Partially Observed Maximum Entropy Discrimination Markov Networks (2009)
Jun Zhu, Eric P. Xing, Bo Zhang
Learning graphical models with hidden variables can offer semantic insights to complex data and lead to salient structured predictors without relying on expensive, sometime unattainable fully...
Performance Analysis of Reconfiguration in Adaptive Real-Time Streaming Applications (2009)
We propose a design optimization framework for adaptive real-time streaming applications. The main contribution is a hybrid approach for performance analysis combining formal analysis and simulation...
Energy Efficient Streaming Applications with Guaranteed Throughput on MPSoCs (2009)
In this paper we present a design space exploration flow to achieve energy efficiency for streaming applications on MPSoCs while meeting the specified throughput constraints. The public domain...
Disentangling molecular relationships with a causal inference test (2009)
Millstein, Joshua, Zhang, Bin, Zhu, Jun, Schadt, Eric E
Abstract Background There has been intense effort over the past couple of decades to identify loci underlying quantitative traits as a key step in the process of elucidating the etiology of complex...
Multi-tissue coexpression networks reveal unexpected subnetworks associated with disease (2009)
Dobrin, Radu, Zhu, Jun, Molony, Cliona, Argman, Carmen, Parrish, Mark L, Carlson, Sonia, ...
Abstract Background Obesity is a particularly complex disease that at least partially involves genetic and environmental perturbations to gene-networks connecting the hypothalamus and several...
Maximum Entropy Discrimination Markov Networks (2009)
In this paper, we present a novel and general framework called {\it Maximum Entropy Discrimination Markov Networks} (MaxEnDNet), which integrates the max-margin structured learning and Bayesian-style...
Dobrin, Radu, Zhu, Jun, Molony, Cliona, Argman, Carmen, Parrish, Mark L, Carlson, Sonia, ...
Figure S1 shows the connectivity distribution P(k) for GGC networks. Figure S2 shows FDR curves for each tissue in the analysis. Figure S3 shows modules in single tissue GGC networks as detected by...
Multi-tissue coexpression networks reveal unexpected subnetworks associated with disease (2009)
Dobrin, Radu, Zhu, Jun, Molony, Cliona, Argman, Carmen, Parish, Mark L, Carlson, Sonia, ...
Background: Obesity is a particularly complex disease that at least partially involves genetic and environmental perturbations to gene-networks connecting the hypothalamus and several metabolic...
Energy and Design Cost Efficiency for Streaming Applications on Systems-on-Chip (2009)
With the increasing capacity of today's integrated circuits, a number ofheterogeneous system-on-chip (SoC) architectures in embedded systemshave been proposed. In order to achieve energy and...
Tu, Zhidong, Argmann, Carmen, Wong, Kenny K., Mitnaul, Lyndon J., Edwards, Stephen, Sach, Iliana C., ...
Insulin resistance is one of the dominant symptoms of type 2 diabetes (T2D). Although the molecular mechanisms leading to this resistance are largely unknown, experimental data support that the...
Tsou, Amy M., Cai, Tao, Liu, Zhi, Zhu, Jun, Kulkarni, Rahul V.
The quorum-sensing pathway in Vibrio cholerae controls the expression of the master regulator HapR, which in turn regulates several important processes such as virulence factor production and biofilm...
Energy and Design Cost Efficiency for Streaming Applications on Systems-on-Chip (2009)
With the increasing capacity of today's integrated circuits, a number ofheterogeneous system-on-chip (SoC) architectures in embedded systemshave been proposed. In order to achieve energy and...
Degree name: thesis
Mapping the Genetic Architecture of Gene Expression in Human Liver (2008)
Eric E. Schadt, Cliona Molony, Eugene Chudin, Ke Hao, Xia Yang, Pek Y. Lum, ...
Genetic variants that are associated with common human diseases do not lead directly to disease, but instead act on intermediate, molecular phenotypes that in turn induce changes in higher-order...
ABSTRACT Webpage Understanding: an Integrated Approach (2008)
Jun Zhu, Bo Zhang, Zaiqing Nie
Recent work has shown the effectiveness of leveraging layout and tag-tree structure for segmenting webpages and labeling HTML elements. However, how to effectively segment and label the text contents...
Dynamic Hierarchical Markov Random Fields and their Application to Web Data Extraction (2008)
Jun Zhu, Zaiqing Nie, Bo Zhang, Ji-rong Wen
Hierarchical models have been extensively studied in various domains. However, existing models assume fixed model structures or incorporate structural uncertainty generatively. In this paper, we...
Genetics of gene expression and its effect on disease (2008)
Emilsson, Valur, Thorleifsson, Gudmar, Zhang, Bin, Leonardson, Amy S, Zink, Florian, Zhu, Jun, ...
To access publisher full text version of this article. Please click on the hyperlink in Additional Links field
Nonparametric Functional Mapping of Quantitative Trait Loci Underlying Programmed Cell Death (2008)
Cui, Yuehua, Wu, Rongling, Casella, George, Zhu, Jun
The development of an organism represents a complex dynamic process, which is controlled by a network of genes and multiple environmental factors. Programmed cell death (PCD), a physiological cell...
Nonparametric Functional Mapping of Quantitative Trait Loci Underlying Programmed Cell Death (2008)
Cui, Yuehua, Wu, Rongling, Casella, George, Zhu, Jun
The development of an organism represents a complex dynamic process, which is controlled by a network of genes and multiple environmental factors. Programmed cell death (PCD), a physiological cell...
Nonparametric Functional Mapping of Quantitative Trait Loci Underlying Programmed Cell Death (2008)
Cui, Yuehua, Wu, Rongling, Casella, George, Zhu, Jun
The development of an organism represents a complex dynamic process, which is controlled by a network of genes and multiple environmental factors. Programmed cell death (PCD), a physiological cell...
