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Formal informatics and machine learning for more principled systems and synthetic biology
Romero-Campero FJ, Blakes J, Camara M, Willams P, Perez-Jimenez MJ, Krasnogor N

presented at European Conference on Synthetic Biology (ESF-UB Conference in Biomedicine), Sant Feliu de Guixols, Spain, 24-29 November 2007.

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A systems analysis of the AHL Quorum Sensing system in Pseudomonas aeruginosa
Romero-Campero FJ, Blakes J, Camara M, Krasnogor N.

presented at Systems Biology (ESF-UB Conference in Biomedicine), Sant Feliu de Guixols, Spain, 12-17 April 2008

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An Integrated Development Environment for Synthetic Biology Models
Blakes J, Romero-Campero FJ, Twycross J, Cao H, Krasnogor N

presented at European Conference on Synthetic Biology (ECSB) II: Design, Programming and Optimisation of Biological Systems (ESF-UB Conference in Biomedicine), Sant Feliu de Guixols, Spain, 29 March - 03 April 2009

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Data Management System for Distributed Virtual Screening
Ting Zhou , Amedeo Caflisch

To manage HTD data effectively and efficiently, we have developed a distributed virtual screening data manage- ment system (DVSDMS) by integrating the open source database MySQL into high throughput docking.

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Microbial Genome-based Analysis Tool for Post-PKS Tailoring Steps
Ki-Bong Kim

We have developed a microbial genome-based analysis system to provide the user with a wealth of information that can be utilized for biosynthetic engineering of enzymes, especially involved in post-PKS tailoring steps. Post-PKS tailoring steps are necessary to add functional groups essential for the biological activity. Our system has sophisticated graphical user interfaces (GUIs) with a wide range of well-tested analytical functions, customized database, and well-maintained user-support applica

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Treatment of Plaque Infections and Periodontitis using Stem Cells- A New Prospect
Manoj Hariharan , Naveen Raj

Dental precursor cells are attractive for novel approaches to treat diseases like periodontitis, dental caries or to improve dental pulp healing and the regeneration of craniofacial bone and teeth. These cells are easily accessible and, in contrast to bone-marrow-derived mesenchymal stem cells, are more closely related to dental tissues. This paper gives a short overview of stem cells of dental origin.

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A Novel Multiplexed Digital Gene Expression Technology
Gary K. Geiss1,#, Roger Bumgarner2, Brian Birditt1, Timothy Dahl1, Naeem Dowidar1, Dwayne L. Dunaway1, H. Perry Fell1, Sean Ferree1, Renee D. George1, Tammy Grogan1, Jeffrey J. James1, Malini Maysuria1, Jeffrey D. Mitton1, Paola Oliveri4, Jennifer L. Osborn3, Tao Peng2, Amber L. Ratcliffe1, Philippa J. Webster1, Eric H. Davidson4, and Leroy Hood5

We describe a novel platform, the nCounter Analysis System, for sensitive, highly multiplexed, digital gene expression analysis based on NanoString’s novel molecular barcoding technology. Detection of individual mRNA molecules using an assigned sequence of six different fluorescent spots per probe are detected, and then the number of times that code sequence appears in a sample are counted.

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qPCRas a primary screen in drug discovery
GauravJaggi, Frank Boeckler, Andreas Joerger and Alan Fersht

We report the use of qPCR technique to follow the thermal unfolding of proteins by the binding of the dye SYPRO Orange, and exploit its potential as a robust and high-throughput primary screen for small molecule drug discovery.

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Bayesian Parameter Estimation for Systems Biological Models of Dynamic Cellular Networks
Jarad Niemi, Lingchong You and Mike West

Dynamic cellular networks determine production of proteins in the cells in our body. The Rb-E2F network is a key example: it controls cell cycle, proliferation and degradation - a key network in almost all cancers. We develop statistical models of such single-cell processes - fine-time scale dynamic network models. Model estimation requires informative priors and custom Metropolis proposals.

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Showing Results 51 - 60 of 71
Scientific News
How to Become a Follicular T Helper Cell
Uncovering the signals that govern the fate of T helper cells is a big step toward improved vaccine design.
Sorting Through Cellular Statistics
Aaron Dinner, professor in chemistry, and his graduate student Herman Gudjonson are trying to read the manual of life, DNA, as part of the Dinner group’s research into bioinformatics—the application of statistics to biological research.
Paving the way to Better Ovarian Cancer Diagnosis
Aïcha BenTaieb will present her invention for automated identification of ovarian cancer’s many subtypes at an international conference this fall.
New Tool Uses 'Drug Spillover' to Match Cancer Patients with Treatments
Researchers have developed a new tool that improves the ability to match drugs to disease: the Kinase Addiction Ranker (KAR) predicts what genetics are truly driving the cancer in any population of cells and chooses the best "kinase inhibitor" to silence these dangerous genetic causes of disease.
Computer Model Could Explain how Simple Molecules Took First Step Toward Life
Two Brookhaven researchers developed theoretical model to explain the origins of self-replicating molecules.
The Mystery of the Instant Noodle Chromosomes
Researchers from the Lomonosov Moscow State University evaluated the benefits of placing the DNA on the principle of spaghetti.
Web App Helps Researchers Explore Cancer Genetics
Brown University computer scientists have developed a new interactive tool to help researchers and clinicians explore the genetic underpinnings of cancer.
An Innovative Algorithm to Decipher How Drugs Work Inside the Body
Researchers at Columbia University Medical Center (CUMC) have developed a computer algorithm that is helping scientists see how drugs produce pharmacological effects inside the body.
How do Networks Shape the Spread of Disease and Gossip?
A team of mathematicians from Oxford University, University of North Carolina at Chapel Hill, and Rutgers University used a set of mathematical rules to encode how a contagion spreads, and then studied the outcomes of these rules.
AncestryDNA and Calico to Research the Genetics of Human Lifespan
Collaboration will analyze family history and genetics to facilitate development of cutting-edge therapeutics.
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