PLOS ComputaBioinformaticsMethodsField of computational biologyMolecularToxicologyTheoreticalInterdisciplinaryBiomarkersQuantitativeGeneticsGenomicEpidemiologyPhysicsBiosciencesInteractionsChemistryIntegrativeSystemsInvolvesMachineClinicalEvolutionaryTheoryModelingAbstractResearchResearchersIntegrationSearchBiologicalDataPersonalized medicineFrameworkProteinsToolsCancer biologyAnalysis approachesChallengesToday'sInnovationsMechanismsGeneExperimental
PLOS Computa1
- This is an "Editors' Outlook" article for PLoS Computational Biology . (plos.org)
Bioinformatics2
- Beyond recent advances in genomic and phenomic methods, bioinformatics tools and modeling approaches enable researchers to test hypothesis and expand our knowledge of fungal biodiversity. (frontiersin.org)
- In recent decades, Information Theory has contributed to significant advances in Computational Biology and Bioinformatics across a broad range of topics. (mdpi.com)
Methods14
- This volume is attractive because it addresses important and timely topics for research and teaching on computational methods in cancer research. (routledge.com)
- It covers a broad variety of approaches, exposes recent innovations in computational methods, and provides acces to source code and to dedicated interactive web sites. (routledge.com)
- The coverage of topics is diverse: from pathway resources, through methods for data analysis and single data analysis to drug response predictors, classifiers and image analysis using machine learning and artificial intelligence approaches. (routledge.com)
- The accessibility of almost complete genome sequences of uncultivable microbial species from metagenomes necessitates computational methods predicting microbial phenotypes solely based on genomic data. (biomedcentral.com)
- With the recent rising application of mathematical models in the field of computational systems biology, the interest in sensitivity analysis methods had increased. (aalto.fi)
- We consider two methods in the deterministic approach, namely the direct differential method and the finite difference method, and five methods in the stochastic approach, namely the Girsanov transformation, the independent random number method, the common random number method, the coupled finite difference method and the rejection-based finite difference method. (aalto.fi)
- The reviewed methods are compared in terms of sensitivity values and computational time to identify differences in outcome that can highlight conditions in which one approach performs better than the other. (aalto.fi)
- Today's data sets are of such magnitude and complexity that advanced computational methods are essential for data analysis, management and dissemination. (jax.org)
- The course explores computational methods for biological networks, including network motif discovery, pathway analysis and reconstruction techniques. (helsinki.fi)
- However, the aim of computational design methods is not finding all possible solutions, but at least one solution that fits the required properties. (hindawi.com)
- His research involves modern computing approaches, innovative machine learning methods and IT- related collaboration. (foresight.org)
- Recognise problems that can be approached with Monte Carlo or molecular dynamics methods. (lu.se)
- We use computational protein design methods to change protein sequence in order to modify the oligomerization properties of coiled coils. (lu.se)
- We use structure based modeling and computational protein design methods to optimize the protein sequence of proteins and peptides in order to control their assembly. (lu.se)
Field of computational biology1
- The book provides an important reference and teaching material in the field of computational biology in general and cancer systems biology in particular. (routledge.com)
Molecular11
- An interpretable machine learning approach can recapitulate the molecular features associated to immune protein-protein binding and leverage them for the prediction of immune response specificity. (elifesciences.org)
- 2004. Molecular modelling approaches to the design of acetylcholinesterase inhibitors: new challenges for the treatment of Alzheimer's disease . (ub.edu)
- Due to the fact that molecular dynamics simulations are very expensive regarding computational time, new fitness functions have to be introduced without loosing predictive power. (hindawi.com)
- Informatics can vastly assist progress in research and development in cell and molecular biology and biomedicine. (cshlpress.com)
- I'm excited about continuing and extending our data integration efforts in the lab with this award," said Singh, who is a member of Brown's Center for Computational Molecular Biology . (brown.edu)
- Integration of computational systems biology and machine learning analysis of the Hsp90 interactions with oncogenic kinase mutants is then used to construct models of allosteric regulation of oncogenic proteins by molecular chaperones in signaling cascades. (utoronto.ca)
