Ming Tan

Publication List Details

Period

1991 - 2009

Number

105

Co-Authors

Regularized F-Measure Maximization for Feature Selection and Classification (2009)

Zhenqiu Liu, Ming Tan, Feng Jiang

Receiver Operating Characteristic (ROC) analysis is a common tool for assessing the performance of various classifications. It gained much popularity in medical and other fields including biological...

The cell-penetrating peptide, Pep-1, has activity against intracellular chlamydial growth but not extracellular forms of Chlamydia trachomatis (2009)

Park, Narae, Yamanaka, Kinrin, Tran, Dat, Chandrangsu, Pete, Akers, Johnny C., De Leon, Jessica C., ...

Objectives In the course of studies to identify novel treatment strategies against the pathogenic bacterium, Chlamydia, we tested the carrier peptide, Pep-1, for activity against an intracellular...

Regularized F-Measure Maximization for Feature Selection and Classification (2009)

Zhenqiu Liu, Ming Tan, Feng Jiang

Receiver Operating Characteristic (ROC) analysis is a common tool for assessing the performance of various classifications. It gained much popularity in medical and other fields including biological...

Gene and pathway identification with Lppenalized Bayesian logistic regression (2008)

Liu, Zhenqiu, Gartenhaus, Ronald B, Tan, Ming, Jiang, Feng, Jiao, Xiaoli

Abstract Background Identifying genes and pathways associated with diseases such as cancer has been a subject of considerable research in recent years in the area of bioinformatics and computational...

Electroacupuncture activates corticotrophin-releasing hormone-containing neurons in the paraventricular nucleus of the hypothalammus to alleviate edema in a rat model of inflammation (2008)

Li, Aihui, Lao, Lixing, Wang, Yi, Xin, Jiajia, Ren, Ke, Berman, Brian M, ...

Abstract Background Studies show that electroacupuncture (EA) has beneficial effects in patients with inflammatory diseases. This study investigated the mechanisms of EA anti-inflammation, using a...

Constructing Tumor Progression Pathways and Biomarker Discovery with Fuzzy Kernel Kmeans and DNA Methylation Data (2008)

Zhenqiu Liu, Zhongmin Guo, Ming Tan

Constructing pathways of tumor progression and discovering the biomarkers associated with cancer is critical for understanding the molecular basis of the disease and for the establishment of novel...

Constructing Tumor Progression Pathways and Biomarker Discovery with Fuzzy Kernel Kmeans and DNA Methylation Data (2008)

Zhenqiu Liu, Zhongmin Guo, Ming Tan

Constructing pathways of tumor progression and discovering the biomarkers associated with cancer is critical for understanding the molecular basis of the disease and for the establishment of novel...

Corticosterone mediates electroacupuncture-produced anti-edema in a rat model of inflammation (2007)

Li, Aihui, Zhang, Rui-Xin, Wang, Yi, Zhang, Haiqing, Ren, Ke, Berman, Brian M, ...

Abstract Background Electroacupuncture (EA) has been reported to produce anti-edema and anti-hyperalgesia effects on inflammatory disease. However, the mechanisms are not clear. The present study...

Sparse Logistic Regression with Lp Penalty for Biomarker Identification (2007)

Liu, Zhenqiu, Jiang, Feng, Tian, Guoliang, Wang, Suna, Sato, Fumiaki, Meltzer, Stephen J., ...

In this paper, we propose a novel method for sparse logistic regression with non-convex regularization Lp (p

Sparse Logistic Regression with Lp Penalty for Biomarker Identification (2007)

Liu, Zhenqiu, Jiang, Feng, Tian, Guoliang, Wang, Suna, Sato, Fumiaki, Meltzer, Stephen J., ...

In this paper, we propose a novel method for sparse logistic regression with non-convex regularization Lp (p

Sparse Logistic Regression with Lp Penalty for Biomarker Identification (2007)

Liu, Zhenqiu, Jiang, Feng, Tian, Guoliang, Wang, Suna, Sato, Fumiaki, Meltzer, Stephen J., ...

