Prediction of protein solvent accessibility using PSO-SVR with multiple sequence-derived features and weighted sliding window...
BMC Struct Bio. 2006;6:19-29.View ArticleGoogle Scholar. *. Zhang J, Zhao X, Sun P, Gao B, Ma Z. Conformational B-Cell Epitopes ... handling of singularities and computational efficiency. J Comp Chem. 1993;14:1272-80.View ArticleGoogle Scholar. ...https://biodatamining.biomedcentral.com/articles/10.1186/s13040-014-0031-3
Biological and Environmental Systems | Argonne National Laboratory
He is also associate division director of the Institute of Genomics and Systems Biology. He trained as a computer scientists ... Folker Meyer is a computational biologist at Argonne National Laboratory and a senior fellow at the Computation Institute at ...http://www.anl.gov/photos/biological-and-environmental-systems
SeqGSEA - Gene Set Enrichment Analysis of RNA-Seq Data | RNA-Seq Blog
Postdoctoral Training Fellow - Computational Biology. *SIDR - simultaneous isolation and parallel sequencing of genomic DNA and ... RNA-Seq answers long-standing question in evolutionary biology. September 6, 2011 ...http://www.rna-seqblog.com/seqgsea-gene-set-enrichment-analysis-of-rna-seq-data/
The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes | Plant Methods | Full Text
Computational Biology. Edited by: Gascuel O, Sagot M-F. 2001, 111-125.View ArticleGoogle Scholar. ... Feschotte C, Pritham EJ: Computational analysis and paleogenomics of interspersed repeats in eukaryotes. Computational Genomics ... Tropical Plant Biology. 2008, 1: 85-96.View ArticleGoogle Scholar. *. Bao Z, Eddy SR: Automated de novo identification of ... Stein L: Genome annotation: from sequence to biology. Nat Rev Genet. 2001, 2: 493-503.View ArticlePubMedGoogle Scholar. ...https://plantmethods.biomedcentral.com/articles/10.1186/1746-4811-5-8
Cancer systems biology - Wikipedia
Computational Systems Biology of Cancer. Chapman & Hall/CRC Mathematical & Computational Biology. p. 461. ISBN 978-1439831441. ... Systems biology List of systems biology research groups Bioconductor Wang, Edwin. Cancer Systems Biology. Chapman & Hall, 2010 ... Cancer systems biology approaches, therefore, are based on the use of computational and mathematical methods to decipher the ... Cancer systems biology encompasses the application of systems biology approaches to cancer research, in order to study the ...https://en.wikipedia.org/wiki/Cancer_systems_biology
Genome survey sequence - Wikipedia
In the fields of bioinformatics and computational biology, Genome Survey Sequences (GSS) are nucleotide sequences similar to ... "ReRep: Computational detection of repetitive sequences in genome survey sequences (GSS)." Bmc Bioinformatics 9.1 (2008): 366. ... "ReRep: Computational detection of repetitive sequences in genome survey sequences (GSS)." Bmc Bioinformatics 9.1 (2008): 366. ... Cardelli M (2011). "Alu PCR". Methods Mol Bio. 687: 221-9. doi:10.1007/978-1-60761-944-4_15. PMID 20967611. Tsugeki R, Olson ML ...https://en.wikipedia.org/wiki/Genome_survey_sequence
Computational Systems Biology
Dr Philip Lewis is an Honorary Reader in the Cell and Developmental Biology department at UCL. His work focuses on mathematical ... Understand the uses of modelling in biology with reference to examples drawn across the spectrum of bioscience research. ... Research in the field of Systems Biology is highly interdisciplinary. It often involves biologists working with colleagues from ... and computational approaches to biological research. He delivers the Dynamic Biological Systems module to UCL undergraduates ...http://www.ucl.ac.uk/prospective-students/study-abroad-ucl/summer-school/modules/computational-systems-biology
James Noonan, PhD > Computational Biology & Bioinformatics | Biological and Biomedical Sciences | Yale...
Yale Combined Program in the Biological and Biomedical Sciences (BBS): Computational Biology and Bioinformatics: Computational ... Comp Bio Track BBS Program Yale University PO Box 208009 New Haven CT 06520-8114 203.737.6029 firstname.lastname@example.org ... Noonan received his undergraduate degree in Biology and English Literature (Honors) from Binghamton University in upstate New ... Evolutionary Biology; Genetics and Genomics; Human Disease; Neurobiology ...http://bbs.yale.edu/computational/people/james_noonan.profile
Haifan Lin, PhD > Computational Biology & Bioinformatics | Biological and Biomedical Sciences | Yale...