- Based on these findings, we developed a computational synthetic biology framework for design and re-engineering signal transduction networks and pathways that involve cross-talk between molecular chaperones and protein kinase clients. (utoronto.ca)
- Background: The Next Generation (NexGen) of Risk Assessment effort is a multiyear collaboration among several organizations evaluating new, potentially more efficient molecular, computational and systems biology approaches to risk assessment. (cdc.gov)
- However, currently there is much excitement about big data and machine learning in materials and molecular modelling, and about the opportunities that these approaches may bring. (lu.se)
- So-called lock-and-key interactions, i. e., the preferred association of molecular building blocks with complementary shapes, are omnipresent in biology, where they for example describe the interactions between enzymes and their substrates. (lu.se)
- This approach from the molecular world has now been successfully transferred to the colloidal domain, i.e. to much larger synthetic particles with complementary shapes. (lu.se)
Toxicology1
- "Systems Biology and Biomarkers of Early Effects for Occupational Exposure Limit Setting " suggests a systems biology approach that uses biomarkers of effect with computational toxicology tools to enable more accurate and timely assessments of chemical exposures. (cdc.gov)
Theoretical2
- Multiple projects are available that focus on the theoretical and computational investigation of the structural and dynamic properties of membrane protein systems. (epfl.ch)
- The first five projects are predetermined and from different subject areas (e.g., astronomy, computational biology, theoretical chemistry, particle physics and medical radiation physics). (lu.se)
Interdisciplinary4
- The project is highly interdisciplinary, includes experimental and computational aspects and interactions with a diverse network of collaborators. (epfl.ch)
- If these sound to you like interesting questions and approaches to be explored in a challenging and interdisciplinary PhD, please apply to the program and contact the Oates lab via [email protected] . (epfl.ch)
- UCCB is an interdisciplinary centre of excellence for statistical and computational analysis of the fast-growing data available in genetics and biology. (ucl.ac.uk)
- Projects are often interdisciplinary in nature, combining biology and chemistry and/or computational approaches, or bridging different disease areas. (novartis.com)
Biomarkers1
- In this talk I will describe several vignettes that highlight the power of computational and systems biology approaches to discover and validate robust cancer biomarkers. (irbbarcelona.org)
Quantitative3
- Zoologists use a wide range of approaches to do this, from applying genetic techniques to observing animal behaviour to using quantitative statistics to answer cutting-edge questions about the natural world. (manchester.ac.uk)
- Brooke is pursuing a research career combining quantitative genomics, computational biology, and clinical application to fulfill the promise of Precision Medicine. (ntnu.no)
- Candidates with experience in computational and/or quantitative biology will be given special consideration. (mskcc.org)
Genetics4
- Our lab develops and leverages advanced microscopy, machine learning, genetics, and computational modeling approaches to address systems-level questions. (epfl.ch)
- The range of topics covered will equip the students with the knowledge and skills to address biological problems in genetics, cell biology, evolutionary biology and ecology using a variety of computational tools and analytical approaches. (ucl.ac.uk)
- GEE has been home to some of the greatest figures of evolutionary biology and genetics from JBS Haldane , Peter Medawar and Sue Povey to our current world-leading scientists. (ucl.ac.uk)
- Our approach is rooted in the causal inferences made possible by advances in human genetics, including GWAS and Mendelian Randomisation, but also includes epigenetics, transcriptomics and network biology. (cam.ac.uk)
Genomic3
- Looking to the future, the pairing of integrative taxonomy approaches with multi-locus genomic sequencing and phenomic techniques, such as transcriptomics and proteomics, holds great potential to resolve many unknowns in fungal taxonomic classification. (frontiersin.org)
- We are also analyzing whole-genome structure, identifying gene networks and understanding gene expression and its regulation, constructing computational models from genomic data so that function and dysfunction can be predicted based on established patterns, and more. (jax.org)
- There is now evidence that approaches using medical history-based screening alone fail to identify most individuals with genetic diseases associated with preventable deaths from cancer and heart disease, most notably, hereditary breast and ovarian cancer, Lynch syndrome and familial hypercholesterolemia (CDC Tier 1 genomic applications). (cdc.gov)
Epidemiology1
- These lively debates have been important for reaching consensus on how to communicate across scientific disciplines and for advancing innovative strategies to study evolution, population biology, ecology, natural history, and disease epidemiology. (frontiersin.org)
