• Carlin DE,Larsen SJ, Sirupurapu V, Cho MH, Silverman EK, Baumbach J, Ideker T (2023) Hierarchical association of COPD to principal genetic components of biological systems. (cosy.bio)
  • The BIOCOM-SC research group will offer three INIREC fellowships to the three best candidates among those applying for the call of the training program on Computational Biology and Complex Systems 2023-2024, for the realization of the TFG/TFM. (upc.edu)
  • The COSHE theme was formed at CEC in 2023 by the members of Computational Biology and Biological Physics (CBBP, formerly at Astronomy and Theoretical Physics) and the Uncertainty and Evidence Lab. (lu.se)
  • 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)
  • 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)
  • Daniel is interested in model-based computational approaches for integrating clinical and pre-clinical information into decision processes. (cityofhope.org)
  • 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)
  • Computational approaches are keys for predictions of the molecular events involved in such cascades. (univr.it)
  • 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)
  • The post is funded as part of a large inter-disciplinary European consortium project on systems approaches to gene regulation biology through nuclear receptors (SYNERGY) which has been funded under the ERASysBio+ initiative. (k4all.org)
  • Here we use systems-biology approaches to predict and confirm the existence of a gene-regulatory network involving dynamic interaction among the transcription factors NF-κB, C/EBPδ and ATF3 that controls inflammatory responses. (nature.com)
  • However, experimental approaches have limitations when dealing with complex biological systems composed of multiple layers of regulation such as the transcriptional and post-transcriptional regulation by transcription factors (TFs) and miRNAs [ 2 ]. (hindawi.com)
  • Most experimental approaches focus on the identification of miRNA targets and the investigation of physiological consequences when perturbing miRNA expressions but are unsuited to provide a system-level interpretation for observed phenomena. (hindawi.com)
  • 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)
  • Generate solutions in personalized medicine by building and utilizing computational models of health and disease. (jhu.edu)
  • This volume is attractive because it addresses important and timely topics for research and teaching on computational methods in cancer research. (routledge.com)
  • The course explores computational methods for biological networks, including network motif discovery, pathway analysis and reconstruction techniques. (helsinki.fi)
  • Thus, there is an urgent need for highly educated researchers who are familiar with molecular and cellular biology and who possess at the same time a rich repertoire of mathematical concepts and methods, understanding of information theory and informatics as well as physics and chemistry. (fu-berlin.de)
  • The qualification concepts of CSB comprise (i) inspiring and challenging research projects for the early-stage scientists embedded in the research program of CSB, (ii) individual supervision and mentoring, (iii) advanced education in concepts and methods of computational systems biology through lectures and practical courses as well as soft skills training, and (iv) early involvement in the research community. (fu-berlin.de)
  • Computational Methods in Systems Biology 2011. (crossref.org)
  • In CIBB 2016 - 13th International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics, Revised Selected Papers (pp.82-92). (unimib.it)
  • Systems and Computational Biology Journal bridge between the basic biology and applied biology which provides new insights into understanding the complex biological systems to develop new drugs, targets, and methods for various diseases. (boffinaccess.com)
  • While there is a wide selection of 'by experts, for experts' books in statistics and molecular biology, there is a distinct need for a book that presents the basic principles of proper statistical analyses and progresses to more advanced statistical methods in response to rapidly developing technologies and methodologies in the field of molecular biology. (environmental-expert.com)
  • Using the RNAseq data generated by our study, we will develop and apply novel network-based computational methods for reconstructing the interactions between malignant and immune subpopulations. (stanford.edu)
  • With computational modeling, researchers can use several data streams and apply mathematical methods to figure out what might happen in a chemical incident or outbreak. (cdc.gov)
  • In this project you will develop computational methods for assembling fragmented (noisy) optical DNA maps into full chromosomal maps for bacteria. (lu.se)
  • Supervised learning with decision tree-based methods in computational and systems biology. (bvsalud.org)
  • This work proposes an approach using current knowledge, available multiple stream data and applying computational methods to advance mixtures risk assessment. (cdc.gov)
  • The Master Programme in Applied Computational Science with specialisation in Biology will give you detailed knowledge about the underlying methods with respect to biology. (lu.se)
  • The Computational Biology and Complex systems group (BIOCOM-SC) involves researchers with a mathematical and/or physical background, from biophysics and nonlinear dynamics to nonequilibrium statistical mechanics or fluid mechanics. (upc.edu)
