313–334 (2016)

Merten Morales, Meriç Ataman, Sara Badr, Sven Linster, Ioannis Kourlimpinis, Stavros Papadokonstantakis, Vassily Hatzimanikatis, Konrad Hungerbühler "Sustainability assessment of succinic acid production technologies from biomass using metabolic engineering" Energy & Environmental Science, 9, 2794–2805 (2016)

Vassilis Magioglou, Elisabet Capón García, Sara Badr, Antonis Kokossis "Model-based analysis of waste management systems through a natural language approach" Computer Aided Chemical Engineering, 37, 977–982 (2015)

Stavros Papadokonstantakis, Sara Badr, Konrad Hungerbühler, Athanasios I. Papadopoulos, Theodoros Damartzis, Panos Seferlis, Esther Forte, Alexandros Chremos, Amparo Galindo, George Jackson, Claire S. Adjiman "Toward sustainable solvent-based postcombustion CO₂ capture: from molecules to conceptual flowsheet design" Computer Aided Chemical Engineering, 36, 279–310 (2015)

Athanasios I. Papadopoulos, Sara Badr, Alexandros Chremos, Esther Forte, Theodoros Zarogiannis, Panos Seferlis, Stavros Papadokonstantakis, Claire S. Adjiman, Amparo Galindo, George Jackson "Efficient screening and selection of post-combustion CO₂ capture solvents" Chemical Engineering Transactions, 39, 211–216 (2014)

Tarek Moustafa, Sara Badr, Mohamed Hassan, Ibrahim A. Abba "Effect of flow direction on the performance of radial flow catalytic reactors" Asia-Pacific Journal of Chemical Engineering, 7(2), 307–316 (2012)

Sara Badr, Kota Oishi, Kozue Okamura, Sei Murakami, Hirokazu Sugiyama "Hybrid modelling and data-driven parameterization of monoclonal antibody cultivation processes: Shifts in cell metabolic behavior" Oral, The 33rd European Symposium on Computer-Aided Process Engineering (ESCAPE-33), 18–21 June 2023, Royal Olympic Hotel, Athens, Greece

Badr Sara "The role of data-driven and hybrid modeling in biopharmaceutical manufacturing" Invited lecture, Society of Chemical Engineers, Japan (SCEJ) 88th Annual Meeting, 15–17 March 2023, University of Agriculture and Technology, Tokyo

Sara Badr "Cost and life cycle assessment of upstream monoclonal antibody production" Poster, Integrated Continuous Biomanufacturing V (ICB V), 9–13 October 2022, Dolce Sitges Barcelona Resort, Sitges, Spain

Sara Badr, Kozue Okamura, Nozomi Takahashi, Hirokazu Sugiyama "Techno-economic assessment of upstream and downstream process alternatives for the production of monoclonal antibodies" Oral, The 14th International Symposium on Process Systems Engineering (PSE 2021+), 19–23 June 2022, Kyoto University Clock Tower Centennial Hall, Kyoto, Japan/Virtual meeting

Sara Badr, Isuru Udugama, Hirokazu Sugiyama "Inherent digital readiness: The challenges facing data-driven applications in the pharmaceutical industry" Oral, Society of Chemical Engineers, Japan (SCEJ) 87th Annual Meeting, 16-18 March 2022, Tsurukabuto Campus, Kobe University, Kobe city, Hyogo/Virtual meeting

Sara Badr, Akinori Shigeyama, Nozomi Takahashi, Hirokazu Sugiyama "A systems approach for enhancing the efficiency of downstream purification units for monoclonal antibody production", Oral, Society of Chemical Engineers, Japan (SCEJ) 52nd Autumn Meeting, 22-24 September 2021, Tsushima Campus, Okayama University, Okayama city, Okayama/Virtual meeting

Sara Badr, Kozue Okamura, Nozomi Takahashi, Hirokazu Sugiyama "Assessment of robustness and operational considerations for the design of integrated mAb manufacturing processes" Oral, Society of Chemical Engineers, Japan (SCEJ) 86th Annual Meeting, 20-22 March 2021, Virtual meeting

Sara Badr, Kozue Okamura, Nozomi Takahashi, Hirokazu Sugiyama "Design of Integrated Monoclonal Antibody Production Processes: Modelling, Data, and Process Challenges" Oral, 2020 AIChE Annual Meeting, 16–20 November 2020, Virtual meeting

Sara Badr, Kozue Okamura, Nozomi Takahashi, Vera Ubbenjans, Haruku Shirahata, Hirokazu Sugiyama "Integrated design of biopharmaceutical manufacturing processes: operation modes and process configurations for monoclonal antibody production" Oral, The 30th European Symposium on Computer-Aided Process Engineering (ESCAPE-30), 30 August–2 September 2020, Virtual meeting

Sara Badr, Kozue Okamura, Nozomi Takahashi, Haruku Shirahata, Hirokazu Sugiyama "Design of integrated monoclonal antibody production: opportunities for continuous manufacturing" Oral, 2019 AIChE Annual Meeting, 10–15 November 2019, Hyatt Regency, Orlando, U.S.A.

Sara Badr, Kozue Okamura, Nozomi Takahashi, Haruku Shirahata, Hirokazu Sugiyama "Process design of integrated monoclonal antibody manufacturing using pilot-scale production data" Oral, 18th Asian Pacific Confederation of Chemical Engineering Congress (APCChE 2019), 23–27 September 2019, Sapporo Convention Center, Sapporo, Japan

Sara Badr, Kozue Okamura, Nozomi Takahashi, Haruku Shirahata, Hirokazu Sugiyama "Design and assessment of process alternatives for integrated monoclonal antibody production: Opportunities for continuous manufacturing" Oral, Society of Chemical Engineers, Japan (SCEJ) 84th Annual Meeting, 13–15 March 2019, Shibaura Institute of Technology, Tokyo The Research Encouragement Prize of the Division of SIS