Jarka Glassey - Academia.edu (original) (raw)
Papers by Jarka Glassey
Journal of bioprocessing & biotechniques, 2017
Biotechnology is a key area of industrial interest and the importance of effective knowledge mana... more Biotechnology is a key area of industrial interest and the importance of effective knowledge management for rapid bioprocess development, optimisation and operation is widely recognised as an important driver of biomanufacturing excellence. The Britest suite of tools and methodologies, designed to highlight knowledge gaps within chemical and physical processes, is explored as an approach to bioprocess knowledge acquisition and management. These tools can help identify where optimisation may be most beneficial, and also increase understanding of the process as a whole across a range of disciplines. This research identifies areas where Britest tools are not directly transferable into biotechnological applications, and formulates a whole bioprocess development methodology. The Britest tools have been considered using SuperPro Designer in relation to production of insulin using E. coli. Some of the existing Britest tools have been found to be directly applicable to biological processes, although adaptations were required in some cases, to account for differences between chemical and biological processing. A gap was identified relating to considering the process as a whole, and so a new tool (the Reaction/Reagent/Transformation Tracker, R2T2) was developed to address this. The Britest tools show promise within the context of a bioprocess, although further work is required to fully realise their potential in this exciting field. It is anticipated that the tools can be applied to aid in the identification of Critical Quality Attributes (CQAs) and Critical Process Parameters (CPPs), constructing a robust design space, and facilitating the development of a Quality by Design (QbD) approach to bioprocessing.
Archives of Toxicology, Oct 20, 2016
are extensively used for predicting biological activity as well as toxicity during small molecule... more are extensively used for predicting biological activity as well as toxicity during small molecule drug development; however, their full potential has not been utilized for biological drug development. The scope of in vitro and in silico tools in early developmental stages of monoclonal antibody-based therapeutics production and how it contributes to lower attrition rates leading to faster development of potential drug candidates has been evaluated. The applicability of computational toxicology approaches in this context as well as the pitfalls and promises of extending such techniques to biopharmaceutical development has been highlighted.
Highlights • Benefits of a structured programme to assist engineering educators in their practice... more Highlights • Benefits of a structured programme to assist engineering educators in their practice are highlighted. • Overview of training activities is provided. • Experiences of graduates of the programme demonstrate the added value of this training provision.
Antibodies, Aug 17, 2018
Monoclonal antibody (mAb) therapeutics have a promising outlook within the pharmaceutical industr... more Monoclonal antibody (mAb) therapeutics have a promising outlook within the pharmaceutical industry having made positive strides in both research and development as well as commercialisation, however this development has been hampered by manufacturing failures and attrition. This study explores the applicability of traditional in vitro toxicity tests for detecting any off-target adverse effect elicited by mAbs on specific organ systems using hepatocarcinoma cell line (HepG2) and human dermal fibroblasts neonatal (HDFn), respectively. The mechanism of antibody dependent cytotoxicity (ADCC), complement dependent cytotoxicity (CDC) via complement activation, and complement dependent cellular cytotoxicity (CDCC) were assessed. Major results: no apparent ADCC, CDCC, or CDC mediated decrease in cell viability was measured for HepG2 cells. For HDFn cells, though ADCC or CDCC mediated decreases in cell viability wasn't detected, a CDC mediated decrease in cell viability was observed. Several considerations have been elucidated for development of in vitro assays better suited to detect off target toxicity of mAbs.
Education for Chemical Engineers
2022 8th International Conference on Virtual Reality (ICVR)
Although modern consumer level head-mounteddisplays of today provide high-quality room scale trac... more Although modern consumer level head-mounteddisplays of today provide high-quality room scale tracking, and thus support a high level of immersion and presence, there are application contexts in which constraining oneself to seated setups is necessary. Classroom sized training groups are one highly relevant example. However, what is lost when constraining cybernauts to a stationary seated physical space? What is the impact on immersion, presence, cybersickness and what implications does this have on training success? Can a careful design for seated virtual reality (VR) amend some of these aspects? In this line of research, the study provides data on a comparison between standing and seated long (50-60 min) procedural VR training sessions of chemical operators in a realistic and lengthy chemical procedure (combination of digital and physical actions) inside a large 3-floor virtual chemical plant. Besides, a VR training framework based on Maslow's hierarchy of needs (MHN) is also proposed to systematically analyze the needs in VR environments. In the first of a series of studies, the physiological and safety needs of MHN are evaluated among seated and standing groups in the form of cybersickness, usability and user experience. The results (n=32, real personnel of a chemical plant) show no statistically significant differences among seated and standing groups. There were low levels of cybersickness along with good scores of usability and user experience for both conditions. From these results, it can be implied that the seated condition does not impose significant problems that might hinder its application in classroom training. A follow-up study with a larger sample will provide a more detailed analysis on differences in experienced presence and learning success.
