All Outputs (177)

Gsmodutils: A python based framework for test-driven genome scale metabolic model development (2018)
Other
Gilbert, J. P., Pearcy, N., Norman, R., Millat, T., Winzer, K., King, J., …Twycross, J. (2018). Gsmodutils: A python based framework for test-driven genome scale metabolic model development

Motivation Genome scale metabolic models (GSMMs) are increasingly important for systems biology and metabolic engineering research as they are capable of simulating complex steady-state behaviour. Constraints based models of this form can include tho... Read More about Gsmodutils: A python based framework for test-driven genome scale metabolic model development.

Model-based drug development in pulmonary delivery: pharmacokinetic analysis of novel drug candidates for treatment of Pseudomonas aeruginosa lung infection (2018)
Journal Article
Sou, T., Kukavica-Ibrulj, I., Soukarieh, F., Halliday, N., Levesque, R. C., Williams, P., …Bergström, C. A. (2019). Model-based drug development in pulmonary delivery: pharmacokinetic analysis of novel drug candidates for treatment of Pseudomonas aeruginosa lung infection. Journal of Pharmaceutical Sciences, 108(1), 630-640. https://doi.org/10.1016/j.xphs.2018.09.017

Antibiotic resistance is a major public health threat worldwide. In particular, about 80% of cystic fibrosis patients have chronic Pseudomonas aeruginosa (PA) lung infection resistant to many current antibiotics. We are therefore developing a novel c... Read More about Model-based drug development in pulmonary delivery: pharmacokinetic analysis of novel drug candidates for treatment of Pseudomonas aeruginosa lung infection.

The structure of the deubiquitinase USP15 reveals a misaligned catalytic triad and an open ubiquitin-binding channel (2018)
Journal Article
Ward, S. J., Gratton, H. E., Indrayudha, P., Michavila, C., Mukhopadhyay, R., Maurer, S. K., …Dreveny, I. (2018). The structure of the deubiquitinase USP15 reveals a misaligned catalytic triad and an open ubiquitin-binding channel. Journal of Biological Chemistry, 293(45), 17362-17374. https://doi.org/10.1074/jbc.RA118.003857

© 2018 Ward et al. Ubiquitin-specific protease 15 (USP15) regulates important cellular processes, including transforming growth factor β (TGF-β) signaling, mitophagy, mRNA processing, and innate immune responses; however, structural information on US... Read More about The structure of the deubiquitinase USP15 reveals a misaligned catalytic triad and an open ubiquitin-binding channel.

Functional genetic elements for controlling gene expression in Cupriavidus necator H16 (2018)
Journal Article
Alagesan, S., Hanko, E. K., Malys, N., Ehsaan, M., Winzer, K., & Minton, N. P. (2018). Functional genetic elements for controlling gene expression in Cupriavidus necator H16. Applied and Environmental Microbiology, https://doi.org/10.1128/AEM.00878-18

A robust and predictable control of gene expression plays an important role in synthetic biology and biotechnology applications. Development and quantitative evaluation of functional genetic elements such as constitutive and inducible promoters, as w... Read More about Functional genetic elements for controlling gene expression in Cupriavidus necator H16.

PREVIEW study—influence of a behavior modification intervention (PREMIT) in over 2300 people with pre-diabetes: intention, self-efficacy and outcome expectancies during the early phase of a lifestyle intervention (2018)
Journal Article
Huttunen-Lenz, M., Hansen, S., Christensen, P., Meinert Larsen, T., SandØ-Pedersen, F., Drummen, M., …Schlicht, W. (2018). PREVIEW study—influence of a behavior modification intervention (PREMIT) in over 2300 people with pre-diabetes: intention, self-efficacy and outcome expectancies during the early phase of a lifestyle intervention. Psychology Research and Behavior Management, 11, 383-394. https://doi.org/10.2147/prbm.s160355

Purpose: Onset of type 2 diabetes (T2D) is often gradual and preceded by impaired glucose homeostasis. Lifestyle interventions including weight loss and physical activity may reduce the risk of developing T2D, but adherence to a lifestyle change is c... Read More about PREVIEW study—influence of a behavior modification intervention (PREMIT) in over 2300 people with pre-diabetes: intention, self-efficacy and outcome expectancies during the early phase of a lifestyle intervention.

Holographic optical trapping Raman micro-spectroscopy for non-invasive measurement and manipulation of live cells (2018)
Journal Article
Sinjab, F., Awuah, D., Gibson, G., Padgett, M., Ghaemmaghami, A. M., & Notingher, I. (2018). Holographic optical trapping Raman micro-spectroscopy for non-invasive measurement and manipulation of live cells. Optics Express, 26(19), 25211-25225. https://doi.org/10.1364/oe.26.025211

We present a new approach for combining holographic optical tweezers with confocal Raman spectroscopy. Multiple laser foci, generated using a liquid-crystal spatial light modulator, are individually used for both optical trapping and excitation of sp... Read More about Holographic optical trapping Raman micro-spectroscopy for non-invasive measurement and manipulation of live cells.