In this paper, we propose a novel method for sparse logistic regression with non-convex regularization Lp (p

Sparse Logistic Regression with Lp Penalty for Biomarker Identification (2007)

Liu, Zhenqiu, Jiang, Feng, Tian, Guoliang, Wang, Suna, Sato, Fumiaki, Meltzer, Stephen J., ...

In this paper, we propose a novel method for sparse logistic regression with non-convex regularization Lp (p

Climatic differences and similarities between Indian and East Asian Monsoon regions of China over the last millennium: a perspective based mainly on stalagmite records. (2007)

Ming Tan

Cave sediments, especially stalagmites, have been providing absolute dated climate records that can extend from the present to over 500,000 years ago. Based on the reconstructed temperature time...

In silico prediction and functional validation of sigma28-regulated genes in Chlamydia and Escherichia coli. (2006)

Yu, Hilda Hiu Yin, Kibler, Dennis, Tan, Ming

sigma(28) RNA polymerase is an alternative RNA polymerase that has been proposed to have a role in late developmental gene regulation in Chlamydia, but only a single target gene has been identified....

Molecular mechanism of tryptophan-dependent transcriptional regulation in Chlamydia trachomatis (2006)

Akers, Johnny C, Tan, Ming

Tryptophan is an essential amino acid that is required for normal development in Chlamydia species, and tryptophan metabolism has been implicated in chlamydial persistence and tissue tropism. The...

Molecular mechanism of tryptophan-dependent transcriptional regulation in Chlamydia trachomatis. (2006)

Akers, Johnny C, Tan, Ming

Tryptophan is an essential amino acid that is required for normal development in Chlamydia species, and tryptophan metabolism has been implicated in chlamydial persistence and tissue tropism. The...

Arginine-dependent gene regulation via the ArgR repressor is species specific in Chlamydia (2006)

Schaumburg, Chris S, Tan, Ming

Some, but not all, Chlamydia spp. are predicted to encode a homolog of ArgR, a master regulatory molecule that modulates arginine biosynthesis and catabolism in bacteria in response to intracellular...

Arginine-dependent gene regulation via the ArgR repressor is species specific in Chlamydia. (2006)

Schaumburg, Chris S, Tan, Ming

Some, but not all, Chlamydia spp. are predicted to encode a homolog of ArgR, a master regulatory molecule that modulates arginine biosynthesis and catabolism in bacteria in response to intracellular...

Geometrical-Statistical Modeling of Character Structures for Natural Stroke Extraction and Matching (2006)

Liu, Xiabi, Jia, Yunde, Tan, Ming

This paper proposes a model-based approach to extract natural strokes in handwritten Chinese character images. We model the distortion between an input stroke and its counterpart in the character...

Geometrical-Statistical Modeling of Character Structures for Natural Stroke Extraction and Matching (2006)

Liu, Xiabi, Jia, Yunde, Tan, Ming

This paper proposes a model-based approach to extract natural strokes in handwritten Chinese character images. We model the distortion between an input stroke and its counterpart in the character...

Geometrical-Statistical Modeling of Character Structures for Natural Stroke Extraction and Matching (2006)

Liu, Xiabi, Jia, Yunde, Tan, Ming

This paper proposes a model-based approach to extract natural strokes in handwritten Chinese character images. We model the distortion between an input stroke and its counterpart in the character...

Geometrical-Statistical Modeling of Character Structures for Natural Stroke Extraction and Matching (2006)

Liu, Xiabi, Jia, Yunde, Tan, Ming

This paper proposes a model-based approach to extract natural strokes in handwritten Chinese character images. We model the distortion between an input stroke and its counterpart in the character...

Geometrical-Statistical Modeling of Character Structures for Natural Stroke Extraction and Matching (2006)

Liu, Xiabi, Jia, Yunde, Tan, Ming

This paper proposes a model-based approach to extract natural strokes in handwritten Chinese character images. We model the distortion between an input stroke and its counterpart in the character...

Population inversion of metastable Ni atoms sputtered from Ni(100), Ni3Al(100), and NiAl(110) (2006)

Tan, Ming, King, Bruce V.