Nonparametric Functional Mapping of Quantitative Trait Loci Underlying Programmed Cell Death (2008)
Cui, Yuehua, Wu, Rongling, Casella, George, Zhu, Jun
The development of an organism represents a complex dynamic process, which is controlled by a network of genes and multiple environmental factors. Programmed cell death (PCD), a physiological cell...
Chris Conrad, Jun Zhu, Cintia Conrad, David Schoenfeld, À Zhide Fang, Martin Ingelsson, ...
molecule profiling of tau gene expression in Alzheimer’s disease
SDF to Synchronous Cross Domain Analysis in ForSyDe Stream Processing Framework (2008)
Stream processing has been a very active field in parallel programming for its suitability to express the concurrent architecture in embedded systems. Caused by its concurrent reasoning features,...
3-Benzyl-1-butylimidazo[1,2-a]benzothieno[3,2-d]pyrimidine-2,5(1H,3H)-dione (2008)
Min-Hui Cao, Jun Zhu, De-Jiang Ni
In the crystal structure of the title compound, C23H21N3O2S, all ring atoms of the imidazo[1,2-a]benzothieno[3,2-d]pyrimidine system are essentially coplanar and the phenyl ring is twisted with...
Lou, Xiang-Yang, Chen, Guo-Bo, Yan, Lei, Ma, Jennie Z., Mangold, Jamie E., Zhu, Jun, ...
Widespread multifactor interactions present a significant challenge in determining risk factors of complex diseases. Several combinatorial approaches, such as the multifactor dimensionality reduction...
Maximum Entropy Discrimination Markov Networks (2008)
Standard max-margin structured prediction methods concentrate directly on the inputoutput mapping, and the lack of an elegant probabilistic interpretation causes limitations. In this paper, we...
Oldgren, Jonas, Wallentin, Lars, Afzal, Rizwan, Bassand, Jean-Pierre, Budaj, Andrzej, Chrolavicius, Susan, ...
Aims At least one quarter of ST-segment elevation myocardial infarction (STEMI) patients do not receive reperfusion therapy, and these patients are at high risk for new ischaemic events. We evaluated...
On Jones knot Invariants and Vassiliev Invariants (2007)
We show that the n-th derivative of a quantum group invariant, evaluated at 1, is a Vassiliev invariant while the derivative of the Jones polynomial, evaluated at a real number<Fnan> 6= 1, is...
Statistical power of phylo-HMM for evolutionarily conserved element detection (2007)
Fan, Xiaodan, Zhu, Jun, Schadt, Eric E, Liu, Jun S
Abstract Background An important goal of comparative genomics is the identification of functional elements through conservation analysis. Phylo-HMM was recently introduced to detect conserved...
Mapping the genetic architecture of complex traits in experimental populations (2007)
Yang, Jian, Zhu, Jun, Williams, Robert W.
Summary: Understanding how interactions among set of genes affect diverse phenotypes is having a greater impact on biomedical research, agriculture and evolutionary biology. Mapping and...
Jun Zhu, Matthew C. Wiener, Chunsheng Zhang, Arthur Fridman, Eric Minch, Pek Y. Lum, ...
To dissect common human diseases such as obesity and diabetes, a systematic approach is needed to study how genes interact with one another, and with genetic and environmental factors, to determine...
Jun Zhu, Matthew C. Wiener, Chunsheng Zhang, Arthur Fridman, Eric Minch, Pek Y. Lum, ...
To dissect common human diseases like obesity and diabetes, a systematic approach is needed to study how genes interact with one another, and how genetic and environmental factors and interactions...
Thesis (Ph.D.)--Hong Kong University of Science and Technology, 2007
Thesis (Ph.D.)--Hong Kong University of Science and Technology, 2007.
Lou, Xiang-Yang, Chen, Guo-Bo, Yan, Lei, Ma, Jennie Z., Zhu, Jun, Elston, Robert C., ...
The determination of gene-by-gene and gene-by-environment interactions has long been one of the greatest challenges in genetics. The traditional methods are typically inadequate because of the...
BMC Bioinformatics BioMed Central (2007)
Xiaodan Fan, Jun Zhu, Eric E Schadt, Jun S Liu
Research article Statistical power of phylo-HMM for evolutionarily conserved element detection
Deterministic Quantum Key Distribution Using Gaussian-Modulated Squeezed States (2006)
He, Guangqiang, Zhu, Jun, Zeng, Guihua
A continuous variable ping-pong scheme, which is utilized to generate deterministically private key, is proposed. The proposed scheme is implemented physically by using Gaussian-modulated squeezed...
Resampling methods for spatial regression models under a class of stochastic designs (2006)
In this paper we consider the problem of bootstrapping a class of spatial regression models when the sampling sites are generated by a (possibly nonuniform) stochastic design and are irregularly...
Resampling methods for spatial regression models under a class of stochastic designs (2006)
In this paper we consider the problem of bootstrapping a class of spatial regression models when the sampling sites are generated by a (possibly nonuniform) stochastic design and are irregularly...
QTL ANALYSIS FOR YIELD COMPONENTS IN RICE (ORYZA SATIVA L.) UNDER DIFFERENT ENVIRONMENTS (2006)
Mebrouk Benmoussa, Abderrahmane Achouch, Jun Zhu
Quantitative trait loci (QTL) for yield components were identified based on an RFLP map from a double haploid population. The 123 DH lines with their parents IR64 and Azucena were evaluated in the...
Indirect removal of SU-8 photoresist using PDMS technique (2006)
Li, Jianhua, Chen, Di, Zhang, Jinya, Liu, Jingquan, Zhu, Jun
SU-8 photoresist shows superior images for thick film lithography and has been utilized as an electroplating mold. However, crosslinked SU-8 is difficult to remove reliably from high-aspect-ratio...
Improvement of mapping accuracy by unifying linkage and association analysis. (2006)
Lou, Xiang-Yang, Ma, Jennie Z., Yang, Mark C. K., Zhu, Jun, Liu, Peng-Yuan, Deng, Hong-Wen, ...