CRISPR-Cas immunity, DNA repair and genome stability (2018)
Journal Article
Cubbon, A., Ivancic-Bace, I., & Bolt, E. (2018). CRISPR-Cas immunity, DNA repair and genome stability. Bioscience Reports, 38(5), 1-10. https://doi.org/10.1042/bsr20180457

© 2018 The Author(s). Co-opting of CRISPR-Cas ‘Interference’ reactions for editing the genomes of eukaryotic and prokaryotic cells has highlighted crucial support roles for DNA repair systems that strive to maintain genome stability. As front-runners... Read More about CRISPR-Cas immunity, DNA repair and genome stability.

The influence of the descending pain modulatory system on infant pain-related brain activity (2018)
Journal Article
Goksan, S., Baxter, L., Moultrie, F., Duff, E., Hathway, G., Hartley, C., …Slater, R. (2018). The influence of the descending pain modulatory system on infant pain-related brain activity. eLife, 7, Article e37125. https://doi.org/10.7554/elife.37125

The descending pain modulatory system (DPMS) constitutes a network of widely distributed brain regions whose integrated function is essential for effective modulation of sensory input to the central nervous system and behavioural responses to pain. A... Read More about The influence of the descending pain modulatory system on infant pain-related brain activity.

Reviving the Weizmann process for commercial n-butanol production (2018)
Journal Article
Nguyen, N. P. T., Raynaud, C., Meynial-Salles, I., & Soucaille, P. (2018). Reviving the Weizmann process for commercial n-butanol production. Nature Communications, 9, Article 3682. https://doi.org/10.1038/s41467-018-05661-z

© 2018, The Author(s). Developing a commercial process for the biological production of n-butanol is challenging as it needs to combine high titer, yield, and productivities. Here we engineer Clostridium acetobutylicum to stably and continuously prod... Read More about Reviving the Weizmann process for commercial n-butanol production.

Software to facilitate and streamline camera trap data management: a review (2018)
Journal Article
Young, S., Rode-Margono, J., & Amin, R. (2018). Software to facilitate and streamline camera trap data management: a review. Ecology and Evolution, 8(19), 9947-9957. https://doi.org/10.1002/ece3.4464

Improving technology and increasing affordability mean that camera trapping—the use of remotely triggered cameras to photograph wildlife—is becoming an increasingly common tool in the monitoring and conservation of wild populations. Each camera trap... Read More about Software to facilitate and streamline camera trap data management: a review.

Stiffening by Osmotic Swelling Constraint in Cartilage-Like Cell Culture Scaffolds (2018)
Journal Article
Offeddu, G. S., Tanase, C. E., Toumpaniari, S., Oyen, M. L., & Cameron, R. E. (2018). Stiffening by Osmotic Swelling Constraint in Cartilage-Like Cell Culture Scaffolds. Macromolecular Bioscience, 18, Article 1800247. https://doi.org/10.1002/mabi.201800247

Abstract Cartilage wounds result in chronic pain and degradation of the quality of life for millions of people. A synthetic cellular scaffold able to heal the damage by substituting the natural tissue is of great potential value. Here, it is shown fo... Read More about Stiffening by Osmotic Swelling Constraint in Cartilage-Like Cell Culture Scaffolds.

Strategy for tumor selective disruption of androgen receptor function in the spectrum of prostate cancer (2018)
Journal Article
Rosati, R., Polin, L. A., Ducker, C., Li, J., Bao, X., Selvakumar, D., …Ratnam, M. (2018). Strategy for tumor selective disruption of androgen receptor function in the spectrum of prostate cancer. Clinical Cancer Research, https://doi.org/10.1158/1078-0432.ccr-18-0982

Purpose: Testosterone suppression in prostate cancer (PC) is limited by serious side effects and resistance via restoration of androgen receptor (AR) functionality. ELK1 is required for ARdependent growth in various hormone-dependent and castration r... Read More about Strategy for tumor selective disruption of androgen receptor function in the spectrum of prostate cancer.

Transposase subunit architecture and its relationship to genome size and the rate of transposition in prokaryotes and eukaryotes (2018)
Journal Article
Blundell-Hunter, G., Tellier, M., & Chalmers, R. (2018). Transposase subunit architecture and its relationship to genome size and the rate of transposition in prokaryotes and eukaryotes. Nucleic Acids Research, 46(18), 9637-9646. https://doi.org/10.1093/nar/gky794

Cut-and-paste transposons are important tools for mutagenesis, gene-delivery and DNA sequencing applications. At the molecular level, the most thoroughly understood are Tn5 and Tn10 in bacteria, and mariner and hAT elements in eukaryotes. All bacteri... Read More about Transposase subunit architecture and its relationship to genome size and the rate of transposition in prokaryotes and eukaryotes.