We have measured the ratio of the population of Ni neutral atoms sputtered into the a³D₃ metastable state to that into the a³F₄ ground state using two-color ionization schemes. The ratio is...

Population inversion of metastable Ni atoms sputtered from Ni(100), Ni3Al(100), and NiAl(110) (2006)

Tan, Ming, King, Bruce V.

We have measured the ratio of the population of Ni neutral atoms sputtered into the a³D₃ metastable state to that into the a³F₄ ground state using two-color ionization schemes. The ratio is...

Chlamydial GroEL autoregulates its own expression through direct interactions with the HrcA repressor protein. (2005)

Wilson, Adam C, Wu, Christine C, Yates, John R, Tan, Ming

In the pathogenic bacterium Chlamydia trachomatis, a transcriptional repressor, HrcA, regulates the major heat shock operons, dnaK and groE. Cellular stress causes a transient increase in...

Chlamydial GroEL autoregulates its own expression through direct interactions with the HrcA repressor protein. (2005)

Wilson, Adam C, Wu, Christine C, Yates, John R, Tan, Ming

In the pathogenic bacterium Chlamydia trachomatis, a transcriptional repressor, HrcA, regulates the major heat shock operons, dnaK and groE. Cellular stress causes a transient increase in...

Stress response gene regulation in Chlamydia is dependent on HrcA-CIRCE interactions (2004)

Wilson, Adam C, Tan, Ming

HrcA is a transcriptional repressor that regulates stress response genes in many bacteria by binding to the CIRCE operator. We have previously shown that HrcA regulates the promoter for the dnaK heat...

Stress response gene regulation in Chlamydia is dependent on HrcA-CIRCE interactions. (2004)

Wilson, Adam C, Tan, Ming

HrcA is a transcriptional repressor that regulates stress response genes in many bacteria by binding to the CIRCE operator. We have previously shown that HrcA regulates the promoter for the dnaK heat...

Sigma28 RNA polymerase regulates hctB, a late developmental gene in Chlamydia. (2003)

Yu, Hilda Hiu Yin, Tan, Ming

Chlamydia is predicted to encode two alternative sigma factors that could provide a mechanism for the regulation of gene expression via alternative forms of RNA polymerase. We have demonstrated that...

Mutational analysis of the Chlamydia trachomatis dnaK promoter defines the optimal -35 promoter element. (2003)

Schaumburg, Chris S, Tan, Ming

A long-standing question in the biology of the intracellular bacterium, Chlamydia, has been the structure of the promoter recognized by its RNA polymerase. The 'RNA polymerase sigma subunit paradox'...

Mutational analysis of the Chlamydia trachomatis dnaK promoter defines the optimal -35 promoter element (2003)

Schaumburg, Chris S., Tan, Ming

A long‐standing question in the biology of the intracellular bacterium, Chlamydia, has been the structure of the promoter recognized by its RNA polymerase. The ‘RNA polymerase sigma subunit...

Functional analysis of the heat shock regulator HrcA of Chlamydia trachomatis. (2002)

Wilson, Adam C, Tan, Ming

HrcA is a regulator of bacterial heat shock gene expression that binds to a cis-acting DNA element called CIRCE. It has been proposed that HrcA and CIRCE function as a repressor-operator pair. We...

Programmed Translational Frameshifting Is Likely Required for Expressions of Genes Encoding Putative Nuclear Protein Kinases of the Ciliate Euplotes octocarinatus (2001)

MING TAN, AIHUA LIANG, CLAUDIA BRÜNEN-NIEWELER, KLAUS HECKMANN

Three macronuclear genes encoding putative nuclear protein kinases of the ciliate Euplotes octocarinatus syngen 1 were isolated and sequenced. All three deduced gene products share significant...