Computational Biology and Bioinformatics , Molecular Cell Biology, Genetics and Development: Cell Biology; Development; ... Journal of Cell Biology (2009-), Current Opinion in Cell Biology (2009-), Cell Research (2010-), Stem Cell Reports (2013-), ... Comp Bio Track BBS Program Yale University PO Box 208009 New Haven CT 06520-8114 203.737.6029 email@example.com ... Lin has served on Editorial Boards of Stem Cells (2005-2008), Biology of Reproduction (2009-2010), Cell Stem Cells (2007-), ...http://bbs.yale.edu/computational/people/haifan_lin.profile
PLOS Computational Biology: Analysis of Surface Protein Expression Reveals the Growth Pattern of the Gram-Negative Outer...
... we generated simulated fluorescence images and directly compared analyses of our experimental and computational results to ...http://journals.plos.org/ploscompbiol/article/comments?id=10.1371/journal.pcbi.1002680
PLOS Computational Biology: Inference of Genotype-Phenotype Relationships in the Antigenic Evolution of Human Influenza A (H3N2...
We have developed a computational method for the inference of phenotypic impact of genotypic changes that is applicable to any ...http://journals.plos.org/ploscompbiol/article/figure?id=10.1371/journal.pcbi.1002492.t001
PLOS Computational Biology: UV-Induced Mutagenesis in Escherichia coli SOS Response: A Quantitative Model
Author SummaryUltraviolet light damages the DNA of cells, which prevents duplication and thereby cell division. Bacteria respond to such damage by producing a number of proteins that help to detect, bypass, and repair the damage. This SOS response system displays intricate dynamical behavior-in particular the tightly regulated turn-on and turn-off of error-prone polymerases that result in mutagenesis-and the puzzling resurgence of SOS gene activity 30-40 min after irradiation. In this paper, we construct a mathematical model that systematizes the known structure of the SOS subnetwork based on experimental facts, but which remains simple enough to illuminate the specific functional role of each regulatory process. We can thereby identify the interactions and feedback mechanisms that generate the on-off nature of mutagenesis.http://journals.plos.org/ploscompbiol/article/related?id=10.1371/journal.pcbi.0030041
Citation Machine: Ieee/Acm Transactions On Computational Biology And Bioinformatics format citation generator for government...
Cite your government publication in IEEE/ACM Transactions on Computational Biology and Bioinformatics format for free. ...http://www.citationmachine.net/ieee-acm-transactions-on-computational-biology-and-bioinformatics/cite-a-govt
Sam Beck, Ph.D., Joins MDI Biological Laboratory Faculty in Computational Biology - MDI Biological Laboratory
Beck uses computational biology and bioinformatics to understand the biology of aging, as well as the biology of cancer stem ... His interest in computational biology was also inspired by life experience - specifically, a need to do more with less. When he ... HomeNewsPress ReleasesSam Beck, Ph.D., Joins MDI Biological Laboratory Faculty in Computational Biology ... Sam Beck, Ph.D., Joins MDI Biological Laboratory Faculty in Computational Biology. Research Will Focus on Progeria, Which ...https://mdibl.org/press-release/sam-beck-ph-d-joins-mdi-biological-laboratory-in-computational-biology/
A primer on learning in Bayesian networks for computational biology - White Rose Research Online
1 more author) (2007) A primer on learning in Bayesian networks for computational biology. PLoS Computational Biology, 3 (8). ... The University of Leeds , Faculty of Biological Sciences (Leeds) , School of Molecular and Cellular Biology (Leeds). ...http://eprints.whiterose.ac.uk/7942/
PLOS Computational Biology: Modeling Networks of Coupled Enzymatic Reactions Using the Total Quasi-Steady State Approximation
Author SummaryThe physiological responses of a cell to its environment are controlled by gene-protein interaction networks of great complexity. To understand how information is processed in these networks requires accurate mathematical models of the dynamical behavior of large sets of coupled chemical reactions. To avoid producing large and hardly manageable models, such reaction networks are often simplified using phenomenological reaction rate laws, such as the Michaelis-Menten rate law for an enzyme-catalyzed reaction. We show that, in regulatory networks where proteins swap places as enzymes and substrates, such simplifications must be carried out with care, keeping track of enzyme-substrate complexes. The risk is to provide a simplified description of the molecular networks that at best is correct for the long-term behavior but fails to represent the short-term dynamics of the real network. To avoid such a possibility, we suggest using an alternative approach called the total quasi-steady statehttp://journals.plos.org/ploscompbiol/article/related?id=10.1371/journal.pcbi.0030045&imageURI=info:doi/10.1371/journal.pcbi.0030045.t001
PLOS Computational Biology: Estimating the Respective Contributions of Human and Viral Genetic Variation to HIV Control