It is well known that pedigree/family data record information on the coexistence in founder haplotypes of alleles at nearby loci and the cotransmission from parent to offspring that reveal different,...
Functional mapping for genetic control of programmed cell death (2006)
Yuehua Cui, Jun Zhu, Rongling Wu, R. Yang, H. Gao, X. Wang, ...
doi:10.1152/physiolgenomics.00181.2005 You might find this additional information useful... This article cites 41 articles, 15 of which you can access free at:
Simultaneous record detection and attribute labeling in web data extraction (2006)
Jun Zhu, Zaiqing Nie, Ji-rong Wen
Recent work has shown the feasibility and promise of templateindependent Web data extraction. However, existing approaches use decoupled strategies – attempting to do data record detection and...
Wang, Xusheng, Zhao, Xiangqian, Zhu, Jun, Wu, Weiren
Intron length polymorphisms (ILPs) have been used as genetic markers in some studies. However, a systematic investigation and large-scale exploitation of ILP markers has not been reported. In this...
SCALE-DEPENDENT SUMMER RESOURCE SELECTION BY REINTRODUCED ELK IN WISCONSIN, USA (2005)
DEAN P. ANDERSON, MONICA G. TURNER, JAMES D. FORESTER, JUN ZHU, MARK S. BOYCE, HAWTHORNE BEYER, ...
Identifying how habitat use is influenced by environmental heterogeneity at different scales is central to understanding ungulate population dynamics on complex landscapes. We used resource selection...
The role of Lake Dongting in regulating the sediment budget of the Yangtze River (2005)
Shi-bao Dai, Shi-lun Yang, Jun Zhu, Ang Gao, Peng Li
Lake Dongting, the second largest freshwater lake in China and located in the middle reaches of the River Yangtze catchment, was formed at the beginning of the Holocene period by sea level rise and...
The role of Lake Dongting in regulating the sediment budget of the Yangtze River (2005)
Dai, Shi-Bao, Yang, Shi-Lun, Zhu, Jun, Gao, Ang, Li, Peng
Lake Dongting, the second largest freshwater lake in China and located in the middle reaches of the River Yangtze catchment, was formed at the beginning of the Holocene period by sea level rise and...
The role of Lake Dongting in regulating the sediment budget of the Yangtze River (2005)
Dai, Shi-Bao, Yang, Shi-Lun, Zhu, Jun, Gao, Ang, Li, Peng
Lake Dongting, the second largest freshwater lake in China and located in the middle reaches of the River Yangtze catchment, was formed at the beginning of the Holocene period by sea level rise and...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Analysis of transmission system faults in the phase domain (2004)
In order to maintain a continuous power suppply, nowadays relays in transmission systems are required to be able to deal with complicated faults involving non-conventional connections, which poses a...
Business Process Modeling in Abstract Logic Tree (2004)
Ying Liu, Jian Wang, Jun Zhu, Haiqi Liang, Zhong Tian, Wei Sun, ...
been issued as a Research Report for early dissemination of its contents. In view of the transfer of copyright to the outside publisher, its distribution outside of IBM prior to publication should be...
This dissertation focuses on the effect of many-particle interactions in two dimensional electron systems (2DES). We explore several novel phenomena over a wide range of densities in a variable...
Dry powder mass flow control of a vibratory micro-L-Valve / (2003)
"Mémoire présenté en vue de l'obtention du diplôme de Maîtrise ès sciences appliquées (génie mécanique)"
Modeling Spatial-Temporal Binary Data Using Markov Random Fields (2003)
Jun Zhu, Chi-tsung Wu, Hsin-cheng Huang
An autologistic regression model consists of a linear regression of a response variable on explanatory variables and an auto-regression on responses at neighboring locations on a lattice.
Typescript.
Department: Physics.
Dielectric and loss properties of MnZn ferrites at high frequency / (2002)
Thesis (Ph. D.)--Nanyang Technological University, School of Electrical and Electronic Engineering, 2002.
A case-addition policy for case-base maintenance (2001)
A major problem in many practical applications of case-based reasoning (CBR) and knowledge reuse is how to keep the case bases concise and complete. To solve this problem requires repeated...
Matlab toolbox for signal exponential decomposition / (2001)
Thesis (M.Eng.) -- McMaster University, 2001.
Asymptotic inference for spatial cumulative distribution function /--by Jun Zhu. (2000)
Typescript (photocopy)
PWM converter generated harmonic current propagation, meeting the IEEE 519 standard / (2000)
Thesis (M.Eng.)--Nanyang Technological University, School of Electrical & Electronic Engineering, 2000.
Single Molecule Profiling of Alternative Pre-mRNA Splicing (2000)
R Eports, R. A. Reenan, C. J. Hanrahan, B. Ganetzky, P. J. Aruscavage, B. L. Bass, ...
Alternative pre-messenger RNA splicing is an important mechanism for generating protein diversity and may explain in part how mammalian complexity arises from a surprisingly small complement of...
Intrusion ripple analysis in networked information systems /--by Jun Zhu. (1998)
Thesis (M.S.)--Arizona State University, 1998.
Remembering to Add: Competence-preserving Case-Addition Policies for Case-Base Maintenance (1998)
Case-base maintenance is gaining increasing recognition in research and the practical applications of case-based reasoning (CBR). This intense interest is highlighted by Smyth and Keane's...
Thesis (Ph. D.)--University of California, Riverside, 1997.
Thesis (Ph. D.)--University of Hawaii at Manoa, 1996.
In Vassiliev theory, there is a natural monoid homomorphism from n-strand singular braids to the group algebra of n-strand braid group. J. Birman conjectured that this monoid homomorphism is...
Thesis (Ph. D.)--University of Hawaii at Manoa, 1996.
Typescript.
On Jones knot variants and Vassiliev invariants [microform]. (1995)
Thesis (Ph. D.)--University of British Columbia, 1995.
Tesis presentada para obtener el grado de Doctor en Filosofía.
