Publications by Xiuwei Zhang | EPFL Graph Search

Related publications (17)

Transcriptional Regulatory Networks across Species : Evolution, Inference, and Refinement

The determination of transcriptional regulatory networks is key to the understanding of biological systems. However, the experimental determination of transcriptional regulatory networks in the laboratory remains difficult and time-consuming, while current ...

EPFL2011

Refining Regulatory Networks through Phylogenetic Transfer of Information

Bernard Moret, Xiuwei Zhang

The experimental determination of transcriptional regulatory networks in the laboratory remains difficult and time-consuming, while computational methods to infer these networks provide only modest accuracy. The latter can be attributed partly to the limit ...

2012

Analysis of Co-evolving Gene Families Using Mutually Exclusive Orthologous Modules

Xiuwei Zhang

Coevolutionary networks can encapsulate information about the dynamics of presence and absence of gene families in organisms. Analysis of such networks should reveal fundamental principles underlying the evolution of cellular systems and the functionality ...

2011

Improving inference of transcriptional regulatory networks based on network evolutionary models

Bernard Moret, Xiuwei Zhang

Computational inference of transcriptional regulatory networks remains a challenging problem, in part due to the lack of strong network models. In this paper we present evolutionary approaches to improve the inference of regulatory networks for a family of ...

Springer2009

Advances in Magnetics Roadmap on Spin-Wave Computing

Xiuwei Zhang, Qian Wang, Dirk Grundler, Yiming Li

Magnonics addresses the physical properties of spin waves and utilizes them for data processing. Scalability down to atomic dimensions, operation in the GHz-to-THz frequency range, utilization of nonlinear and nonreciprocal phenomena, and compatibility wit ...

Institute of Electrical and Electronics Engineers2022

NEMo: An Evolutionary Model with Modularity for PPI Networks

Bernard Moret, Xiuwei Zhang, Min Ye

Modelling the evolution of biological networks is a major challenge. Biological networks are usually represented as graphs; evolutionary events include addition and removal of vertices and edges, but also duplication of vertices and their associated edges. ...

Springer Int Publishing Ag2016

Point Similarity Measures Based on MRF Modeling of Difference Images for Spline-Based 2D-3D Rigid Registration of x-Ray Fluoroscopy to CT Images

Philippe Thévenaz, Michaël Unser, Xiuwei Zhang

One of the main factors that affect the accuracy of intensity-based registration of two-dimensional (2D) X-ray fluoroscopy to three-dimensional (3D) CT data is the similarity measure, which is a criterion function that is used in the registration procedure ...

Springer2006

Efficient oxygen transfer by surface aeration in shaken cylindrical containers for mammalian cell cultivation at volumetric scales up to 1,000 liters

Florian Maria Wurm, Alfio Quarteroni, Mathieu Benjamin Stettler, Marco Discacciati, Nicola Parolini, David Hacker, Xiuwei Zhang

Cylindrical containers agitated by orbital shaking are being developed as simple and cost-effective bioreactor systems for the cultivation of mammalian cells. Here the oxygen transfer capacities of containers with nominal volumes from 50 mL to 2000 L were ...

2009

Comparison of autofluorescence and white-light bronchoscopies performed with the Evis Lucera Spectrum for the detection of bronchial cancers: a meta-analysis

Georges Wagnières, Xiuwei Zhang

Background: Many recent studies have reported that autofluorescence bronchoscopy (AFB) has a superior sensitivity and decreased specificity in the diagnosis of bronchial cancers when compared with white-light bronchoscopy (WLB). We specifically analyzed th ...

AME PUBL CO2020

ProPhyC: a probabilistic phylogenetic model for refining regulatory networks

Bernard Moret, Xiuwei Zhang

The experimental determination of transcriptional regulatory networks in the laboratory remains difficult and time-consuming, while computational methods to infer these networks provide only modest accuracy. The latter can be attributed in part to the limi ...

Springer Verlag2011

NEMo: An Evolutionary Model With Modularity for PPI Networks

Bernard Moret, Xiuwei Zhang, Min Ye

Modeling the evolution of biological networks is a major challenge. Biological networks are usually represented as graphs; evolutionary events not only include addition and removal of vertices and edges but also duplication of vertices and their associated ...

IEEE Press2017

SKA Science Data Challenge 2: analysis and results

Frédéric Courbin, Xiuwei Zhang, Hua Zhang, Libo Yu, Jean-Paul Richard Kneib, Aymeric Alexandre Galan, Yi Zhang, Lei Zhang, Claudio Gheller, Austin Chandler Peel, Emma Elizabeth Tolley, Mark Thomas Sargent, Xin Chen

The Square Kilometre Array Observatory (SKAO) will explore the radio sky to new depths in order to conduct transformational science. SKAO data products made available to astronomers will be correspondingly large and complex, requiring the application of ad ...

OXFORD UNIV PRESS2023

Effect of temperature on the microstructure of calcium silicate hydrate (C-S-H)

Karen Scrivener, Xiuwei Zhang

Temperature affects the properties of concrete through its effect on the hydration of cement and its associated microstructural development. This paper focuses on the modifications to C-S-H induced by isothermal curing between 5 and 60 degrees C. The resul ...

Pergamon-Elsevier Science Ltd2013

ID4 regulates mammary gland development by suppressing p38MAPK activity

Jun Dong, Cathrin Brisken, Xiuwei Zhang, Marian Caikovski, Yiming Li

The ID family of helix-loop-helix proteins regulates cell proliferation and differentiation in many different developmental pathways, but the functions of ID4 in mammary development are unknown. We report that mouse Id4 is expressed in cap cells, basal cel ...

2011

Refining transcriptional regulatory networks using network evolutionary models and gene histories

Bernard Moret, Xiuwei Zhang

Background: Computational inference of transcriptional regulatory networks remains a challenging problem, in part due to the lack of strong network models. In this paper we present evolutionary approaches to improve the inference of regulatory networks for ...

2010

Using phylogenetic relationships to improve the inference of transcriptional regulatory networks

Bernard Moret, Xiuwei Zhang

IEEE Computer Society2008

Boosting the performance of inference algorithms for transcriptional regulatory networks using a phylogenetic approach

Bernard Moret, Xiuwei Zhang

Springer2008