European Journal of Engineering Education
Education for Chemical Engineers
To tackle future sustainability and energy issues, novel learning approaches should be considered... more To tackle future sustainability and energy issues, novel learning approaches should be considered in chemical engineering education, particularly those encouraging learners’ problem-solving skills. This paper proposes an example for educators to integrate game-making activities into a chemical engineering curriculum. The specific activity proposed is a collaborative event, known as a game jam in Game Studies. Participants use a custom-made Game Editor for Learning to design levels for a jump n’ run/platform game. The editor facilitates the construction of games for non-game designers, has a tutorial, and is provided with inspirational gameplay videos of level examples and a template for facilitators to assess the resulting levels. This paper argues that prompting learners to create levels based on chemical concepts and structures, challenges and develops their problem-solving skills, and makes the activity valuable to be integrated in present engineering educational programs. The learning experience, named CHEM Jam, starts with an introductory phase during which participants receive essential guidance, while preserving the effectiveness, of learner-centred activities. The assessment methodology is aligned with the learning objectives of an undergraduate process design course. Finally, research and critique on the activity and how chemical engineering can benefit from game-making events and communities is discussed.
7th International Conference of the Immersive Learning Research Network, 2021
The growing interest in the use of digital games for teaching and training resulted in the expans... more The growing interest in the use of digital games for teaching and training resulted in the expansion of the field of game-based learning with many research being carried out on the subject. Some of the studies have aimed to understand the views of
Hybrid Modeling in Process Industries, 2018
<b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Ma... more <b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Macroarray Data"Comparative and Functional Genomics 2007;2007():-.Published online 22 Apr 2007PMCID:PMC1872052. SCS algorithm depicted as a flow diagram showing the three stages of the algorithm.
<b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Ma... more <b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Macroarray Data"Comparative and Functional Genomics 2007;2007():-.Published online 22 Apr 2007PMCID:PMC1872052. Comparison of the Park scores for the 33 known genes under the pho regulon control in the -null mutant versus -null mutant using globally scaled normalisation (nMTM) and SCS-normalised data. Park scores are shown for the SCS normalisation when parameter is set to 200, 400, and 600. Note that some of the symbols are placed in identical positions when the Park scores are identical for both data sets.
<b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Ma... more <b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Macroarray Data"Comparative and Functional Genomics 2007;2007():-.Published online 22 Apr 2007PMCID:PMC1872052. The average contribution values of the bottom 100 genes when the average contributions data is sorted in ascending order. When parameter is set to 1%, the 40 genes with the lowest average contributions are excluded from the SCS.
African Journal of Biotechnology, 2010
Polyunsaturated fatty acids (PUFAs) are chemically present as esters, ethers, glycerides glycolip... more Polyunsaturated fatty acids (PUFAs) are chemically present as esters, ethers, glycerides glycolipids, phospholipids, phosphonolipids, glycosphingolipids, sulpholipids and lipoproteins in storage oils and membranes lipids. Marine microorganisms such as Shewanella frigidimarina are important sources of polyunsaturated fatty acids with promising biomedical applications, commercial value and the potential ability to be used in the bioremediation of environments contaminated with petroleum hydrocarbons. The growth media dependency of S. frigidimarina in terms of its growth behavior in response to modifications made to the media as well as its potential to produce PUFAs was evaluated. S. frigidimarina was cultured in conventional shake-flasks and controlled bioreactors with a batch-type procedure using different media compositions. The media used included artificial sea water, modified artificial sea water 1, modified artificial sea water 2, Luria Bertani, modified Luria Bertani, sodium p...