Late Cenozoic volcanism on the Great Plains in northeastern New Mexico was closely related to the tectonic and thermal deformation along the transitional zone between the Colorado Plateau and...
Fault location and diagnosis on electric power distribution feeders /--by Jun Zhu. (1994)
Thesis (Ph. D.)--Clemson University, 1994.
Critical states in Type-II thin film superconductors /--by Jun Zhu. (1994)
Submitted to the Department of Applied Physics.
Mathematical modelling of the AIDS epidemic / (1994)
Kevin J. Hastings, honors committee chair.
Investigation of simultaneously developing flow in rectangular duct.
Thesis (M.S.)--Bradley University, 1995
Zhu, Jun, Koken, Marcel H. M., Quignon, Frédérique, Chelbi-Alix, Mounira K., Degos, Laurent, Wang, Zhen Yi, ...
Acute promyelocytic leukemia (APL) is associated with the t(15;17) translocation, which generates a PML/RARα fusion protein between PML, a growth suppressor localized on nuclear matrix-associated...
TraR is an Agrobacterium transcriptional regulator whose activity requires the pheromone N-3-oxooctanoyl-l-homoserine lactone. TraR was purified as a complex with the pheromone and contained one...
Zhu, Jun, Gianni, Maurizio, Kopf, Eliezer, Honoré, Nicole, Chelbi-Alix, Mounira, Koken, Marcel, ...
Analyzing the pathways by which retinoic acid (RA) induces promyelocytic leukemia/retinoic acid receptor α (PML/RARα) catabolism in acute promyelocytic leukemia (APL), we found that, in addition to...
Complexes between the quorum-sensing regulator TraR and its inducing ligand autoinducer (AAI) are soluble in Escherichia coli, whereas apo-TraR is almost completely insoluble. Here we show that the...
Kalogeraki, Virginia S., Zhu, Jun, Stryker, Joel L., Winans, Stephen C.
We sequenced the virD-virE, virE-virF, and virF–T-DNA intergenic regions of an octopine Ti plasmid. Four newly described genes were induced by the vir gene inducer acetosyringone, two of which are...
The Bases of Crown Gall Tumorigenesis
Zhu, Jun, Oger, Philippe M., Schrammeijer, Barbara, Hooykaas, Paul J. J., Farrand, Stephen K., Winans, Stephen C.
Zhu, Jun, Beaber, John W., Moré, Margret I., Fuqua, Clay, Eberhard, Anatol, Winans, Stephen C.
The TraR and TraI proteins of Agrobacterium tumefaciens mediate cell-density-dependent expression of the Ti plasmid tra regulon. TraI synthesizes the autoinducer pheromone...
Quorum-sensing regulators control virulence gene expression in Vibrio cholerae
Zhu, Jun, Miller, Melissa B., Vance, Russell E., Dziejman, Michelle, Bassler, Bonnie L., Mekalanos, John J.
The production of virulence factors including cholera toxin and the toxin-coregulated pilus in the human pathogen Vibrio cholerae is strongly influenced by environmental conditions. The...
Nuclear Export and Retention Signals in the RS Domain of SR Proteins
Cazalla, Demian, Zhu, Jun, Manche, Lisa, Huber, Elisabeth, Krainer, Adrian R., Cáceres, Javier F.
Splicing factors of the SR protein family share a modular structure consisting of one or two RNA recognition motifs (RRMs) and a C-terminal RS domain rich in arginine and serine residues. The RS...
ToxR regulon of Vibrio cholerae and its expression in vibrios shed by cholera patients
Bina, James, Zhu, Jun, Dziejman, Michelle, Faruque, Shah, Calderwood, Stephen, Mekalanos, John
Toxigenic Vibrio cholerae cause cholera, a severe diarrheal disease responsible for significant morbidity and mortality worldwide. Two determinants, cholera enterotoxin (CT) and toxin coregulated...
Vance, Russell E., Zhu, Jun, Mekalanos, John J.
Vibrio cholerae normally inhabits aquatic habitats but can cause a severe diarrheal illness in humans. Its arsenal of virulence factors includes a secreted hemagglutinin (HA) protease. An HA...
Faruque, Shah M., Zhu, Jun, Kamruzzaman, M., Mekalanos, John J.
The major virulence factors of toxigenic Vibrio cholerae are cholera toxin, which is encoded by a lysogenic filamentous bacteriophage (CTXΦ), and toxin-coregulated pilus (TCP), an essential...
Zhu, Jun, Chai, Yunrong, Zhong, Zengtao, Li, Shunpeng, Winans, Stephen C.
An ultrasensitive bioassay system for the detection of N-acylhomoserine lactones (AHLs) was constructed in Agrobacterium tumefaciens by using the T7 expression system to overproduce the AHL receptor...
Significance of 14-3-3 Self-Dimerization for Phosphorylation-dependent Target Binding
Shen, Ying H., Godlewski, Jakub, Bronisz, Agnieszka, Zhu, Jun, Comb, Michael J., Avruch, Joseph, ...
14-3-3 proteins via binding serine/threonine-phosphorylated proteins regulate diverse intracellular processes in all eukaryotic organisms. Here, we examine the role of 14-3-3 self-dimerization in...
Pre-mRNA splicing in the absence of an SR protein RS domain
SR proteins are essential pre-mRNA splicing factors that act at the earliest stages of splice-site recognition and spliceosome assembly, as well as later in the splicing pathway. SR proteins consist...
The HcrVf2 gene from a wild apple confers scab resistance to a transgenic cultivated variety
Belfanti, Enrico, Silfverberg-Dilworth, Eve, Tartarini, Stefano, Patocchi, Andrea, Barbieri, Massimo, Zhu, Jun, ...
The Vf gene from the wild species Malus floribunda 821 is the most studied apple scab resistance gene. Several molecular markers mapping around this gene were the starting point for a positional...
Qiu, Zhaohua, Harms, Jerome S., Zhu, Jun, Splitter, Gary A.