  • Knowledge in theoretical biophysics and computational physics (corresponding to FYTN05/ BERN05 and FYTN03 , respectively) is helpful but not required. (lu.se)
  • In other words, computational systems biology needs to be paralleled by a quantitative description at the molecular level. (univr.it)
  • Ryan Weber - Senior Biology major with Molecular Cell Biology and Physiology Option and NIH Fellow in the Research Initiative for Scientific Enhancement (RISE) program - for work titled "Sex Differences in Apoptosis-related Gene Expression in the Developing Mouse Cortex and Hippocampus" in the lab of Dr. Houng-Wei Tsai in the Department of Biological Sciences, CNSM. (csulb.edu)
  • Dr. Plevritis is also Director of the Stanford Postdoctoral Scholars Program in Cancer Systems Biology which aims to train the next generation of scholars at the interface of molecular cancer biology and biocomputation. (stanford.edu)
  • Understanding the underlying molecular circuitry in terms of how it governs both a primed state and, at the other extreme, a committed state is of relevance not only to hematopoiesis but also to developmental systems in general. (lu.se)
  • Daniel Abler is a PhD physicist with research experience in applied physics, software- and computational bio-engineering. (cityofhope.org)
  • 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)
  • A Petri net, also known as a place/transition (PT) net, is one of several mathematical modeling languages for the description of distributed systems. (wikipedia.org)
  • Since firing is nondeterministic, and multiple tokens may be present anywhere in the net (even in the same place), Petri nets are well suited for modeling the concurrent behavior of distributed systems. (wikipedia.org)
  • Work at the Computational Systems Biology Lab involves modeling biological systems in the study of complex systems with diverse elements. (stevens.edu)
  • For a better understanding of the regulatory role of miRNAs in coordinating gene expression, we here present a systems biology approach combining data-driven modeling and model-driven experiments. (hindawi.com)
  • The systems biology approach, combining data-driven modeling and model-driven experiments, provides a systematic and comprehensive perspective on the regulatory roles of miRNAs in gene regulatory networks [ 3 - 5 ]. (hindawi.com)
  • Computational modeling is a process that uses computers to simulate and study complex systems using math, physics, and computer science. (cdc.gov)
  • ATSDR's Simulation Science Section uses computational modeling to support a variety of public health research projects and initiatives focused on protecting the health of people and communities. (cdc.gov)
  • Computational modeling helps researchers gain insight into public health issues and efficiently find solutions . (cdc.gov)
  • With computational modeling, researchers can evaluate thousands of hazardous substances to identify potential health risks quickly and inexpensively. (cdc.gov)
  • Computational modeling also allows researchers to g enerate reliable data without using human subjects or lab animals in experiments . (cdc.gov)
  • Computational modeling saves time and resources by maximizing efficiency and filling in data gaps. (cdc.gov)
  • If you're interested in collaborating with ATSDR's Simulation Science Section, or if you'd like to use computational modeling in your research project or initiative, contact Simulation Science Section Chief Patricia Ruiz at [email protected] . (cdc.gov)
  • Citation: Chickarmane V, Enver T, Peterson C (2009) Computational Modeling of the Hematopoietic Erythroid-Myeloid Switch Reveals Insights into Cooperativity, Priming, and Irreversibility. (lu.se)
  • 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)
  • MLCSB is a postgraduate course on aspects of Systems Biology in the School of Informatics at The University of Edinburgh. (ed.ac.uk)
  • Dr. Plevritis is the Director of the Stanford Center for Cancer Systems Biology (CCSB), Director of the Cancer Systems Biology Scholars (CSBS) Program, and the co-Section Chief of the Integrative Biomedical Imaging Informatics at Stanford (IBIIS). (stanford.edu)
  • This work joins together LASIGE's Research Lines of Excellence in Health and Biomedical Informatics and Data and Systems Intelligence . (lasige.pt)
  • Our Centre for Microbiology and Environmental Systems Science is very well represented and is listed 4 times. (univie.ac.at)
  • New Antibody Microarray Tube for Cellular Localization and Signaling Pathways describes a new integrated protein biochip system including protein localization, biocomputing and signaling pathways. (environmental-expert.com)
  • Our model therefore shows the complexity of the interaction between the two pathways and highlights the need for such integrated computational models to give insight into the dysregulation of insulin signalling along with more data at the individual level. (biomedcentral.com)
  • One goal is to illustrate the wealth and diversity of Systems Biology issues for scientists from Computer Science, Mathematics and Physics. (univ-lyon1.fr)
  • Applied computational science can be divided into several components: mathematics, modelling, statistics, and programming. (lu.se)
  • You will also do a course in basic mathematics that will give you knowledge to conduct projects in computational science. (lu.se)
  • Transactions on Computational Systems Biology III. (helsinki.fi)
  • The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems oriented point of view of biological phenomena. (environmental-expert.com)