Analysis of Micronuclear, Macronuclear and cDNA Sequences Encoding the Regulatory Subunit of cAMP-Dependent Protein Kinase of Euplotes octocarinatus: Evidence for a Ribosomal Frameshift (2001)

MING TAN, KLAUS HECKMANN, CLAUDIA BRÜNEN-NIEWELER

We have isolated and characterized the micronuclear gene encoding the regulatory subunit of cAMP-dependent protein kinase of the ciliated protozoan Euplotes octocarinatus, as well as its macronuclear...

The role oferbB2 receptor in human breast cancer metastasis (2000)

Tan, Ming

Overexpression of c-erb B-2 gene-encoded p185 has been correlated with lymph node metastasis and poor prognosis in breast cancer patients. To investigate whether overexpression of c-erb B-2 can...

C-ERB-2 Receptor Signalling and Breast Cancer Metastasis (1998)

Tan, Ming

Overexpression of the c-erbB2 gene has been shown to be correlated with poor prognosis and the number of lymph node metastases in breast cancer patients. Our recent work has demonstrated that c-erbB2...

C-ERBB-2 Receptor Signaling and Breast Cancer Metastasis (1998)

Tan, Ming

Overexpression of the c-erbB2 gene is correlated with poor prognosis and the number of lymph node metastases in breast cancer patients. Our previous work has demonstrated that erbB2 enhances the...

C-ERBB-2 Receptor Signaling and Breast Cancer Metastasis (1998)

Tan, Ming

In this study, we investigated the structural requirements of erbB2 for erbB2 mediated higher metastatic potential in human breast cancer cells. We found that the kinase domain of erbB2 receptor is...

Multi-Agent Reinforcement Learning: Independent vs. Cooperative Agents (1993)

Ming Tan

Intelligent human agents exist in a cooperative social environment that facilitates learning. They learn not only by trialand -error, but also through cooperation by sharing instantaneous...

Measuring the diaspora for virus-specific CD8+ T cells

Marshall, Dana R., Turner, Stephen J., Belz, Gabrielle T., Wingo, Suzette, Andreansky, Samita, Sangster, Mark Y., ...

The CD8+ T cell diaspora has been analyzed after secondary challenge with an influenza A virus that replicates only in the respiratory tract. Numbers of DbNP366- and DbPA224-specific CD8+ T cells...

A Positive cis-Acting DNA Element Is Required for High-Level Transcription in Chlamydia

Schaumburg, Chris S., Tan, Ming

The spacer A/T region is a positive cis-acting DNA element that was identified in the Chlamydia trachomatis rRNA promoter region. We have now demonstrated that similar sequences in other chlamydial...

Mutational Analysis of the Chlamydia trachomatis rRNA P1 Promoter Defines Four Regions Important for Transcription In Vitro

Tan, Ming, Gaal, Tamas, Gourse, Richard L., Engel, Joanne N.

We have characterized the Chlamydia trachomatis ribosomal promoter, rRNA P1, by measuring the effect of substitutions and deletions on in vitro transcription with partially purified C. trachomatis...

Functional Analysis of the Heat Shock Regulator HrcA of Chlamydia trachomatis

Wilson, Adam C., Tan, Ming

HrcA is a regulator of bacterial heat shock gene expression that binds to a cis-acting DNA element called CIRCE. It has been proposed that HrcA and CIRCE function as a repressor-operator pair. We...

Mutational analysis of the Chlamydia trachomatis dnaK promoter defines the optimal –35 promoter element

Schaumburg, Chris S., Tan, Ming

A long-standing question in the biology of the intracellular bacterium, Chlamydia, has been the structure of the promoter recognized by its RNA polymerase. The ‘RNA polymerase sigma subunit...

Origin Usage during Euplotes Ribosomal DNA Amplification

Tan, Ming, Jahn, Carolyn L., Price, Carolyn M.

The macronuclear genome of the ciliate Euplotes is comprised of millions of small linear DNA molecules that have telomeres on each end. These molecules are generated during the sexual stage of the...

Mutations within the P2 Domain of Norovirus Capsid Affect Binding to Human Histo-Blood Group Antigens: Evidence for a Binding Pocket

Tan, Ming, Huang, Pengwei, Meller, Jaroslaw, Zhong, Weiming, Farkas, Tibor, Jiang, Xi

Noroviruses (NORs) are an important cause of acute gastroenteritis. Recent studies of NOR receptors showed that different NORs bind to different histo-blood group antigens (HBGAs), and at least four...