Herpesvirus tegument protein VP22 can enhance the effect of therapeutic proteins in gene therapy, such as thymidine kinase (tk) and p53; however, the mechanism is unclear or controversial. In this...
Zhu, Jun, Balan, Vitaly, Bronisz, Agnieszka, Balan, Karina, Sun, Hengrui, Leicht, Deborah T., ...
The Ras-Raf-MAPK cascade is a key growth-signaling pathway and its uncontrolled activation results in cell transformation. Although the general features of the signal transmission along the cascade...
Wang, Xu-sheng, Zhu, Jun, Mansueto, Locedie, Bruskiewich, Richard
Genetic improvement for drought stress tolerance in rice involves the quantitative nature of the trait, which reflects the additive effects of several genetic loci throughout the genome. Yield...
Balan, Vitaly, Leicht, Deborah T., Zhu, Jun, Balan, Karina, Kaplun, Alexander, Singh-Gupta, Vinita, ...
The Ras–Raf–mitogen-activated protein kinase cascade is a key growth-signaling pathway, which uncontrolled activation results in transformation. Although the exact mechanisms underlying Raf-1...
Joelsson, Adam, Liu, Zhi, Zhu, Jun
Vibrio cholerae is the causative agent of cholera, a severe and devastating diarrheal disease. V. cholerae lives naturally in various aquatic habitats during interepidemic periods. Recent studies...
Zheng, Huiming, Zhong, Zengtao, Lai, Xin, Chen, Wen-Xin, Li, Shunpeng, Zhu, Jun
The ability of rhizobia to symbiotically fix nitrogen from the atmosphere when forming nodules on their plant hosts requires various signal transduction pathways. LuxR-LuxI-type quorum-sensing...
Liu, Zhi, Hsiao, Ansel, Joelsson, Adam, Zhu, Jun
Vibrio cholerae is the causative agent of the severe diarrheal disease cholera. A number of environmental stimuli regulate virulence gene expression in V. cholerae, including quorum-sensing signals....
Zou, Yang-yun, Yang, Jian, Zhu, Jun
Microarray has become increasingly popular biotechnology in biological and medical researches, and has been widely applied in classification of treatment subtypes using expression patterns of...
Zhao, Wei, Zhu, Jun, Gallo-Meagher, Maria, Wu, Rongling
The effects of quantitative trait loci (QTL) on phenotypic development may depend on the environment (QTL × environment interaction), other QTL (genetic epistasis), or both. In this article, we...
Improvement of Mapping Accuracy by Unifying Linkage and Association Analysis
Lou, Xiang-Yang, Ma, Jennie Z., Yang, Mark C. K., Zhu, Jun, Liu, Peng-Yuan, Deng, Hong-Wen, ...
It is well known that pedigree/family data record information on the coexistence in founder haplotypes of alleles at nearby loci and the cotransmission from parent to offspring that reveal different,...
Vaitkevicius, Karolis, Lindmark, Barbro, Ou, Gangwei, Song, Tianyan, Toma, Claudia, Iwanaga, Masaaki, ...
Vibrio cholerae is the causal bacterium of the diarrheal disease cholera, and its growth and survival are thought to be curtailed by bacteriovorous predators, e.g., ciliates and flagellates. We...
Zhou, Jun, Pérès, Laurent, Honoré, Nicole, Nasr, Rihab, Zhu, Jun, De Thé, Hugues
The pathogenesis of acute promyelocytic leukemia involves the transcriptional repression of master genes of myeloid differentiation by the promyelocytic leukemia–retinoic acid receptor α...
Zhu, Jun, Koken, Marcel H. M., Quignon, Frédérique, Chelbi-Alix, Mounira K., Degos, Laurent, Wang, Zhen Yi, ...
Acute promyelocytic leukemia (APL) is associated with the t(15;17) translocation, which generates a PML/RARα fusion protein between PML, a growth suppressor localized on nuclear matrix-associated...
TraR is an Agrobacterium transcriptional regulator whose activity requires the pheromone N-3-oxooctanoyl-l-homoserine lactone. TraR was purified as a complex with the pheromone and contained one...
Zhu, Jun, Gianni, Maurizio, Kopf, Eliezer, Honoré, Nicole, Chelbi-Alix, Mounira, Koken, Marcel, ...
Analyzing the pathways by which retinoic acid (RA) induces promyelocytic leukemia/retinoic acid receptor α (PML/RARα) catabolism in acute promyelocytic leukemia (APL), we found that, in addition to...
Complexes between the quorum-sensing regulator TraR and its inducing ligand autoinducer (AAI) are soluble in Escherichia coli, whereas apo-TraR is almost completely insoluble. Here we show that the...
Kalogeraki, Virginia S., Zhu, Jun, Stryker, Joel L., Winans, Stephen C.
We sequenced the virD-virE, virE-virF, and virF–T-DNA intergenic regions of an octopine Ti plasmid. Four newly described genes were induced by the vir gene inducer acetosyringone, two of which are...
The Bases of Crown Gall Tumorigenesis
Zhu, Jun, Oger, Philippe M., Schrammeijer, Barbara, Hooykaas, Paul J. J., Farrand, Stephen K., Winans, Stephen C.
Zhu, Jun, Beaber, John W., Moré, Margret I., Fuqua, Clay, Eberhard, Anatol, Winans, Stephen C.
The TraR and TraI proteins of Agrobacterium tumefaciens mediate cell-density-dependent expression of the Ti plasmid tra regulon. TraI synthesizes the autoinducer pheromone...
Quorum-sensing regulators control virulence gene expression in Vibrio cholerae
Zhu, Jun, Miller, Melissa B., Vance, Russell E., Dziejman, Michelle, Bassler, Bonnie L., Mekalanos, John J.
The production of virulence factors including cholera toxin and the toxin-coregulated pilus in the human pathogen Vibrio cholerae is strongly influenced by environmental conditions. The...