Observations of extensive gene expression differences in the cerebellum and potential relevance to Alzheimer’s disease (2018)
Journal Article
Chappell, S., Patel, T., Guetta-Baranes, T., Sang, F., Francis, P. T., Morgan, K., & Brookes, K. J. (2018). Observations of extensive gene expression differences in the cerebellum and potential relevance to Alzheimer’s disease. BMC Research Notes, 11(1), Article 646. https://doi.org/10.1186/s13104-018-3732-8

Objectives In order to determine how gene expression is altered in disease it is of fundamental importance that the global distribution of gene expression levels across the disease-free brain are understood and how differences between tissue types... Read More about Observations of extensive gene expression differences in the cerebellum and potential relevance to Alzheimer’s disease.

Reply to ‘Antipsychotics with similar association kinetics at dopamine D2 receptors differ in extrapyramidal side-effects’ (2018)
Journal Article
Sykes, D. A., Lane, J. R., Szabo, M., Capuano, B., Javitch, J. A., & Charlton, S. J. (2018). Reply to ‘Antipsychotics with similar association kinetics at dopamine D2 receptors differ in extrapyramidal side-effects’. Nature Communications, 9, Article 3568. https://doi.org/10.1038/s41467-018-05678-4

Pharmacological and SAR analysis of the LINS01 compounds at the human histamine H1, H2 and H3 receptors (2018)
Journal Article
Corrêa, M. F., Barbosa, Á. J. R., Fernandes, G. A. B., Baker, J. G., & dos Santos Fernandes, J. P. (2018). Pharmacological and SAR analysis of the LINS01 compounds at the human histamine H1, H2 and H3 receptors. Chemical Biology and Drug Design, 93(1), 89-95. https://doi.org/10.1111/cbdd.13387

Histamine is a transmitter that activates the four receptors H1R to H4R. The H3R is found in the nervous system as an auto and heteroreceptor, and controls the release of neurotransmitters, making it a potential drug target for neuropsychiatric condi... Read More about Pharmacological and SAR analysis of the LINS01 compounds at the human histamine H1, H2 and H3 receptors.

Demographic and social-cognitive factors associated with weight loss in overweight, pre-diabetic participants of the PREVIEW Study (2018)
Journal Article
Hansen, S., Huttunen-Lenz, M., Sluik, D., Brand-Miller, J., Drummen, M., Fogelholm, M., …Schlicht, W. (2018). Demographic and social-cognitive factors associated with weight loss in overweight, pre-diabetic participants of the PREVIEW Study. International Journal of Behavioral Medicine, 25(6), 682–692. https://doi.org/10.1007/s12529-018-9744-x

Purpose Weight loss has been demonstrated to be a successful strategy in diabetes prevention. Although weight loss is greatly influenced by dietary behaviors, social-cognitive factors play an important role in behavioral determination. This study... Read More about Demographic and social-cognitive factors associated with weight loss in overweight, pre-diabetic participants of the PREVIEW Study.

From clusters to queries: exploiting uncertainty in the modularity landscape of complex networks (2018)
Presentation / Conference Contribution
Gilbert, J. P., & Twycross, J. (2018). From clusters to queries: exploiting uncertainty in the modularity landscape of complex networks.

Uncovering latent community structure in complex networks is a field that has received an enormous amount of attention. Unfortunately, whilst potentially very powerful, unsupervised methods for uncovering labels based on topology alone has been shown... Read More about From clusters to queries: exploiting uncertainty in the modularity landscape of complex networks.

Arrestin recruitment to dopamine D2 receptor mediates locomotion but not incentive motivation (2018)
Journal Article
Donthamsetti, P., Gallo, E. F., Buck, D. C., Stahl, E. L., Zhu, Y., Lane, J. R., …Javitch, J. A. (2018). Arrestin recruitment to dopamine D2 receptor mediates locomotion but not incentive motivation. Molecular Psychiatry, 25, 2086–2100. https://doi.org/10.1038/s41380-018-0212-4

The dopamine (DA) D2 receptor (D2R) is an important target for the treatment of neuropsychiatric disorders such as schizophrenia and Parkinson's disease. However, the development of improved therapeutic strategies has been hampered by our incomplete... Read More about Arrestin recruitment to dopamine D2 receptor mediates locomotion but not incentive motivation.

Visualising ligand-binding to a GPCR in vivo using nanoBRET (2018)
Journal Article
Carvalheira Alcobia, D., Ziegler, A. I., Kondrashov, A., Comeo, E., Mistry, S., Kellam, B., …Sloan, E. K. (2018). Visualising ligand-binding to a GPCR in vivo using nanoBRET. iScience, 6(8), 280-288. https://doi.org/10.1016/j.isci.2018.08.006

© 2018 The Author(s) The therapeutic action of a drug depends on its ability to engage with its molecular target in vivo. However, current drug discovery strategies quantify drug levels within organs rather than determining the binding of drugs direc... Read More about Visualising ligand-binding to a GPCR in vivo using nanoBRET.