Stress Response Gene Regulation in Chlamydia Is Dependent on HrcA-CIRCE Interactions

Wilson, Adam C., Tan, Ming

HrcA is a transcriptional repressor that regulates stress response genes in many bacteria by binding to the CIRCE operator. We have previously shown that HrcA regulates the promoter for the dnaK heat...

The P Domain of Norovirus Capsid Protein Forms Dimer and Binds to Histo-Blood Group Antigen Receptors

Tan, Ming, Hegde, Rashmi S., Jiang, Xi

Noroviruses (NVs) are the most important pathogen of epidemic nonbacterial gastroenteritis. The recent finding that NVs recognize human histo-blood group antigens (HBGAs) as receptors provided a new...

Neuraminidase Inhibitor-Rimantadine Combinations Exert Additive and Synergistic Anti-Influenza Virus Effects in MDCK Cells

Govorkova, Elena A., Fang, Hong-Bin, Tan, Ming, Webster, Robert G.

There is insufficient information about combination therapy with approved anti-influenza agents. We tested combinations that paired a neuraminidase (NA) inhibitor (zanamivir, oseltamivir carboxylate,...

Norovirus and Histo-Blood Group Antigens: Demonstration of a Wide Spectrum of Strain Specificities and Classification of Two Major Binding Groups among Multiple Binding Patterns

Huang, Pengwei, Farkas, Tibor, Zhong, Weiming, Tan, Ming, Thornton, Scott, Morrow, Ardythe L., ...

Noroviruses, an important cause of acute gastroenteritis, have been found to recognize human histo-blood group antigens (HBGAs) as receptors. Four strain-specific binding patterns to HBGAs have been...

Chlamydial GroEL Autoregulates Its Own Expression through Direct Interactions with the HrcA Repressor Protein

Wilson, Adam C., Wu, Christine C., Yates, John R., Tan, Ming

In the pathogenic bacterium Chlamydia trachomatis, a transcriptional repressor, HrcA, regulates the major heat shock operons, dnaK and groE. Cellular stress causes a transient increase in...

The P Domain of Norovirus Capsid Protein Forms a Subviral Particle That Binds to Histo-Blood Group Antigen Receptors

Tan, Ming, Jiang, Xi

Norovirus is the most important cause of nonbacterial acute gastroenteritis. We have shown previously that the isolated P domain containing the hinge forms a dimer and binds to histo-blood group...

Arginine-Dependent Gene Regulation via the ArgR Repressor Is Species Specific in Chlamydia

Schaumburg, Chris S., Tan, Ming

Some, but not all, Chlamydia spp. are predicted to encode a homolog of ArgR, a master regulatory molecule that modulates arginine biosynthesis and catabolism in bacteria in response to intracellular...

Molecular Mechanism of Tryptophan-Dependent Transcriptional Regulation in Chlamydia trachomatis

Akers, Johnny C., Tan, Ming

Tryptophan is an essential amino acid that is required for normal development in Chlamydia species, and tryptophan metabolism has been implicated in chlamydial persistence and tissue tropism. The...

Mutational Analysis of the Promoter Recognized by Chlamydia and Escherichia coli σ28 RNA Polymerase

Yu, Hilda Hiu Yin, Di Russo, Elizabeth G., Rounds, Megan A., Tan, Ming

σ28 RNA polymerase is an alternative RNA polymerase that has been postulated to have a role in developmental gene regulation in Chlamydia. Although a consensus bacterial σ28 promoter sequence has...

C-Terminal Arginine Cluster Is Essential for Receptor Binding of Norovirus Capsid Protein

Tan, Ming, Meller, Jarek, Jiang, Xi

Noroviruses are the major viral pathogens of epidemic acute gastroenteritis affecting people worldwide. They have been found to recognize human histo-blood group antigens as receptors. The P domain...