Nuclear Export and Retention Signals in the RS Domain of SR Proteins
Cazalla, Demian, Zhu, Jun, Manche, Lisa, Huber, Elisabeth, Krainer, Adrian R., Cáceres, Javier F.
Splicing factors of the SR protein family share a modular structure consisting of one or two RNA recognition motifs (RRMs) and a C-terminal RS domain rich in arginine and serine residues. The RS...
ToxR regulon of Vibrio cholerae and its expression in vibrios shed by cholera patients
Bina, James, Zhu, Jun, Dziejman, Michelle, Faruque, Shah, Calderwood, Stephen, Mekalanos, John
Toxigenic Vibrio cholerae cause cholera, a severe diarrheal disease responsible for significant morbidity and mortality worldwide. Two determinants, cholera enterotoxin (CT) and toxin coregulated...
Vance, Russell E., Zhu, Jun, Mekalanos, John J.
Vibrio cholerae normally inhabits aquatic habitats but can cause a severe diarrheal illness in humans. Its arsenal of virulence factors includes a secreted hemagglutinin (HA) protease. An HA...
Faruque, Shah M., Zhu, Jun, Kamruzzaman, M., Mekalanos, John J.
The major virulence factors of toxigenic Vibrio cholerae are cholera toxin, which is encoded by a lysogenic filamentous bacteriophage (CTXΦ), and toxin-coregulated pilus (TCP), an essential...
Zhu, Jun, Chai, Yunrong, Zhong, Zengtao, Li, Shunpeng, Winans, Stephen C.
An ultrasensitive bioassay system for the detection of N-acylhomoserine lactones (AHLs) was constructed in Agrobacterium tumefaciens by using the T7 expression system to overproduce the AHL receptor...
Significance of 14-3-3 Self-Dimerization for Phosphorylation-dependent Target Binding
Shen, Ying H., Godlewski, Jakub, Bronisz, Agnieszka, Zhu, Jun, Comb, Michael J., Avruch, Joseph, ...
14-3-3 proteins via binding serine/threonine-phosphorylated proteins regulate diverse intracellular processes in all eukaryotic organisms. Here, we examine the role of 14-3-3 self-dimerization in...
Pre-mRNA splicing in the absence of an SR protein RS domain
SR proteins are essential pre-mRNA splicing factors that act at the earliest stages of splice-site recognition and spliceosome assembly, as well as later in the splicing pathway. SR proteins consist...
The HcrVf2 gene from a wild apple confers scab resistance to a transgenic cultivated variety
Belfanti, Enrico, Silfverberg-Dilworth, Eve, Tartarini, Stefano, Patocchi, Andrea, Barbieri, Massimo, Zhu, Jun, ...
The Vf gene from the wild species Malus floribunda 821 is the most studied apple scab resistance gene. Several molecular markers mapping around this gene were the starting point for a positional...
Qiu, Zhaohua, Harms, Jerome S., Zhu, Jun, Splitter, Gary A.
Herpesvirus tegument protein VP22 can enhance the effect of therapeutic proteins in gene therapy, such as thymidine kinase (tk) and p53; however, the mechanism is unclear or controversial. In this...
Zhu, Jun, Balan, Vitaly, Bronisz, Agnieszka, Balan, Karina, Sun, Hengrui, Leicht, Deborah T., ...
The Ras-Raf-MAPK cascade is a key growth-signaling pathway and its uncontrolled activation results in cell transformation. Although the general features of the signal transmission along the cascade...
Joelsson, Adam, Liu, Zhi, Zhu, Jun
Vibrio cholerae is the causative agent of cholera, a severe and devastating diarrheal disease. V. cholerae lives naturally in various aquatic habitats during interepidemic periods. Recent studies...
Balan, Vitaly, Leicht, Deborah T., Zhu, Jun, Balan, Karina, Kaplun, Alexander, Singh-Gupta, Vinita, ...
The Ras–Raf–mitogen-activated protein kinase cascade is a key growth-signaling pathway, which uncontrolled activation results in transformation. Although the exact mechanisms underlying Raf-1...
Wang, Xu-sheng, Zhu, Jun, Mansueto, Locedie, Bruskiewich, Richard
Genetic improvement for drought stress tolerance in rice involves the quantitative nature of the trait, which reflects the additive effects of several genetic loci throughout the genome. Yield...
Zheng, Huiming, Zhong, Zengtao, Lai, Xin, Chen, Wen-Xin, Li, Shunpeng, Zhu, Jun
The ability of rhizobia to symbiotically fix nitrogen from the atmosphere when forming nodules on their plant hosts requires various signal transduction pathways. LuxR-LuxI-type quorum-sensing...
Liu, Zhi, Hsiao, Ansel, Joelsson, Adam, Zhu, Jun
Vibrio cholerae is the causative agent of the severe diarrheal disease cholera. A number of environmental stimuli regulate virulence gene expression in V. cholerae, including quorum-sensing signals....
Zhao, Wei, Zhu, Jun, Gallo-Meagher, Maria, Wu, Rongling
The effects of quantitative trait loci (QTL) on phenotypic development may depend on the environment (QTL × environment interaction), other QTL (genetic epistasis), or both. In this article, we...
Improvement of Mapping Accuracy by Unifying Linkage and Association Analysis
Lou, Xiang-Yang, Ma, Jennie Z., Yang, Mark C. K., Zhu, Jun, Liu, Peng-Yuan, Deng, Hong-Wen, ...
It is well known that pedigree/family data record information on the coexistence in founder haplotypes of alleles at nearby loci and the cotransmission from parent to offspring that reveal different,...
Zhou, Jun, Pérès, Laurent, Honoré, Nicole, Nasr, Rihab, Zhu, Jun, De Thé, Hugues
The pathogenesis of acute promyelocytic leukemia involves the transcriptional repression of master genes of myeloid differentiation by the promyelocytic leukemia–retinoic acid receptor α...
Vaitkevicius, Karolis, Lindmark, Barbro, Ou, Gangwei, Song, Tianyan, Toma, Claudia, Iwanaga, Masaaki, ...