Journal of bioprocessing & biotechniques, 2017
Biotechnology is a key area of industrial interest and the importance of effective knowledge mana... more Biotechnology is a key area of industrial interest and the importance of effective knowledge management for rapid bioprocess development, optimisation and operation is widely recognised as an important driver of biomanufacturing excellence. The Britest suite of tools and methodologies, designed to highlight knowledge gaps within chemical and physical processes, is explored as an approach to bioprocess knowledge acquisition and management. These tools can help identify where optimisation may be most beneficial, and also increase understanding of the process as a whole across a range of disciplines. This research identifies areas where Britest tools are not directly transferable into biotechnological applications, and formulates a whole bioprocess development methodology. The Britest tools have been considered using SuperPro Designer in relation to production of insulin using E. coli. Some of the existing Britest tools have been found to be directly applicable to biological processes, although adaptations were required in some cases, to account for differences between chemical and biological processing. A gap was identified relating to considering the process as a whole, and so a new tool (the Reaction/Reagent/Transformation Tracker, R2T2) was developed to address this. The Britest tools show promise within the context of a bioprocess, although further work is required to fully realise their potential in this exciting field. It is anticipated that the tools can be applied to aid in the identification of Critical Quality Attributes (CQAs) and Critical Process Parameters (CPPs), constructing a robust design space, and facilitating the development of a Quality by Design (QbD) approach to bioprocessing.
Archives of Toxicology, Oct 20, 2016
are extensively used for predicting biological activity as well as toxicity during small molecule... more are extensively used for predicting biological activity as well as toxicity during small molecule drug development; however, their full potential has not been utilized for biological drug development. The scope of in vitro and in silico tools in early developmental stages of monoclonal antibody-based therapeutics production and how it contributes to lower attrition rates leading to faster development of potential drug candidates has been evaluated. The applicability of computational toxicology approaches in this context as well as the pitfalls and promises of extending such techniques to biopharmaceutical development has been highlighted.
Highlights • Benefits of a structured programme to assist engineering educators in their practice... more Highlights • Benefits of a structured programme to assist engineering educators in their practice are highlighted. • Overview of training activities is provided. • Experiences of graduates of the programme demonstrate the added value of this training provision.
Antibodies, Aug 17, 2018
Monoclonal antibody (mAb) therapeutics have a promising outlook within the pharmaceutical industr... more Monoclonal antibody (mAb) therapeutics have a promising outlook within the pharmaceutical industry having made positive strides in both research and development as well as commercialisation, however this development has been hampered by manufacturing failures and attrition. This study explores the applicability of traditional in vitro toxicity tests for detecting any off-target adverse effect elicited by mAbs on specific organ systems using hepatocarcinoma cell line (HepG2) and human dermal fibroblasts neonatal (HDFn), respectively. The mechanism of antibody dependent cytotoxicity (ADCC), complement dependent cytotoxicity (CDC) via complement activation, and complement dependent cellular cytotoxicity (CDCC) were assessed. Major results: no apparent ADCC, CDCC, or CDC mediated decrease in cell viability was measured for HepG2 cells. For HDFn cells, though ADCC or CDCC mediated decreases in cell viability wasn't detected, a CDC mediated decrease in cell viability was observed. Several considerations have been elucidated for development of in vitro assays better suited to detect off target toxicity of mAbs.
Education for Chemical Engineers
2022 8th International Conference on Virtual Reality (ICVR)
Although modern consumer level head-mounteddisplays of today provide high-quality room scale trac... more Although modern consumer level head-mounteddisplays of today provide high-quality room scale tracking, and thus support a high level of immersion and presence, there are application contexts in which constraining oneself to seated setups is necessary. Classroom sized training groups are one highly relevant example. However, what is lost when constraining cybernauts to a stationary seated physical space? What is the impact on immersion, presence, cybersickness and what implications does this have on training success? Can a careful design for seated virtual reality (VR) amend some of these aspects? In this line of research, the study provides data on a comparison between standing and seated long (50-60 min) procedural VR training sessions of chemical operators in a realistic and lengthy chemical procedure (combination of digital and physical actions) inside a large 3-floor virtual chemical plant. Besides, a VR training framework based on Maslow's hierarchy of needs (MHN) is also proposed to systematically analyze the needs in VR environments. In the first of a series of studies, the physiological and safety needs of MHN are evaluated among seated and standing groups in the form of cybersickness, usability and user experience. The results (n=32, real personnel of a chemical plant) show no statistically significant differences among seated and standing groups. There were low levels of cybersickness along with good scores of usability and user experience for both conditions. From these results, it can be implied that the seated condition does not impose significant problems that might hinder its application in classroom training. A follow-up study with a larger sample will provide a more detailed analysis on differences in experienced presence and learning success.
