A5076536725- Fungal and yeast genetics research
- Bioinformatics and Genomic Networks
- Microbial Metabolic Engineering and Bioproduction
- CRISPR and Genetic Engineering
- Pharmacogenetics and Drug Metabolism
- Computational Drug Discovery Methods
- Food Allergy and Anaphylaxis Research
- Biofuel production and bioconversion
- Genomics and Chromatin Dynamics
- RNA and protein synthesis mechanisms
- Allergic Rhinitis and Sensitization
- Analytical Chemistry and Chromatography
- Microbial Natural Products and Biosynthesis
- Fermentation and Sensory Analysis
- Epigenetics and DNA Methylation
- Nutrition, Genetics, and Disease
- DNA Repair Mechanisms
- Gender, Labor, and Family Dynamics
- Gene Regulatory Network Analysis
- Evolution and Genetic Dynamics
- Housing, Finance, and Neoliberalism
- Bacterial Genetics and Biotechnology
- Transgenic Plants and Applications
- Genetics, Bioinformatics, and Biomedical Research
- Genetics, Aging, and Longevity in Model Organisms
University of Massachusetts Chan Medical School
2025
University of Lausanne
2019-2024
University of Toronto
2015-2020
Vrije Universiteit Amsterdam
2008-2012
Society of Environmental Toxicology and Chemistry
2011
Dutch Blood Transfusion Society
1994-1995
We generated a global genetic interaction network for Saccharomyces cerevisiae, constructing more than 23 million double mutants, identifying about 550,000 negative and 350,000 positive interactions. This comprehensive maps interactions essential gene pairs, highlighting genes as densely connected hubs. Genetic profiles enabled assembly of hierarchical model cell function, including modules corresponding to protein complexes pathways, biological processes, cellular compartments. Negative...
Abstract The adaptation of CRISPR/SpCas9 technology to mammalian cell lines is transforming the study human functional genomics. Pooled libraries CRISPR guide RNAs (gRNAs) targeting protein-coding genes and encoded in viral vectors have been used systematically create gene knockouts a variety cancer immortalized lines, an effort identify whether these cause cellular fitness defects. Previous work has shown that screens are more sensitive specific than pooled-library shRNA similar assays, but...
Trigenic interactions in yeast link bioprocesses To dissect the genotype-phenotype landscape of a cell, it is necessary to understand between genes. Building on digenic protein-protein interaction network, Kuzmin et al. created trigenic by using synthetic genetic array (see Perspective Walhout). Triple-mutant analyses indicated that majority genes with associations functioned within same biological processes. These converged networks identified landscape. Although overall effects were weaker...
A global genetic suppression network The background of an organism can influence the overall effects new variants. Some mutations amplify a deleterious phenotype, whereas others suppress it. Starting with literature survey and expanding into genomewide assay, van Leeuwen et al. generated large-scale in yeast. data set reveals general properties that be used to predict interactions. Furthermore, study provides template for extending studies other genes or more complex organisms. Science ,...
A monoclonal antibody to Dermatophagoides pteronyssinus is described that cross-reacts with an IgE-binding antigen present in insects, Crustacea (e.g. shrimp) and other invertebrates. By means of sodium dodecyl sulfate-polyacrylamide gel electrophoresis, filtration immunofluorescence it was shown this presumably recognizes tropomyosin. Tropomyosin be involved cross-reactivity between mite, shrimp insects shrimp-allergic patients.
The fate of genes after duplication Gene within an organism is a relatively common event during evolution. However, we cannot predict the duplicated genes: Will they be lost, evolve, or overlap in function organismal lineage species? Kuzmin et al. explored gene yeast Saccharomyces cerevisiae (see Perspective by Ehrenreich). They examined how experimental deletions one two (paralogs) affected fitness and were able to determine which have likely evolved new essential functions retained...
Article17 September 2020Open Access Transparent process Systematic analysis of bypass suppression essential genes Jolanda van Leeuwen Corresponding Author [email protected] orcid.org/0000-0003-3991-518X Center for Integrative Genomics, Bâtiment Génopode, University Lausanne, Switzerland Donnelly Centre Cellular and Biomolecular Research, Toronto, ON, Canada Search more papers by this author Carles Pons Institute Research in Biomedicine (IRB Barcelona), The Barcelona Science Technology,...
Abstract CRISPR/Cas base editors promise nucleotide-level control over DNA sequences, but the determinants of their activity remain incompletely understood. We measured editing frequencies in two human cell lines for cytosine and adenine at ∼14 000 target sequences find that is sequence-biased, with largest effects from nucleotides flanking base. Whether a edited depends strongly on combination its position preceding base, acting to widen or narrow effective window. The impact features rate...
Abstract The adaptation of CRISPR/Cas9 technology to mammalian cell lines is transforming the study human functional genomics. Pooled libraries CRISPR guide RNAs (gRNAs), targeting protein-coding genes and encoded in viral vectors, have been used systematically create gene knockouts a variety cancer immortalized lines, an effort identify whether these cause cellular fitness defects. Previous work has shown that screens are more sensitive specific than pooled library shRNA similar assays, but...
In the present study, diversity of a library drug-metabolizing bacterial cytochrome P450 (P450) BM3 mutants was evaluated by liquid chromatography-mass spectrometry (LC-MS)-based screening method. A strategy designed to identify minimal set that displays differences in regio- and stereoselectivities is suitable metabolize large fraction drug chemistry space. We first screened activities six structurally diverse toward 43 marketed drugs (encompassing wide range human phenotypes, cLogP values,...
The cloning of DNA fragments is a fundamental aspect molecular biology. Traditional techniques rely on the ligation an insert and linearized plasmid that have been digested with restriction enzymes subsequent introduction ligated into Escherichia coli for propagation. However, this method limited by availability sites, which often becomes problematic when multiple or large fragments. Furthermore, using traditional methods to clone requires experience laborious steps. In protocol, we describe...
Genetic suppression occurs when the phenotypic defects caused by a deleterious mutation are rescued another mutation. Suppression interactions of particular interest for genetic diseases, as they identify ways to reduce disease severity, thereby potentially highlighting avenues therapeutic intervention. To what extent influenced background in which operate remains largely unknown. However, high degree conservation would be crucial developing strategies that target suppressors. gain an...
The phenotype of a mutation often differs across genetically distinct individuals. In the most extreme case, gene can be essential for viability in one genetic background, but dispensable another. Although context-dependency mutant phenotypes is frequently observed, underlying causes remain elusive. Here, we investigated changes responsible differences essentiality 18 diverse natural yeast strains. First, identified 39 genes that were laboratory reference strain not required at least other...
Selected food allergens have been measured in 11 house dust samples. The amount of ovomucoid ranged from 170 to 6,300 ng/g dust. β-lactoglobulin < 16 71 Ovomucoid levels some samples are probably sufficiently high cause sensitization and/or symptoms via inhalation.