Physics3
- Students with a background in biochemistry, physics, bioengineering and computational sciences are encouraged to apply. (epfl.ch)
- Researchers in computational chemistry, physics, biology and engineering traditionally use physics-based models. (lu.se)
- For more information, to the sensitivity of climate systems and the capacity of exoplanets see: https://www.fysik.lu.se/en/masters-programme-physics- to support life. (lu.se)
Biosciences1
- Our course has Advanced Accreditation from the Royal Society of Biology , which recognises academic excellence in the biosciences and highlights degrees that educate the research and development leaders and innovators of the future. (manchester.ac.uk)
Interactions4
- We highlight the relevance of eco-evolutionary theory used in conjunction with integrative taxonomy approaches to improve the understanding of interactions between environment, ecology, and evolution that give rise to distinct species boundaries. (frontiersin.org)
- An agent-based model ( ABM ) is a computational model for simulating the actions and interactions of autonomous agents (both individual or collective entities such as organizations or groups) in order to understand the behavior of a system and what governs its outcomes. (wikipedia.org)
- The synergistic roles of the Hsp90-Cdc37 chaperone machinery and protein kinases in biology and disease have stimulated extensive structural and functional studies of regulatory mechanisms underlying the Hsp90-kinase interactions. (utoronto.ca)
- Repeat proteins feature prominently in biology and serves as a diverse scaffold for protein-protein interactions. (lu.se)
Chemistry2
- Journal of computational chemistry. (ub.edu)
- Computational Biology and Chemistry Research Group, Catholic University of Santa María, Urb. (bvsalud.org)
Integrative2
- We report the results of integrative systems biology studies of the Hsp90 chaperone and protein kinases with an atomic level analysis of the communication pathways regulating conformational equilibrium of theses protein systems in signaling networks. (utoronto.ca)
- In this seminar I will review the approaches we take in GSK to identify and validate drug targets through integrative analysis of large scale 'omic and epidemiological data. (cam.ac.uk)
Systems15
- This book focuses on computational systems biology approaches, with a particular lens on tackling one of the most challenging diseases - cancer. (routledge.com)
- The book presents a list of modern approaches in systems biology with application to cancer research and beyond. (routledge.com)
- Systems Biology Approach to Study Heterogeneity and Cell Communication Networks in the Tumour Microenvironment. (routledge.com)
- Second, I will describe a systems biology framework to elucidate the role of chromatin state in mediating response to a common class of chemotherapeutic agents, drawing on both in vitro and in vivo data with implications for breast cancer patient stratification and treatment decision making (Seoane et al. (irbbarcelona.org)
- The stochastic approach, based on chemical master equations, and the deterministic approach, based on ordinary differential equations (ODEs), are the two main approaches for analyzing mathematical models of biochemical systems. (aalto.fi)
- In this work, the performance of these approaches to compute sensitivity coefficients is explored in situations where stochastic and deterministic simulation can potentially provide different results (systems with unstable steady states, oscillators with population extinction and bistable systems). (aalto.fi)
- Our systems biology strategy to inves. (researchgate.net)
- Transactions on Computational Systems Biology III. (helsinki.fi)
- It combines elements of game theory , complex systems , emergence , computational sociology , multi-agent systems , and evolutionary programming . (wikipedia.org)
- [1] A review of recent literature on individual-based models, agent-based models, and multiagent systems shows that ABMs are used in many scientific domains including biology , ecology and social science . (wikipedia.org)
- The successful applicant will be co-mentored by Dr. Dana Pe'er, Chair of the Computational and Systems Biology Program at the Sloan Kettering Institute. (mskcc.org)
- The results of biophysical and computational systems biology analyses combined with proteomics experiments have been integrated into a graph-based network model of allosteric regulation. (utoronto.ca)
- This talk is part of the Computational and Systems Biology series. (cam.ac.uk)
- Several population-based biobanks and health systems are using a genome-first approach to use results of genetic testing for pathogenic and likely pathogenic variants associated with these conditions in clinical practice. (cdc.gov)
- Also, the webinar will provide updates on how biobanks and health systems use genome-first approaches to genetic testing for clinical practice. (cdc.gov)
Involves2
- A Feature Paper should be a substantial original Article that involves several techniques or approaches, provides an outlook for future research directions and describes possible research applications. (mdpi.com)