Measuring the diaspora for virus-specific CD8+ T cells

Marshall, Dana R., Turner, Stephen J., Belz, Gabrielle T., Wingo, Suzette, Andreansky, Samita, Sangster, Mark Y., ...

The CD8+ T cell diaspora has been analyzed after secondary challenge with an influenza A virus that replicates only in the respiratory tract. Numbers of DbNP366- and DbPA224-specific CD8+ T cells...

A Positive cis-Acting DNA Element Is Required for High-Level Transcription in Chlamydia

Schaumburg, Chris S., Tan, Ming

The spacer A/T region is a positive cis-acting DNA element that was identified in the Chlamydia trachomatis rRNA promoter region. We have now demonstrated that similar sequences in other chlamydial...

Mutational Analysis of the Chlamydia trachomatis rRNA P1 Promoter Defines Four Regions Important for Transcription In Vitro

Tan, Ming, Gaal, Tamas, Gourse, Richard L., Engel, Joanne N.

We have characterized the Chlamydia trachomatis ribosomal promoter, rRNA P1, by measuring the effect of substitutions and deletions on in vitro transcription with partially purified C. trachomatis...

Functional Analysis of the Heat Shock Regulator HrcA of Chlamydia trachomatis

Wilson, Adam C., Tan, Ming

HrcA is a regulator of bacterial heat shock gene expression that binds to a cis-acting DNA element called CIRCE. It has been proposed that HrcA and CIRCE function as a repressor-operator pair. We...

Mutational analysis of the Chlamydia trachomatis dnaK promoter defines the optimal –35 promoter element

Schaumburg, Chris S., Tan, Ming

A long-standing question in the biology of the intracellular bacterium, Chlamydia, has been the structure of the promoter recognized by its RNA polymerase. The ‘RNA polymerase sigma subunit...

Origin Usage during Euplotes Ribosomal DNA Amplification

Tan, Ming, Jahn, Carolyn L., Price, Carolyn M.

The macronuclear genome of the ciliate Euplotes is comprised of millions of small linear DNA molecules that have telomeres on each end. These molecules are generated during the sexual stage of the...

Mutations within the P2 Domain of Norovirus Capsid Affect Binding to Human Histo-Blood Group Antigens: Evidence for a Binding Pocket

Tan, Ming, Huang, Pengwei, Meller, Jaroslaw, Zhong, Weiming, Farkas, Tibor, Jiang, Xi

Noroviruses (NORs) are an important cause of acute gastroenteritis. Recent studies of NOR receptors showed that different NORs bind to different histo-blood group antigens (HBGAs), and at least four...

Stress Response Gene Regulation in Chlamydia Is Dependent on HrcA-CIRCE Interactions

Wilson, Adam C., Tan, Ming

HrcA is a transcriptional repressor that regulates stress response genes in many bacteria by binding to the CIRCE operator. We have previously shown that HrcA regulates the promoter for the dnaK heat...

The P Domain of Norovirus Capsid Protein Forms Dimer and Binds to Histo-Blood Group Antigen Receptors

Tan, Ming, Hegde, Rashmi S., Jiang, Xi

Noroviruses (NVs) are the most important pathogen of epidemic nonbacterial gastroenteritis. The recent finding that NVs recognize human histo-blood group antigens (HBGAs) as receptors provided a new...

Neuraminidase Inhibitor-Rimantadine Combinations Exert Additive and Synergistic Anti-Influenza Virus Effects in MDCK Cells

Govorkova, Elena A., Fang, Hong-Bin, Tan, Ming, Webster, Robert G.

There is insufficient information about combination therapy with approved anti-influenza agents. We tested combinations that paired a neuraminidase (NA) inhibitor (zanamivir, oseltamivir carboxylate,...

Norovirus and Histo-Blood Group Antigens: Demonstration of a Wide Spectrum of Strain Specificities and Classification of Two Major Binding Groups among Multiple Binding Patterns

Huang, Pengwei, Farkas, Tibor, Zhong, Weiming, Tan, Ming, Thornton, Scott, Morrow, Ardythe L., ...

