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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 41 - 50 of 61
Scientific News
Gene Changes That Affect Brain Size Identified
The identity of eight common mutations may one day reveal more about Alzheimer’s, autism and other neurological disorders.
Noisy Data Facilitates Investigation of Breast Cancer Gene Expression
Study tested the potential of denoising autoencoders to identify and extract complex patterns from genomic data.
New 'Systems Genetics' Study Identifies Possible Target For Epilepsy Treatment
A single gene that coordinates a network of about 400 genes involved in epilepsy could be a target for new treatments, according to research.
Software Created to Help Find a Cure for a "Great Neglected Disease"
SF State-led team's software determines drugs' effectiveness in treating schistosomiasis.
Hidden Cell Types Revealed
New statistical method for RNA-seq analysis identifies, corrects for hidden structure between cells.
Building A New Map Of Human Genetic Variation
Simons Foundation awards up to $1 million to UC Santa Cruz Genomics Institute to develop a comprehensive Human Genome Variation Map for scientific and medical research.
A Standard for Neuroscience Data
Berkeley Lab researchers have developed a computational framework for standardizing neuroscience data worldwide.
Project to Focus on Link Between Immune System and Brain Disorders
Researchers to investigate whether mood disorders, such as depression, and neurodegenerative diseases, such as Alzheimer’s, could be treated by targeting the immune system.
Big Data Project to Capture the Experience of MS Patients
Researchers will track the lives of people with multiple sclerosis in unprecedented detail in a project to improve the evaluation of treatments.
Measuring Brain Volume can Help People with Multiple Sclerosis
icometrix has developed software for measuring the brain and brain lesion volume.
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