3,260 search results for “genome scale metabolic reconstruction” in the Public website
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Natural deep eutectic solvents: A new green solvent from nature
- Which metabolites could be components of NADES? - How can we prove the presence of NADES in nature? - What are the roles of NADES in nature? - How to apply NADES in life sciences?
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Research lines
Physics and Engineering Approaches to Biomedicine and Pharmacology
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Preventing or curing diseases with X-omics
In April, the X-omics initiative was granted 17 million euros from the Dutch Organization for Scientific Research. The subsidy is part of the National Roadmap for large-scale scientific infrastructure, intended to build or renew large-scale research facilities. What new insights will this investment…
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In Pursuit of Next-Generation Lipopeptide Antibiotics
Can new variants of daptomycin and the polymyxins be found?
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A community effort to assess and improve drug sensitivity prediction algorithms
Source: Nature Biotechnology, Volume 2014, Issue June (2014)
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Quantitative biology of polar auxin transport and plant development
The availability of complete plant genome sequences together with the ever increasing amount of data on the molecular, cellular and physiological mechanisms of plant development require mathematical and computational models to obtain a complete overview of and generate new insights into the quantitative…
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Exploring Grainyhead-like 2 target genes in breast cancer
The objective of this study was to investigate the expression and function of GRHL2 in different breast cancer subtypes.
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Gene regulation in embryonic development
The human body consists of hundreds, perhaps thousands of different types of cells, each with different morphologies and functions, despite having the same genome.
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Dynamic organization of bacterial chromatin by DNA bridging proteins
Bacteria often experience external challenges, such as changes in environmental conditions or attacks by bacteriophages.
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The architects of crenarchaeal chromatin: A biophysical characterization of chromatin proteins from Sulfolobus solfataricus
Promotor: Prof.dr. J. Brouwer, Co-promotor: Dr. Remus Th. Dame
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From Descriptive to Predictive Pharmacology in Children using Semi-Physiological population modelling
An integrated approach of physiological concepts, advanced statistical approaches and large clinical datasets.
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Harnessing the soil microbiome for improved stress tolerance in crop plants
Which compounds and microorganisms that live near and inside plant roots are beneficial? Can we use this knowledge to improve the health and growth of crop plants?
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Historic Chinese Materia Medica revisited
What are the differences between the trade in Chinese herbal drugs in Europe between 1800 and now? Can we see the major metabolic changes after 200 yours?
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Metabolomic characteristics of Catharanthus roseus plants in time and space
Promotor: Prof.dr. R. Verpoorte, Co-promotores: Dr. Y.H.Choi, N.R. Mustafa
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Exploration of the endocannabinoid system using metabolomics
To increase clinical success rate of drugs, a better understanding of drug action mechanism and disease dynamics is required. Metabolomics, which studies small molecules involved in biochemical processes in organisms, has shown to be a useful tool for this better understanding.
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Analytical chemistry and biochemistry of glycosphingolipids: new developments and insights
Advanced mass spectrometry of glycosphingolipids takes the central stage in this thesis. Investigations focus on characterization of glycosphingolipid metabolism in health and disease with emphasis to the detection and accurate quantitation of known and so far unknown glycosphingolipids and closely…
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Fire use in human evolution: A genetic approach
Are traces of fire use detectable in ancient hominin genomes?
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Mathematics-based strategies for repairing tumour blood vessels
How does the extracellular matrix coordinate endothelial cell behavior during angiogenesis, and how do metabolic waste-products and matrix-degrading enzymes produced by the tumour modify the extracellular matrix so as the change the cellular coordination?
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Ancient DNA study reveals large scale migrations into Bronze Age Britain
A major new study of ancient DNA has traced the movement of people into southern Britain during the Bronze Age. In the largest such analysis published to date, scientists examined the DNA of nearly 800 ancient individuals. Publication in Nature on December 22, 2021.
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A computational study of structural and excitonic properties of chlorosomes
The long-held desire - to link structure directly to function and to explain molecular mechanisms based on basic chemical or physical principles - is finally coming closer, satisfying not only our scientific curiosity but also offering new solutions to the many challenges in the field of health, energy…
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Research themes
The Institute of Biology Leiden (IBL) is an internationally oriented institute for research and education in biology.