Noroviruses, an important cause of acute gastroenteritis, have been found to recognize human histo-blood group antigens (HBGAs) as receptors. Four strain-specific binding patterns to HBGAs have been...

Chlamydial GroEL Autoregulates Its Own Expression through Direct Interactions with the HrcA Repressor Protein

Wilson, Adam C., Wu, Christine C., Yates, John R., Tan, Ming

In the pathogenic bacterium Chlamydia trachomatis, a transcriptional repressor, HrcA, regulates the major heat shock operons, dnaK and groE. Cellular stress causes a transient increase in...

The P Domain of Norovirus Capsid Protein Forms a Subviral Particle That Binds to Histo-Blood Group Antigen Receptors

Tan, Ming, Jiang, Xi

Norovirus is the most important cause of nonbacterial acute gastroenteritis. We have shown previously that the isolated P domain containing the hinge forms a dimer and binds to histo-blood group...

Arginine-Dependent Gene Regulation via the ArgR Repressor Is Species Specific in Chlamydia

Schaumburg, Chris S., Tan, Ming

Some, but not all, Chlamydia spp. are predicted to encode a homolog of ArgR, a master regulatory molecule that modulates arginine biosynthesis and catabolism in bacteria in response to intracellular...

Molecular Mechanism of Tryptophan-Dependent Transcriptional Regulation in Chlamydia trachomatis

Akers, Johnny C., Tan, Ming

Tryptophan is an essential amino acid that is required for normal development in Chlamydia species, and tryptophan metabolism has been implicated in chlamydial persistence and tissue tropism. The...

Mutational Analysis of the Promoter Recognized by Chlamydia and Escherichia coli σ28 RNA Polymerase

Yu, Hilda Hiu Yin, Di Russo, Elizabeth G., Rounds, Megan A., Tan, Ming

σ28 RNA polymerase is an alternative RNA polymerase that has been postulated to have a role in developmental gene regulation in Chlamydia. Although a consensus bacterial σ28 promoter sequence has...

C-Terminal Arginine Cluster Is Essential for Receptor Binding of Norovirus Capsid Protein

Tan, Ming, Meller, Jarek, Jiang, Xi

Noroviruses are the major viral pathogens of epidemic acute gastroenteritis affecting people worldwide. They have been found to recognize human histo-blood group antigens as receptors. The P domain...

In Silico Prediction and Functional Validation of σ28-Regulated Genes in Chlamydia and Escherichia coli▿ †

Yu, Hilda Hiu Yin, Kibler, Dennis, Tan, Ming

σ28 RNA polymerase is an alternative RNA polymerase that has been proposed to have a role in late developmental gene regulation in Chlamydia, but only a single target gene has been identified. To...

Structural Basis for the Recognition of Blood Group Trisaccharides by Norovirus▿

Cao, Sheng, Lou, Zhiyong, Tan, Ming, Chen, Yutao, Liu, Yijin, Zhang, Zhushan, ...

Noroviruses are one of the major causes of nonbacterial gastroenteritis epidemics in humans. Recent studies on norovirus receptors show that different noroviruses recognize different human...

Sparse Logistic Regression with Lp Penalty for Biomarker Identification

Zhenqiu Liu, Feng Jiang, Guoliang Tian, Suna Wang, Fumiaki Sato, Stephen Meltzer, ...

In this paper, we propose a novel method for sparse logistic regression with non-convex regularization Lp (p

Efficient methods for estimating constrained parameters with applications to regularized (lasso) logistic regression

Tian, Guo-Liang, Tang, Man-Lai, Fang, Hong-Bin, Tan, Ming

Fitting logistic regression models is challenging when their parameters are restricted. In this article, we first develop a quadratic lower-bound (QLB) algorithm for optimization with box or linear...

EM-type algorithms for computing restricted MLEs in multivariate normal distributions and multivariate t-distributions

Tian, Guo-Liang, Ng, Kai Wang, Tan, Ming

Constrained parameter problems arise in a variety of statistical applications but they have been most resistant to solution. This paper proposes methodology for estimating restricted parameters in...