Vibrio cholerae is the causal bacterium of the diarrheal disease cholera, and its growth and survival are thought to be curtailed by bacteriovorous predators, e.g., ciliates and flagellates. We...
Zou, Yang-yun, Yang, Jian, Zhu, Jun
Microarray has become increasingly popular biotechnology in biological and medical researches, and has been widely applied in classification of treatment subtypes using expression patterns of...
Cui, Yuehua, Kim, Dong-Yun, Zhu, Jun
Statistical methods for mapping quantitative trait loci (QTL) have been extensively studied. While most existing methods assume normal distribution of the phenotype, the normality assumption could be...
Vibrio cholerae virulence regulator-coordinated evasion of host immunity
Hsiao, Ansel, Liu, Zhi, Joelsson, Adam, Zhu, Jun
To successfully propagate and cause disease, pathogenic bacteria must modulate their transcriptional activities in response to pressures exerted by the host immune system, including secreted...
Temporal Quorum-Sensing Induction Regulates Vibrio cholerae Biofilm Architecture▿
Liu, Zhi, Stirling, Fiona R., Zhu, Jun
Vibrio cholerae, the pathogen that causes cholera, also survives in aqueous reservoirs, probably in the form of biofilms. Quorum sensing negatively regulates V. cholerae biofilm formation through...
Zhu, Jun, Wiener, Matthew C, Zhang, Chunsheng, Fridman, Arthur, Minch, Eric, Lum, Pek Y, ...
To dissect common human diseases such as obesity and diabetes, a systematic approach is needed to study how genes interact with one another, and with genetic and environmental factors, to determine...
Genetic Mapping of Developmental Instability: Design, Model and Algorithm
Wu, Jiasheng, Zhang, Bo, Cui, Yuehua, Zhao, Wei, Xu, Li'an, Huang, Minren, ...
Developmental instability or noise, defined as the phenotypic imprecision of an organism in the face of internal or external stochastic disturbances, has been thought to play an important role in...
Continuous time modelling of dynamical spatial lattice data observed at sparsely distributed times
Jakob G. Rasmussen, Jesper Møller, Brian H. Aukema, Kenneth F. Raffa, Jun Zhu
We consider statistical and computational aspects of simulation-based Bayesian inference for a spatial-temporal model based on a multivariate point process which is only observed at sparsely...
Quorum Sensing Enhances the Stress Response in Vibrio cholerae▿
Joelsson, Adam, Kan, Biao, Zhu, Jun
Vibrio cholerae lives in aquatic environments and causes cholera. Here, we show that quorum sensing enhances V. cholerae viability under certain stress conditions by upregulating the expression of...
Inverse agonism and neutral antagonism at a constitutively active alpha-1a adrenoceptor
Zhu, Jun, Taniguchi, Takanobu, Takauji, Rumiko, Suzuki, Fumiko, Tanaka, Takashi, Muramatsu, Ikunobu
We have studied the antagonist action of prazosin and KMD-3213 in a constitutively active mutant of the human alpha-1a adrenoceptor in which Ala271 was substituted to Thr and was expressed in CHO...
Guillemin, Marie-Claude, Raffoux, Emmanuel, Vitoux, Dominique, Kogan, Scott, Soilihi, Hassane, Lallemand-Breitenbach, Valérie, ...
Differentiation therapy for acute myeloid leukemia uses transcriptional modulators to reprogram cancer cells. The most relevant clinical example is acute promyelocytic leukemia (APL), which responds...
Advisor: Weng jing min, Jiang ming huang.
Lallemand-Breitenbach, Valérie, Zhu, Jun, Puvion, Francine, Koken, Marcel, Honoré, Nicole, Doubeikovsky, Alexandre, ...
Promyelocytic leukemia (PML) is the organizer of nuclear matrix domains, PML nuclear bodies (NBs), with a proposed role in apoptosis control. In acute promyelocytic leukemia, PML/retinoic acid...
Spatial Regression Models for Demographic Analysis
Spatial regression, Spatial data analysis, Spatial weight matrix, Spatial autocorrelation and heterogeneity, Spatial demographic analysis,
Nonparametric Functional Mapping of Quantitative Trait Loci Underlying Programmed Cell Death
Yuehua Cui, Rongling Wu, George Casella, Jun Zhu
The development of an organism represents a complex dynamic process, which is controlled by a network of genes and multiple environmental factors. Programmed cell death (PCD), a physiological cell...
Mapping Interspecific Genetic Architecture in a Host–Parasite Interaction System
Yang, Jian, Wu, Weiren, Zhu, Jun
Under a hypothesis that the host–parasite interaction system is governed by genome-for-genome interaction, we propose a genetic model that integrates genetic information from both the host and...
Mapping the Genetic Architecture of Gene Expression in Human Liver
Schadt, Eric E, Molony, Cliona, Chudin, Eugene, Hao, Ke, Yang, Xia, Lum, Pek Y, ...
Genetic variants that are associated with common human diseases do not lead directly to disease, but instead act on intermediate, molecular phenotypes that in turn induce changes in higher-order...
Bootstrapping the Empirical Distribution Function of a Spatial Process
functional central limit theorem, increasing domain asymptotics, infill asymptotics, resampling, α-mixing random field,
Effect of Liquid Swine Manure on Hatch and Viability of Heterodera glycines
Xiao, Jianli, Chen, Senyu, Zhu, Jun, Ruan, Weibin
Experiments were conducted in the laboratory and greenhouse to determine the effect of raw and anaerobically digested liquid swine manures on the hatch and viability of Heterodera glycines, the...
Influence of outliers on QTL mapping for complex traits*
Hayat, Yousaf, Yang, Jian, Xu, Hai-ming, Zhu, Jun
A method was proposed for the detection of outliers and influential observations in the framework of a mixed linear model, prior to the quantitative trait locus (QTL) mapping analysis. We...