Author Summary Viral loads of Human Immunodeficiency Virus infections are correlated between the donor and the recipient of the transmission pair. Similarly, human genetic factors may modulate viral load. In this study we estimate the extents to which viral load is heritable either via the viral genotype (from donor to recipient) or via the host's Human Leukocyte Antigen (HLA) genotype. We find that a major fraction of inter individual variability is explained by the similarity of the viral genotypes, and that human genetic variation in the HLA region provide little additional explanatory power.http://journals.plos.org/ploscompbiol/article/authors?id=10.1371/journal.pcbi.1005339
List of awards in bioinformatics and computational biology - Wikipedia
The following is a list of awards in the fields of bioinformatics and computational biology. ASBMB DeLano Award for ... "members of the computational biology community who are more than 12 to 15 years post-degree and have made major contributions ... to the field of computational biology through research, education, service, or a combination of the three" SIB Young ... Computational Biosciences - "to a scientist for the most accessible and innovative development or application of computer ...https://en.wikipedia.org/wiki/List_of_awards_in_bioinformatics_and_computational_biology
IEEE/ACM Transactions on Computational Biology and Bioinformatics - Wikipedia
"IEEE Transactions on Computational Biology and Bioinformatics". IEEE/ACM Transactions on Computational Biology and ... "Introduction to the IEEE/ACM Transactions on Computational Biology and Bioinformatics". IEEE Transactions on Computational ... and computational methods used in bioinformatics and computational biology development and testing of effective computer ... IEEE/ACM Transactions on Computational Biology and Bioinformatics (abbreviated TCBB) is a bimonthly peer-reviewed scientific ...https://en.wikipedia.org/wiki/IEEE/ACM_Transactions_on_Computational_Biology_and_Bioinformatics
PLOS Computational Biology: Differential temperature sensitivity of synaptic and firing processes in a neural mass model of...
This study uses a computational approach to identify and investigate possible mechanisms. First, we used a neural mass model to ...http://journals.plos.org/ploscompbiol/article/figure?id=10.1371/journal.pcbi.1005736.g004
Computational-biology] Call for Applications: HPC Application of R and Other Code for Biological Applications, a NIMBioS...
40net.bio.net (by ccrawley from nimbios.org). Mon Feb 14 13:24:34 EST 2011 *Previous message: [Computational-biology] Extended ... Next message: [Computational-biology] Bioinformatics for gene expression analysis * Messages sorted by: [ date ] [ thread ] [ ... Next message: [Computational-biology] Bioinformatics for gene expression analysis * Messages sorted by: [ date ] [ thread ] [ ... Computational-biology] Call for Applications: HPC Application of R and Other Code for Biological Applications, a NIMBioS ...http://www.bio.net/bionet/mm/comp-bio/2011-February/004090.html
Elective Course Descriptions - Curriculum & Student Handbook - About the Program - Biophysics, Structural & Computational...
Computational Biology (BSCB) program at the University of Rochester Medical Center is one of the oldest Biophysics PhD programs ... Education / Graduate Education / PhD Programs / Biophysics, Structural & Computational Biology (BSCB) / Curriculum / Elective ... BIO 402 - MOLECULAR BIOLOGY (4). This course deals with the molecular mechanisms of DNA replication, DNA repair, transcription ... CHM 469 - Computational Chemistry (4). MBI 473 - IMMUNOLOGY (3). Innate and adaptive immunity; structure and genetics of ...https://www.urmc.rochester.edu/education/graduate/phd/biophysics/curriculum/elective-course-descriptions.aspx
PLOS Computational Biology: Joint Modelling of Confounding Factors and Prominent Genetic Regulators Provides Increased Accuracy...
Author Summary The computational analysis of genetical genomics studies is challenged by confounding variation that is ...http://journals.plos.org/ploscompbiol/article/comments?id=10.1371/journal.pcbi.1002330
PLOS Computational Biology: Identifying Drug Effects via Pathway Alterations using an Integer Linear Programming Optimization...
Author Summary Cells are complex functional units. Signal transduction refers to the underlying mechanism that regulates cell function, and it is usually depicted on signaling pathways maps. Each cell type has distinct signaling transduction mechanisms, and several diseases arise from alterations on the signaling pathways. Small-molecule inhibitors have emerged as novel pharmaceutical interventions that aim to block certain pathways in an effort to reverse the abnormal phenotype of the diseased cells. Despite that compounds have been well designed to hit certain molecules (i.e., targets), little is known on how they act on anhttp://journals.plos.org/ploscompbiol/article/authors?id=10.1371/journal.pcbi.1000591
PLOS Computational Biology: PPARα siRNA-Treated Expression Profiles Uncover the Causal Sufficiency Network for Compound-Induced...
... and computational reasoning to unveil regulatory causal relationships and the sufficiency network of identified genes for ... as the growing symbiosis with computational sciences becomes more widely appreciated. In fact, the combination of various new ...http://journals.plos.org/ploscompbiol/article/comments?id=10.1371/journal.pcbi.0030030