A5007675647- Genomics and Phylogenetic Studies
- Pharmacovigilance and Adverse Drug Reactions
- Statistical Methods in Clinical Trials
- Cancer Genomics and Diagnostics
- Complex Network Analysis Techniques
- Molecular Biology Techniques and Applications
- Opinion Dynamics and Social Influence
- Chromosomal and Genetic Variations
- Misinformation and Its Impacts
- Genetic Mapping and Diversity in Plants and Animals
- Genetic Associations and Epidemiology
- Mathematical and Theoretical Epidemiology and Ecology Models
- Spam and Phishing Detection
- HIV, Drug Use, Sexual Risk
- RNA and protein synthesis mechanisms
- Fuzzy Logic and Control Systems
- Pharmacogenetics and Drug Metabolism
- Pharmaceutical Economics and Policy
- Fault Detection and Control Systems
- Pharmaceutical studies and practices
- Biomedical Text Mining and Ontologies
- Genomics and Rare Diseases
- Computational Drug Discovery Methods
- Wikis in Education and Collaboration
- Health Systems, Economic Evaluations, Quality of Life
Centrum Wiskunde & Informatica
2016-2020
Leibniz Institute for Prevention Research and Epidemiology - BIPS
2018-2020
University of Amsterdam
2012-2017
Vrije Universiteit Amsterdam
2017
ITMO University
2013-2016
Abstract Structural variation (SV) represents a major source of differences between individual human genomes and has been linked to disease phenotypes. However, the majority studies provide neither global view full spectrum these variants nor integrate them into reference panels genetic variation. Here, we analyse whole genome sequencing data 769 individuals from 250 Dutch families, haplotype-resolved map 1.9 million across 9 different variant classes, including novel forms complex indels,...
Abstract Many disciplines, from human genetics and oncology to plant breeding, microbiology virology, commonly face the challenge of analyzing rapidly increasing numbers genomes. In case Homo sapiens , number sequenced genomes will approach hundreds thousands in next few years. Simply scaling up established bioinformatics pipelines not be sufficient for leveraging full potential such rich genomic datasets. Instead, novel, qualitatively different computational methods paradigms are needed. We...
Abstract Accurate discovery of somatic variants is central importance in cancer research. However, count statistics on discovered insertions and deletions (indels) indicate that large amounts discoveries are missed because the quantification uncertainties related to gap alignment ambiguities, twilight zone indels, heterogeneity, sample purity, sampling, strand bias. We provide a unifying statistical model whose dependency structures enable accurate all inherent short time. Consequently,...
Abstract Purpose Spontaneous reporting systems (SRSs) are used to discover previously unknown relationships between drugs and adverse drug reactions (ADRs). A plethora of statistical methods have been proposed over the years identify these drug‐ADR pairs. The objective this study is compare a wide variety in their ability detect signals, especially when detection complicated by presence innocent bystanders (drugs that mistaken be associated with ADR, since they prescribed together ADR's...
Taking precautions before or during the start of a virus outbreak can heavily reduce number infected. The question which individuals should be immunized in order to mitigate impact on rest population has received quite some attention literature. dynamics spread through is often represented as information over complex network. strategies commonly proposed determine nodes are selected for immunization involve only one centrality measure at time, while topology network seems suggest that single...
Abstract Structural variation (SV) represents a major source of differences between individual human genomes and has been linked to disease phenotypes. However, the majority studies provide neither global view full spectrum these variants nor integrate them into reference panels genetic variation. Here, we analyse whole genome sequencing data 769 individuals from 250 Dutch families, haplotype-resolved map 1.9 million across 9 different variant classes, including novel forms complex indels,...
Abstract As witnessed by various population-scale cancer genome sequencing projects, accurate discovery of somatic variants has become central importance in modern research. However, count statistics on insertions and deletions (indels) discovered so far point out that large amounts discoveries must have been missed. The reason is the combination uncertainties relating to, for example, gap alignment ambiguities, twilight zone indels, heterogeneity, sample purity, sampling strand bias are...
The criminal nature of narcotics complicates the direct assessment a drug community, while having good understanding type people drawn or currently using drugs is vital for finding effective intervening strategies. Especially Russian Federation this immediate concern given dramatic increase it has seen in abuse since fall Soviet Union early nineties. Using unique data from social network 'LiveJournal' with over 39 million registered users worldwide, we were able first time to identify...
In this paper we present a methodology for gaining better understanding of the contribution behavior, interests and expertise communities Wikipedia users. Starting from list core articles their main editors, identify which other (outside initial list) they contributed to 'significantly'. The ordering is based on (empirical) Bayesian estimates probabilities each articles. By constructing co-contribution network, can general themes community expresses exceptional interest (or disinterest) in....
Taking precautions before or during the start of a virus outbreak can heavily reduce number infected. The question which individuals should be immunized in order to mitigate impact on rest population has received quite some attention literature. dynamics spread through is often represented as information over complex network. strategies commonly proposed determine nodes are selected for immunization involve only one centrality measure at time, while topology network seems suggest that single...
Abstract Cancer is a genetic disorder in the first place. Therefore, next-generation sequencing (NGS) based discovery of somatically acquired variants has gained widespread attention. Computational prediction somatic variants, however, affected by variety confounding factors. In addition to uncertainties that one commonly encounters also germline variation prediction, such as misplaced and/or inaccurate read alignments, cancer heterogeneity and impure samples significantly add issues....