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plosOne Computer science- SPPS: A Sequence-Based Method for Predicting Probability of Protein-Protein Interaction Partners 26 janvier 2012by Xinyi Liu, Bin Liu, Zhimin Huang, Ting Shi, Yingyi Chen, Jian Zhang Background The molecular network sustained by different types of interactions among proteins is widely manifested as the fundamental driving force of cellular operations. Many biological functions are determined by the crosstalk between proteins rather than by the characteristics of their […]Xinyi Liu et al.
- Shifting from Population-wide to Personalized Cancer Prognosis with Microarrays 25 janvier 2012by Li Shao, Xiaohui Fan, Ningtao Cheng, Leihong Wu, Haoshu Xiong, Hong Fang, Don Ding, Leming Shi, Yiyu Cheng, Weida Tong The era of personalized medicine for cancer therapeutics has taken an important step forward in making accurate prognoses for individual patients with the adoption of high-throughput microarray technology. However, microarray technology i […]Li Shao et al.
- Differential Gene Expression Regulated by Oscillatory Transcription Factors 24 janvier 2012by Luca Cerone, Zoltán Neufeld Cells respond to changes in the internal and external environment by a complex regulatory system whose end-point is the activation of transcription factors controlling the expression of a pool of ad-hoc genes. Recent experiments have shown that certain stimuli may trigger oscillations in the concentration of transcription facto […]Luca Cerone et al.
- Simulation of Organ Patterning on the Floral Meristem Using a Polar Auxin Transport Model 23 janvier 2012by Simon van Mourik, Kerstin Kaufmann, Aalt D. J. van Dijk, Gerco C. Angenent, Roeland M. H. Merks, Jaap Molenaar An intriguing phenomenon in plant development is the timing and positioning of lateral organ initiation, which is a fundamental aspect of plant architecture. Although important progress has been made in elucidating the role of auxin transport in […]Simon van Mourik et al.
- GSVD Comparison of Patient-Matched Normal and Tumor aCGH Profiles Reveals Global Copy-Number Alterations Predicting Glioblastoma Multiforme Survival 23 janvier 2012by Cheng H. Lee, Benjamin O. Alpert, Preethi Sankaranarayanan, Orly Alter Despite recent large-scale profiling efforts, the best prognostic predictor of glioblastoma multiforme (GBM) remains the patient's age at diagnosis. We describe a global pattern of tumor-exclusive co-occurring copy-number alterations (CNAs) that is correlated, possibly coordinated […]Cheng H. Lee et al.
- SurfaceSlide: A Multitouch Digital Pathology Platform 23 janvier 2012by Yinhai Wang, Kate E. Williamson, Paul J. Kelly, Jacqueline A. James, Peter W. Hamilton Background Digital pathology provides a digital environment for the management and interpretation of pathological images and associated data. It is becoming increasing popular to use modern computer based tools and applications in pathological education, tissue based re […]Yinhai Wang et al.
- Less Can Be More: RNA-Adapters May Enhance Coding Capacity of Replicators 23 janvier 2012by Folkert K. de Boer, Paulien Hogeweg It is still not clear how prebiotic replicators evolved towards the complexity found in present day organisms. Within the most realistic scenario for prebiotic evolution, known as the RNA world hypothesis, such complexity has arisen from replicators consisting solely of RNA. Within contemporary life, remarkably many RNA […]Folkert K. de Boer et al.
- Python as a Federation Tool for GENESIS 3.0 20 janvier 2012by Hugo Cornelis, Armando L. Rodriguez, Allan D. Coop, James M. Bower The GENESIS simulation platform was one of the first broad-scale modeling systems in computational biology to encourage modelers to develop and share model features and components. Supported by a large developer community, it participated in innovative simulator technologies such as benchm […]Hugo Cornelis et al.
- Extracting Diagnoses and Investigation Results from Unstructured Text in Electronic Health Records by Semi-Supervised Machine Learning 19 janvier 2012by Zhuoran Wang, Anoop D. Shah, A. Rosemary Tate, Spiros Denaxas, John Shawe-Taylor, Harry Hemingway Background Electronic health records are invaluable for medical research, but much of the information is recorded as unstructured free text which is time-consuming to review manually. Aim To develop an algorithm to identify relevant free texts automatically b […]Zhuoran Wang et al.
- Statistical Inference for Valued-Edge Networks: The Generalized Exponential Random Graph Model 19 janvier 2012by Bruce A. Desmarais, Skyler J. Cranmer Across the sciences, the statistical analysis of networks is central to the production of knowledge on relational phenomena. Because of their ability to model the structural generation of networks based on both endogenous and exogenous factors, exponential random graph models are a ubiquitous means of analysis. Howeve […]Bruce A. Desmarais et al.
- SPPS: A Sequence-Based Method for Predicting Probability of Protein-Protein Interaction Partners 26 janvier 2012
