Search results for "GENOMICS"
showing 10 items of 1255 documents
A genetic system based on simulated crossover of sequences of two-bit genes
2006
AbstractWe introduce a genetic model based on simulated crossover of fixed sequences of two-bit genes. Results are(1)a lower bound on population size is exhibited such that a transition takes the stochastic finite population genetic system near the next state of the deterministic infinite population genetic system (provided both begin in the same state);(2)states and dynamics of the deterministic infinite population genetic system are derived for arbitrary (finite) fitness functions (expressed in terms of multivariate polynomials);(3)in the case of quadratic fitness defined by weight matrices with m nonnull entries it is shown that each state transition can be implemented in time O(m+l), wh…
Heterogeneity in the Response of Different Subtypes of Drosophila melanogaster Midgut Cells to Viral Infections
2021
This article belongs to the Section Viral Immunology, Vaccines, and Antivirals.
Sequencing, De Novo Assembly and Annotation of the Colorado Potato Beetle, Leptinotarsa decemlineata, Transcriptome
2012
Background. The Colorado potato beetle (Leptinotarsa decemlineata) is a major pest and a serious threat to potato cultivation throughout the northern hemisphere. Despite its high importance for invasion biology, phenology and pest management, little is known about L. decemlineata from a genomic perspective. We subjected European L. decemlineata adult and larval transcriptome samples to 454-FLX massively-parallel DNA sequencing to characterize a basal set of genes from this species. We created a combined assembly of the adult and larval datasets including the publicly available midgut larval Roche 454 reads and provided basic annotation. We were particularly interested in diapause-specific g…
OSAnalyzer
2018
OSAnalyzer is a software tool able to compute the overall survival (OS) and progression-free survival (PFS) of cancer patients and evaluate their association with ADME gene variants.
Abstract 5109: Beyond malaria: Second career of artesunate as cancer drug
2017
Abstract More than a decade ago, we initiated a research program on the molecular pharmacology of phytochemicals derived from Chinese medicinal herbs. Bioactive plant extracts have been fractionated by chromatographic techniques. We isolated bioactive compounds and elucidated their chemical structures by nuclear magnetic resonance and mass spectrometry. A promising compounds was artemisinin from Artemisia annua L. and its semisynthetic compound artesunate. Artemisinin and artesunate are anti-malarial drugs. Our data indicated profound activity against cancer cells, but also against various viruses, Schistosoma, Trypanosoma, and even plant crown gall tumors. To elucidate the molecular mode o…
CYP3 phylogenomics: evidence for positive selection of CYP3A4 and CYP3A7.
2008
CYP3A metabolizes 50% of currently prescribed drugs and is frequently involved in clinically relevant drug interactions. The understanding of roles and regulations of the individual CYP3A genes in pharmacology and physiology is incomplete.Using genomic sequences from 16 species we investigated the evolution of CYP3 genomic loci over a period of 450 million years.CYP3A genes in amniota evolved from two ancestral CYP3A genes. Upon the emergence of eutherian mammals, one of them was lost, whereas, the other acquired a novel genomic environment owing to translocation. In primates, CYP3A underwent rapid evolutionary changes involving multiple gene duplications, deletions, pseudogenizations, and …
Pharmacogenomics in colorectal carcinomas: Future perspectives in personalized therapy
2005
The recent introduction of new drugs such as capecitabine, irinotecan, and oxaliplatinum has greatly improved the clinical outcome of patients with advanced/metastatic colorectal cancer. Nevertheless, some patients may suffer from the adverse drug reactions which will probably be the main cause of chemotherapy failure. The goal of pharmacogenomics is to find correlations between therapeutic responses to drugs and the genetic profiles of patients; the different responses to a particular drug are due, in fact, not only to the specific clinico-pathological features of the patient or to environmental factors, but also to the ethnic origins and the particular individual's genetic profile. Genes …
Herbal Medicines: Boon or Bane for the Human Liver?
2016
Since ages, medicine is the most consistent companion of man. While in primeval time, disease was cured through natural preparations, onset of technology has made today’s formulations synthetic or nature derived. Across the ages, the plausibility of the “savior-turned-slayer” functionality of these drugs remained constant. With the increment in documentation, it becomes evident that many of the commonly used drugs are associated with toxicities. Thus, any drug, irrespective of its origin, needs to be thoroughly assessed. Rampant use of herbal drugs has often been a threat to human health owing to the scarcity in quality assessment. What needs to be understood is that everything natural is n…
Inferring slowly-changing dynamic gene-regulatory networks
2015
Dynamic gene-regulatory networks are complex since the interaction patterns between their components mean that it is impossible to study parts of the network in separation. This holistic character of gene-regulatory networks poses a real challenge to any type of modelling. Graphical models are a class of models that connect the network with a conditional independence relationships between random variables. By interpreting these random variables as gene activities and the conditional independence relationships as functional non-relatedness, graphical models have been used to describe gene-regulatory networks. Whereas the literature has been focused on static networks, most time-course experi…
Pathway network inference from gene expression data
2014
[EN] Background: The development of high-throughput omics technologies enabled genome-wide measurements of the activity of cellular elements and provides the analytical resources for the progress of the Systems Biology discipline. Analysis and interpretation of gene expression data has evolved from the gene to the pathway and interaction level, i.e. from the detection of differentially expressed genes, to the establishment of gene interaction networks and the identification of enriched functional categories. Still, the understanding of biological systems requires a further level of analysis that addresses the characterization of the interaction between functional modules. Results: We presen…