  • In making advances within Computational Systems Biology there is an acknowledged need for the ongoing development of both probabilistic and mechanistic, possibly multi-scale, models of complex biological processes. (k4all.org)
  • Systems Biology Approach to Study Heterogeneity and Cell Communication Networks in the Tumour Microenvironment. (routledge.com)
  • A dedicated framework for those students who wish to take a computational approach to the study of biology. (ucl.ac.uk)
  • Computational Biology is the newest route within the Biological Sciences degree programme and was designed to offer a dedicated framework for those students who wish to take a computational approach to the study of biology. (ucl.ac.uk)
  • A Practical Approach to Microarray Data Analysis is for all life scientists, statisticians, computer experts, technology developers, managers, and other professionals tasked with developing, deploying, and using microarray technology including the necessary computational infrastructure and analytical tools. (environmental-expert.com)
  • The application of the systems biology approach to the analysis of a gene regulatory network is demonstrated with a case study of the regulation of p21 by multiple miRNAs [ 4 ]. (hindawi.com)
  • Before joining Integra Connect, she interned under Dr. Russell C. Rockne at City of Hope (Department of Computational and Quantitative Medicine, Division of Mathematical Oncology and Computational Systems Biology). (cityofhope.org)
  • Our Research Training Group for Computational Systems Biology (CSB) is embedded in the Berlin research environment with healthcare and clinical research, biotechnology and basic biological research, as well as many strong theoretical groups (e.g. the mathematical research center Matheon). (fu-berlin.de)
  • Unfortunately, the definition of an appropriate mathematical model is typically inaccessible to scientists with a poor computational background, whereas expert users often lack the proficiency required for biologically grounded models. (unimib.it)
  • Over the past 4 years, Daniel has been working on image-based computational models for various body-sites and medical conditions. (cityofhope.org)
  • Computational models are essential in order to integrate and extract knowledge from the large amount of -omics data that are increasingly being collected thanks to high-throughput technologies. (unimib.it)
  • We here present COSYS, a web-based infrastructure for Systems Biology that guides the user through the definition, simulation and analysis of reaction-based models, including the deterministic and stochastic description of the temporal dynamics, and the Flux Balance Analysis. (unimib.it)
  • Computational models used in biology are rapidly increasing in complexity, size, and numbers. (biorxiv.org)
  • These tools need to be able to quantify the differences and similarities between computational models. (biorxiv.org)
  • To extract biological knowledge from the data, and translate it into benefits for society (e.g. better medicine and healthcare), novel computational tools are needed for data analysis and building models. (csbio.org)
  • The data will be used to infer and parameterize systems biology models of cellular function. (k4all.org)
  • Dynamical models based upon known interactions between these master genes, such as mutual antagonism and autoregulation, fail to make the system bistable, a desired feature for robust lineage determination. (lu.se)
  • In the systems biology domain, context-specific models facilitate extracting physiologically relevant information from high-quality data. (bvsalud.org)
  • Our research group works on constructing and refining computational models to describe genetic, epigenetic and metabolic networks. (lu.se)
  • Such systems biology models can, for example, describe how whole populations interact with their environment, how individual cells choose to differentiate into different cell types, or how multicellular systems form patterns and grow new organs in two or three dimensions. (lu.se)
  • Emmanuel Barillot is the head of the Cancer and Genome: Bioinformatics, Biostatistics and Epidemiology of a Complex System department and scientific director of the bioinformatics platform at Institut Curie. (routledge.com)
  • He proposes to use computer simulation technology to design and evaluate the human interactive robots and is now pushing new research field called computational robotics which will introduce supercomputer in studying super redundant biologic motor control functions and human-robot interface. (who.int)
  • The group is part of COSHE, the Computational Science for Health and Environment theme at CEC. (lu.se)
  • 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)
  • Harness the power of the immune system to treat diseases such as cancer and promote tissue regeneration for improved healing and repair. (jhu.edu)
  • To enrich our ability for interpretation, we will explore signatures of the immune system in a pan-cancer analysis using the TCGA datasets annotated with time to distant metastasis, in the context of node-negative and nodepositive patients. (stanford.edu)
  • We hypothesize that pan-cancer genes whose expression is strongly associated with time to distant metastasis are more likely to be associated with tumor-intrinsic or microenvironmental processes driving metastasis progression, thus we will prioritize these genes in our integrative computational analysis of our melanoma and head and neck squamous cell carcinoma datasets. (stanford.edu)