- Computational biology involves the application of computers and computer science to the understanding and modelling of biological structures and processes. (ucl.ac.uk)
Machine3
- This idea was taken up in research on unsupervised learning, in particular the Analysis by Synthesis approach, branches of machine learning. (wikipedia.org)
- J.P Vert: Reconstruction of biological networks by supervised machine learning approaches. (helsinki.fi)
- Singh's award, totaling $1.9 million, will support her work developing machine learning approaches to reveal gene regulation mechanisms in diseases. (brown.edu)
Clinical1
- Our computational biology work investigates the precise makeup of both mouse and human genomes and the similarities (and important differences) important for translating preclinical research to clinical benefit. (jax.org)
Evolutionary1
- In this work, we generated and optimized a new synthetic fusion protein using an evolutionary approach. (hindawi.com)
Theory1
- This approach, with its emphasis on behavioral outcomes as the ultimate expressions of neural information processing, is also known for modeling sensory and motor decisions using Bayesian decision theory. (wikipedia.org)
Modeling1
- and (3) approaches to ally, understanding ADME leads to a more complete use of integrating PBPK model outputs with other HHRA tools, including biological and toxicological data to support route-to-route and benchmark dose modeling. (cdc.gov)
Abstract1
- Abstract: The selection of a drug target is the first step of a process that consumes huge quantities of time and money in both academia and the biotech and pharma industries, but truly objective data driven approaches to this problem are still in their infancy. (cam.ac.uk)
Research5
- When we think of biology research, we usually think of traditional "wet" labs where experiments are performed and data are generated. (jax.org)
- But much of our research these days is computational, done in what are known as "dry" labs. (jax.org)
- Dr Bauer's research focusses on the computational modelling and analysis of biological dynamics, in particular those of the brain. (foresight.org)
- BioDynaMo is a high-performance platform for computational biology, as well as an important research and educational tool. (foresight.org)
- With a background in computational biology, Raquel's research focuse. (lu.se)
Researchers1
- MultiPark researchers have discovered a new promising pharmacological approach stimulating recovery after stroke. (lu.se)
Integration1
- Nick's enthusiasm for the future stems from the integration of DDLS fellows, aiming to enhance computational biology training. (lu.se)
Search1
- 5.4 Schematic representation of the parallel Scatter Search approach (comp. (grin.com)
Biological1
Data2
- With the availability of massive amounts of data in biology, the need for advanced computational tools and techniques is becoming increasingly important and key in understanding biology in disease and healthy states. (routledge.com)
- The rapid, unprecedented increase in the availability of relevant data from various digital sources creates considerable technical and computational challenges. (plos.org)
Personalized medicine1
- In this talk we will introduce probabilistic approaches to challenges in computational biology and personalized medicine based on Gaussian process models. (videolectures.net)
Framework1
Proteins1
Tools2
- Tools and Approaches. (routledge.com)
- This sense of apprehension results from improper communication of the principles behind these approaches and of the value of the many tools available. (cshlpress.com)
Cancer biology1
Analysis approaches1
- Network modelling and percolation analysis approaches were used to emulate thermal unfolding and characterize conformational landscapes of a wide range of protein kinases, revealing that chaperone dependency of protein kinase clients may be linked with the elevated conformational mobility of their inactive states induced by dynamic and energetic polarization of kinase lobes. (utoronto.ca)
Challenges1
- In this review we discuss these major challenges and describe methodological approaches that show promise for resolving ambiguity in fungal taxonomy by improving discrimination of genetic and functional traits. (frontiersin.org)
Today's1
- What's new and challenging about today's approaches to cognitive enhancement? (gpascalzachary.com)
Innovations1
- Will computational biology, throuugh the marriage of digital and bio-medical innovations, result in widespread examples of "super consciousness" -- enhancements in cognition that have little or no side effects or drawbacks for humans of any age. (gpascalzachary.com)
Mechanisms1
- Postdoctoral Fellows with an interest in single-cell approaches and mechanisms of cellular heterogeneity in cancer are encouraged to apply. (mskcc.org)
Gene1
- A major goal in post-genome biology is the complete mapping of the gene regulatory networks for every organism. (ku.dk)
Experimental1
- with experimental approaches. (lu.se)