Eickhoff, Jens C., Zhu, Jun, Amemiya, Yasuo
When the conditional expectation of a complete-data likelihood in an EM algorithm is analytically intractable, Monte Carlo integration is often used to approximate the E-step. While the resulting...
Mucosal penetration primes Vibrio cholerae for host colonization by repressing quorum sensing
Liu, Zhi, Miyashiro, Tim, Tsou, Amy, Hsiao, Ansel, Goulian, Mark, Zhu, Jun
To successfully infect a host and cause the diarrheal disease cholera, Vibrio cholerae must penetrate the intestinal mucosal layer and express virulence genes. Previous studies have demonstrated that...
A new Vibrio cholerae sRNA modulates colonization and affects release of outer membrane vesicles
Song, Tianyan, Mika, Franziska, Lindmark, Barbro, Liu, Zhi, Schild, Stefan, Bishop, Anne, ...
We discovered a new small non-coding RNA (sRNA) gene, vrrA of Vibrio cholerae O1 strain A1552. A vrrA mutant overproduces OmpA porin, and we demonstrate that the 140 nt VrrA RNA represses ompA...
A Combinatorial Approach to Detecting Gene-Gene and Gene-Environment Interactions in Family Studies
Lou, Xiang-Yang, Chen, Guo-Bo, Yan, Lei, Ma, Jennie Z., Mangold, Jamie E., Zhu, Jun, ...
Widespread multifactor interactions present a significant challenge in determining risk factors of complex diseases. Several combinatorial approaches, such as the multifactor dimensionality reduction...
Tsou, Amy M., Cai, Tao, Liu, Zhi, Zhu, Jun, Kulkarni, Rahul V.
The quorum-sensing pathway in Vibrio cholerae controls the expression of the master regulator HapR, which in turn regulates several important processes such as virulence factor production and biofilm...
Guan, Yue-Feng, Huang, Xue-Yong, Zhu, Jun, Gao, Ju-Fang, Zhang, Hong-Xia, Yang, Zhong-Nan
During microsporogenesis, the microsporocyte (or microspore) plasma membrane plays multiple roles in pollen wall development, including callose secretion, primexine deposition, and exine pattern...
Tsou, Amy M, Frey, Erin M, Hsiao, Ansel, Liu, Zhi, Zhu, Jun
Pathogenic bacteria, such as Vibrio cholerae, must be capable of adapting to diverse living conditions, especially when transitioning from life in environmental reservoirs to life in a host. The...
Yuan, Ping, Qiao, Liang, Dai, Li, Wang, Yan-Ping, Zhou, Guang-Xuan, Han, Ying, ...
AIM: To investigate the spatial distribution patterns of anorectal atresia/stenosis in China.
Lasaro, Melissa A., Salinger, Nina, Zhang, Jing, Wang, Yantao, Zhong, Zhengtao, Goulian, Mark, ...
Bacterial biofilm formation is thought to enhance survival in natural environments and during interaction with hosts. A robust colonizer of the human gastrointestinal tract, Escherichia coli Nissle...
Yang, Menghua, Giel, Jennifer L., Cai, Tao, Zhong, Zengtao, Zhu, Jun
MrtR, a LuxR homolog in Mesorhizobium tianshanense, is important for symbiosis. We found that MrtR requires its cognate N-acylhomoserine lactone for forming dimers, binding to a single DNA site and...
Fan, Jian-Gao, Cai, Xiao-Bu, Li, Lui, Li, Xing-Jian, Dai, Fei, Zhu, Jun
AIM: To examine the relations of alcohol consumption to the prevalence of metabolic syndrome in Shanghai adults.
Wang, Song-Mei, Zhu, Jun, Pan, Luan-Feng, Liu, Yin-Kun
AIM: To block the adhesion of tumor cells to the extracellular matrix, and prevent tumor metastasis and recurrence, the dimer of the β peptide (DLYYLMDLSYSMKGGDLYYLMDLSYSMK, β2) was designed and...
Multi-tissue coexpression networks reveal unexpected subnetworks associated with disease
Dobrin, Radu, Zhu, Jun, Molony, Cliona, Argman, Carmen, Parrish, Mark L, Carlson, Sonia, ...
Tissue-to-tissue coexpression networks between genes in hypothalamus, liver or adipose tissue enable identification of obesity-specific genes.
Role of Melanin Pigment in Expression of Vibrio cholerae Virulence Factors▿
Valeru, Soni Priya, Rompikuntal, Pramod Kumar, Ishikawa, Takahiko, Vaitkevicius, Karolis, Sjöling, Åsa, Dolganov, Nadia, ...
We identified the mutated gene locus in a pigment-overproducing Vibrio cholerae mutant of strain A1552. The deduced gene product is suggested to be an oxidoreductase based on partial homology to...
Nie, Liping, Zhu, Jun, Gratton, Michael Anne, Liao, Amy, Mu, Karen J., Nonner, Wolfgang, ...
The molecular identity of non-Cav1.3 channels in auditory and vestibular hair cells has remained obscure, yet the evidence in support of their roles to promote diverse Ca2+-dependent functions is...
Hsiao, Ansel, Xu, Xiao, Kan, Biao, Kulkarni, Rahul V., Zhu, Jun
The pathogen Vibrio cholerae uses a large number of coordinated transcriptional regulatory events to transition from its environmental reservoir to the host and establish itself at its preferred...
Sumithran, Sangeetha P., Crooks, Peter A., Xu, Rui, Zhu, Jun, Deaciuc, Agripina G., Wilkins, Lincoln H., ...
N-n-Octylnicotinium iodide (NONI) andN-n-decylnicotinium iodide (NDNI) are selective nicotinic receptor (nAChR) antagonists mediating nicotine-evoked striatal dopamine (DA) release, and inhibiting...
Power analysis of principal components regression in genetic association studies*
Association analysis provides an opportunity to find genetic variants underlying complex traits. A principal components regression (PCR)-based approach was shown to outperform some competing...