European Journal of Engineering Education
Education for Chemical Engineers
To tackle future sustainability and energy issues, novel learning approaches should be considered... more To tackle future sustainability and energy issues, novel learning approaches should be considered in chemical engineering education, particularly those encouraging learners’ problem-solving skills. This paper proposes an example for educators to integrate game-making activities into a chemical engineering curriculum. The specific activity proposed is a collaborative event, known as a game jam in Game Studies. Participants use a custom-made Game Editor for Learning to design levels for a jump n’ run/platform game. The editor facilitates the construction of games for non-game designers, has a tutorial, and is provided with inspirational gameplay videos of level examples and a template for facilitators to assess the resulting levels. This paper argues that prompting learners to create levels based on chemical concepts and structures, challenges and develops their problem-solving skills, and makes the activity valuable to be integrated in present engineering educational programs. The learning experience, named CHEM Jam, starts with an introductory phase during which participants receive essential guidance, while preserving the effectiveness, of learner-centred activities. The assessment methodology is aligned with the learning objectives of an undergraduate process design course. Finally, research and critique on the activity and how chemical engineering can benefit from game-making events and communities is discussed.
7th International Conference of the Immersive Learning Research Network, 2021
The growing interest in the use of digital games for teaching and training resulted in the expans... more The growing interest in the use of digital games for teaching and training resulted in the expansion of the field of game-based learning with many research being carried out on the subject. Some of the studies have aimed to understand the views of
Hybrid Modeling in Process Industries, 2018
<b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Ma... more <b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Macroarray Data"Comparative and Functional Genomics 2007;2007():-.Published online 22 Apr 2007PMCID:PMC1872052. SCS algorithm depicted as a flow diagram showing the three stages of the algorithm.
<b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Ma... more <b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Macroarray Data"Comparative and Functional Genomics 2007;2007():-.Published online 22 Apr 2007PMCID:PMC1872052. Comparison of the Park scores for the 33 known genes under the pho regulon control in the -null mutant versus -null mutant using globally scaled normalisation (nMTM) and SCS-normalised data. Park scores are shown for the SCS normalisation when parameter is set to 200, 400, and 600. Note that some of the symbols are placed in identical positions when the Park scores are identical for both data sets.
<b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Ma... more <b>Copyright information:</b>Taken from "Normalisation of Multicondition cDNA Macroarray Data"Comparative and Functional Genomics 2007;2007():-.Published online 22 Apr 2007PMCID:PMC1872052. The average contribution values of the bottom 100 genes when the average contributions data is sorted in ascending order. When parameter is set to 1%, the 40 genes with the lowest average contributions are excluded from the SCS.
African Journal of Biotechnology, 2010
Polyunsaturated fatty acids (PUFAs) are chemically present as esters, ethers, glycerides glycolip... more Polyunsaturated fatty acids (PUFAs) are chemically present as esters, ethers, glycerides glycolipids, phospholipids, phosphonolipids, glycosphingolipids, sulpholipids and lipoproteins in storage oils and membranes lipids. Marine microorganisms such as Shewanella frigidimarina are important sources of polyunsaturated fatty acids with promising biomedical applications, commercial value and the potential ability to be used in the bioremediation of environments contaminated with petroleum hydrocarbons. The growth media dependency of S. frigidimarina in terms of its growth behavior in response to modifications made to the media as well as its potential to produce PUFAs was evaluated. S. frigidimarina was cultured in conventional shake-flasks and controlled bioreactors with a batch-type procedure using different media compositions. The media used included artificial sea water, modified artificial sea water 1, modified artificial sea water 2, Luria Bertani, modified Luria Bertani, sodium p...