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Regulation of enzyme production in fungal cell factories
Our object is to identify and characterize transcription factors involved in lignocellulosic biomass degradation in the filamentous fungus Aspergillus niger.
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PKPD and disease modelling in therapy development for amyotrophic lateral sclerosis (ALS)
We aim to gain a better understanding of the natural disease progression of ALS in order to improve clinical trial design and analysis and to support drug discovery and clinical development of new drugs.
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Real-time tomographic reconstruction
PhD defence
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Archaeology alumna Oda Nuij wins Florschütz Thesis Award
Annually, the Dutch Palynologische Kring invites nominations for the Florschütz Award for best MSc thesis in Palynology and Palaeobotany. This year, the thesis of Archaeology alumna Oda Nuij was deemed to be the best one. Oda was surprised to hear she won, since she was not sure that the thesis would…
- Lectures
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CCLS Webinar: Detecting complexities in a scrambled genome through spacial graphs
Lecture
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Huub Rottgering
Science
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ZF-HEALTH - Zebrafish Regulomics for Human Health
How can zebrafish research help understanding human diseases?
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Circular Economy Modelling for Climate Change Mitigation (CIRCOMOD)
How might we include circularity into the models often used in IPCC reporting (in technical language, how can IAMs, dMFA models and CGE models be integrated?) What are possible futures for global resource use and what are the consequences for greenhouse gas emissions in these scenarios?
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Anthropogenic effects on links between macro-invertebrate diversity and ecosystem functioning
How are links between macro-invertebrate diversity and ecosystem functioning influenced by anthropogenic pressures?
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Merging galaxy clusters: probing magnetism and particle acceleration over cosmic time
In this thesis, I studied the origin and evolution of the non-thermal radiation in merging galaxy clusters.
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Gabriella Di Gennaro
Science
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Lingxing Xu
Science
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Next generation human IPSC-derived reporter systems for image-based analysis of drug adversity
Analysis of drug adversity
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Projects
An overview of Quantitative Pharmacology projects
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Prior information and variational Bayes in high dimensional statistical network inference
This thesis develops statistical methods for the analysis of high dimensional data: high dimensional networks reconstruction (Chapters 1-4), incorporation of prior information in networks reconstruction (Chapters 2-4), incorporation of prior knowledge in genetic association studies (Chapter 3).
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Reconstruction of linguistic history using dialect data
Lecture, Special Topics in Dialectology (2023)
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Novel Pathways in Cholesterol Metabolism to Combat Cardiometabolic Diseases
PhD defence
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Combatting metabolic disease. Ethnic aspects, mechanisms and novel treatment strategies
PhD defence
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New scanning method turns objects inside out at high speed
What if you could watch a CT scan live, instead of analysing the images afterwards? If it is up to the Leiden mathematician Jan-Willem Buurlage, that will soon be a reality. He is developing methods to make the algorithms behind 3D scans faster. Quite a challenge: ‘Just like mathematicians, computers…
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Reconstructing Interactions and Mobility in Prehistoric Cyprus
Conference
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project on sustainability transformations in Artisanal and Small-scale Gold Mining
An international and multi-disciplinary research consortium spent two days at Leiden University for the launch of their ‘GOLD MATTERS’ project, funded jointly by NORFACE and Belmont Forum. The project 'Sustainability Transformations in Artisanal and Small-scale Gold Mining: A Multi-Actor and Trans-Regional…
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Learning from the past
Leiden archaeologists investigate how people in the past impacted their environment. Together with scientists, environmental scientists, and humanities experts, they use this information to draw conclusions about the present – and show what we can learn from it for the future.
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Strategies for the improvement of genome editing in Arabidopsis thaliana
PhD defence
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The Synthesis of Chemical Tools for Studying Sphingolipid Metabolism
PhD defence
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Role of intestinal microbiota in cardio-metabolic disease
PhD defence
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Preclinical validation of putative targets in cardiovascular and metabolic disease
PhD defence
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Cholesterol metabolism in mouse models of atherosclerosis and adrenal steroidogenesis
PhD defence
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Studies on molecular basics of metabolic syndrome in zebrafish
PhD defence