Structural Basis for the Receptor Binding Specificity of Norwalk Virus▿

Bu, Weiming, Mamedova, Aygun, Tan, Ming, Xia, Ming, Jiang, Xi, Hegde, Rashmi S.

Noroviruses are positive-sense, single-stranded RNA viruses that cause acute gastroenteritis. They recognize human histo-blood group antigens as receptors in a strain-specific manner. The structures...

Simplex Mixed-Effects Models for Longitudinal Proportional Data

ZHENGUO QIU, MING TAN

Continuous proportional outcomes are collected from many practical studies, where responses are confined within the unit interval (0,1). Utilizing Barndorff-Nielsen and Jørgensen's simplex...

Improved estimators for the GMANOVA problem with application to Monte Carlo simulation

Tan, Ming

The problem of finding classes of estimators which improve upon the usual (e.g., ML, LS) estimator of the parameter matrix in the GMANOVA model under (matrix) quadratic loss is considered. Classes of...

Exact statistical solutions using the inverse Bayes formulae

Tian, Guo-Liang, Tan, Ming

This article extends the inverse Bayes formulae (IBF) in the product measurable space (PMS) to the nonproduct measurable space (NPMS) and focuses on their applications in compatibility checking and...

Grouped Dirichlet distribution: A new tool for incomplete categorical data analysis

Ng, Kai Wang, Tang, Man-Lai, Tan, Ming, Tian, Guo-Liang

Motivated by the likelihood functions of several incomplete categorical data, this article introduces a new family of distributions, grouped Dirichlet distributions (GDD), which includes the...

Testing multivariate normality in incomplete data of small sample size

Tan, Ming, Fang, Hong-Bin, Tian, Guo-Liang, Wei, Gang

In longitudinal studies with small samples and incomplete data, multivariate normal-based models continue to be a powerful tool for analysis. This has included a broad scope of biomedical studies....

Constructing Tumor Progression Pathways and Biomarker Discovery with Fuzzy Kernel Kmeans and DNA Methylation Data

Liu, Zhenqiu, Guo, Zhongmin, Tan, Ming

Constructing pathways of tumor progression and discovering the biomarkers associated with cancer is critical for understanding the molecular basis of the disease and for the establishment of novel...

DNA Supercoiling-Dependent Gene Regulation in Chlamydia▿

Niehus, Eike, Cheng, Eric, Tan, Ming

The intracellular pathogen Chlamydia has an unusual developmental cycle marked by temporal expression patterns whose mechanisms of regulation are largely unknown. To examine if DNA topology can...

Regularized F-Measure Maximization for Feature Selection and Classification

Liu, Zhenqiu, Tan, Ming, Jiang, Feng

Receiver Operating Characteristic (ROC) analysis is a common tool for assessing the performance of various classifications. It gained much popularity in medical and other fields including biological...

Non-iterative sampling-based Bayesian methods for identifying changepoints in the sequence of cases of Haemolytic uraemic syndrome

Tian, Guo-Liang, Ng, Kai Wang, Li, Kai-Can, Tan, Ming

Diarrhoea-associated Haemolytic Uraemic syndrome (HUS) is a disease that affects the kidneys and other organs. Motivated by the annual number of cases of HUS collected in Birmingham and Newcastle of...

Uniform distributions in a class of convex polyhedrons with applications to drug combination studies

Tian, Guo-Liang, Fang, Hong-Bin, Tan, Ming, Qin, Hong, Tang, Man-Lai

Motivated by experimental designs for drug combination studies, in this paper, we propose a novel approach for generating a uniform distribution on an arbitrary tetragon in two-dimensional Euclidean...

Host Complement Regulatory Protein CD59 Is Transported to the Chlamydial Inclusion by a Golgi Apparatus-Independent Pathway ▿

Hasegawa, Ayako, Sogo, L. Farah, Tan, Ming, Sütterlin, Christine

Chlamydia is an obligate intracellular bacterium that grows and replicates inside a cytoplasmic inclusion. We report that a host protein, CD59, which regulates complement function at the surfaces of...