  • She served as PI in the NCI Integrative Cancer Biology Program for the past 10 years, currently as the Director of the Stanford Center in Cancer Systems Biology (CCSB). (stanford.edu)
  • Having pursued a career path that spans multiple disciplines, she was drawn to cancer systems biology research as it propels the intersection of diverse scientific concepts with the goal of unraveling the complexity of cancer and ultimately defeating this disease through improvements in early detection and treatment strategies. (stanford.edu)
  • I was first excited about CaSB because of how interdisciplinary it was, and I love how it gives me a unique opportunity to explore all the different fields I'm interested in, whether it's biology, math, or data science. (ucla.edu)
  • The Stevens Institute for Artificial Intelligence (SIAI) is an interdisciplinary, tech-driven collaboration of engineering, business, systems and design experts working toward solving pressing global problems in industry and the world. (stevens.edu)
  • This interdisciplinary research is conducted in close collaboration with researchers in medicine and biology. (lu.se)
  • While these fields of knowledge are traditionally taught separately, systems biology requires researchers who can combine such skills. (fu-berlin.de)
  • Systems and Computational Biology Journal is also encourages the associations among scientific communities and collaborations between individual researchers. (boffinaccess.com)
  • The editor invites all researchers to submit their articles and get published in Systems and Computational Biology Journal and accepted papers will be available online within 7 days in various file formats. (boffinaccess.com)
  • Systems and Computational Biology Journal improve the readership to your article by distribute among researchers of the same field. (boffinaccess.com)
  • Computational biology involves the application of computers and computer science to the understanding and modelling of biological structures and processes. (ucl.ac.uk)
  • Our group also has connections to plant biology through the Sainsbury Laboratory at the University of Cambridge. (lu.se)
  • Biology has turned into a quantitative, information-driven science. (fu-berlin.de)
  • 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)
  • We will develop and apply computational tools to integrate the complex datasets generated by our Center in order to identify candidate mediators of tumor-immune interactions that induce immunosuppression for functional validation. (stanford.edu)
  • In addition to knowledge of theory of computational science, there will be an emphasis on obtaining knowledge about the practical tools that are used by professionals in the field and you will amongst several things train your skills in programming. (lu.se)
  • Mariana Leyva - Senior Biology major and Scholar in the NIH T34 Maximizing Access to Research Careers (MARC) program- for work titled "The Impact of Increasing Global Temperature on Parasite-host Interactions of the Brown-headed Cowbird (Molothrus ater)" from their summer research experience with Dr. David Karowe (Western Michigan University) and Dr. Jason Price (St. Mary's College of Maryland). (csulb.edu)
  • Systems and Computational Biology Journal connects various research groups around the globe through its open discussion forums. (boffinaccess.com)
  • Here, we characterize gene expression patterns in distinct neural cell types of the Drosophila visual system using genetic lines to access individual cell types, the TAPIN-seq method to measure their transcriptomes, and a probabilistic method to interpret these measurements. (biorxiv.org)
  • We develop a computational model for the hematopoietic erythroid-myeloid lineage decision, which is determined by a genetic switch involving the genes PU.1 and GATA-1. (lu.se)
  • I am currently an undergraduate researcher in the Zaitlen Lab, working with whole-exome sequencing data to look at the relationships between immune system diversity, complex diseases, and geographic locations. (ucla.edu)
  • The innate immune system is like a double-edged sword: it is absolutely required for host defense against infection, but when uncontrolled, it can trigger a plethora of inflammatory diseases. (nature.com)
  • Our results suggest a mechanism that enables the innate immune system to detect the duration of infection and to respond appropriately. (nature.com)
  • Kobayashi, K.S. & Flavell, R.A. Shielding the double-edged sword: negative regulation of the innate immune system. (nature.com)
  • for example, we study how immune system cells decide to mature or how skin cells can be directly reprogrammed into neurons or stem cells. (lu.se)
  • Like physics in the first half of the twentieth century, biology now generates very challenging questions and masses of data that drive the development of theory and technology. (fu-berlin.de)
  • In the first year of the biology specialisation, you will start studying courses in bioinformatics focusing on data handling and programming. (lu.se)
  • In contrast to artificial systems, animals must forage for food. (lu.se)
  • Many artificial systems, including robots and laptop computers, have circuitry in place to measure energy consumption. (lu.se)
  • inproceedings{c213b5f9-0ac9-40a2-a6f2-9e133b20c740, abstract = {{In contrast to artificial systems, animals must forage for food. (lu.se)
  • Can we interest you in a thesis project in artificial neural networks, systems biology, bionanophysics or quantum computing? (lu.se)