Xin Gao

Tuning parameter selection for penalized likelihood estimation of inverse covariance matrix (2009)

Gao, Xin, Pu, Daniel Q., Wu, Yuehua, Xu, Hong

In a Gaussian graphical model, the conditional independence between two variables are characterized by the corresponding zero entries in the inverse covariance matrix. Maximum likelihood method using...

A Facile Strategy for In Situ Core-Template-Functionalizing Siliceous Hollow Nanospheres for Guest Species Entrapment (2009)

Wang, Jun, Gao, Xin, Yang, Xianyan, Gan, Yilai, Weng, Wenjian, Gou, Zhongru

The shell wall-functionalized siliceous hollow nanospheres (SHNs) with functional molecules represent an important class of nanocarriers for a rich range of potential applications. Herein, a...

Improving consensus contact prediction via server correlation reduction (2009)

Gao, Xin, Bu, Dongbo, Xu, Jinbo, Li, Ming

Abstract Background Protein inter-residue contacts play a crucial role in the determination and prediction of protein structures. Previous studies on contact prediction indicate that although...

Interaction of hookworm 14-3-3 with the forkhead transcription factor DAF-16 requires intact Akt phosphorylation sites (2009)

Kiss, Joshua E, Gao, Xin, Krepp, Joseph M, Hawdon, John M

Abstract Background Third-stage infective larvae (L3) of hookworms are in an obligatory state of developmental arrest that ends upon entering the definitive host, where they receive a signal that...

Transition Dependency: A Gene-Gene Interaction Measure for Times Series Microarray Data (2009)

Xin Gao, Daniel Q. Pu

Gene-Gene dependency plays a very important role in system biology as it pertains to the crucial understanding of different biological mechanisms. Time-course microarray data provides a new platform...

Asymptotic Behavior of Tail Density for Sum of Correlated Lognormal Variables (2009)

Xin Gao, Hong Xu, Dong Ye

We consider the asymptotic behavior of a probability density function for the sum of any two lognormally distributed random variables that are nontrivially correlated. We show that both the left and...

PICKY: a novel SVD-based NMR spectra peak picking method (2009)

Alipanahi, Babak, Gao, Xin, Karakoc, Emre, Donaldson, Logan, Li, Ming

Motivation: Picking peaks from experimental NMR spectra is a key unsolved problem for automated NMR protein structure determination. Such a process is a prerequisite for resonance assignment, nuclear...

GiardiaDB and TrichDB: integrated genomic resources for the eukaryotic protist pathogens Giardia lamblia and Trichomonas vaginalis (2009)

Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Carlton, Jane M., Dommer, Jennifer, Fischer, Steve, ...

GiardiaDB (http://GiardiaDB.org) and TrichDB (http://TrichDB.org) house the genome databases for Giardia lamblia and Trichomonas vaginalis, respectively, and represent the latest additions to the...

PlasmoDB: a functional genomic database for malaria parasites (2009)

Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Dommer, Jennifer, Fischer, Steve, Gajria, Bindu, ...

PlasmoDB (http://PlasmoDB.org) is a functional genomic database for Plasmodium spp. that provides a resource for data analysis and visualization in a gene-by-gene or genome-wide scale. PlasmoDB...

Transition Dependency: A Gene-Gene Interaction Measure for Times Series Microarray Data (2009)

Xin Gao, Daniel Q. Pu

Gene-Gene dependency plays a very important role in system biology as it pertains to the crucial understanding of different biological mechanisms. Time-course microarray data provides a new platform...

Asymptotic Behavior of Tail Density for Sum of Correlated Lognormal Variables (2009)

Xin Gao, Hong Xu, Dong Ye

We consider the asymptotic behavior of a probability density function for the sum of any two lognormally distributed random variables that are nontrivially correlated. We show that both the left and...

GiardiaDB and TrichDB : integrated genomic resources for the eukaryotic protist pathogens Giardia lamblia and Trichomonas vaginalis (2008)

Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Carlton, Jane M., Dommer, Jennifer, Fischer, Steve, ...

© 2008 The Authors. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License. The definitive version was published in Nucleic Acids...

An Evaluation of Multiple Approaches For Database Federation in Life Science (2008)

Zhiming Wang, Xin Gao, Congzhou He, John A. Miller, Jessica C, Mark Heiges, ...

Between technological breakthrough and new computational approaches, the amount of biological data is increasing explosively. Till to 2007, there are 968 biological databases. To provide biologists...

FragQA: predicting local fragment quality of a sequence-structure alignment (2008)

Xin Gao, Dongbo Bu, Shuai Cheng, Li Jinbo, Xu Ming Li

Although protein structure prediction has made great progress in recent years, a protein model derived from automated prediction methods is subject to various errors. As methods for structure...

Rapid and Accurate Protein Side Chain Prediction Using Local Backbone Information Only (2008)

Jing Zhang, Xin Gao, Jinbo Xu, Ming Li

Abstract. High-accuracy protein structure modeling demands on accurate and very fast side chain prediction since such a procedure must be repeatedly called at each step of structure refinement. Many...

A space-efficient wireless mesh network : architecture, frequency planning and routing (2008)

Gao, Xin

Thesis (M.Phil.)--Hong Kong University of Science and Technology, 2008

ToxoDB: an integrated Toxoplasma gondii database resource (2008)

Gajria, Bindu, Bahl, Amit, Brestelli, John, Dommer, Jennifer, Fischer, Steve, Gao, Xin, ...

ToxoDB (http://ToxoDB.org) is a genome and functional genomic database for the protozoan parasite Toxoplasma gondii. It incorporates the sequence and annotation of the T. gondii ME49 strain, as well...

Designing succinct structural alphabets (2008)

Li, Shuai Cheng, Bu, Dongbo, Gao, Xin, Xu, Jinbo, Li, Ming

Motivation: The 3D structure of a protein sequence can be assembled from the substructures corresponding to small segments of this sequence. For each small sequence segment, there are only a few more...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

The Effects of Outcomes-Driven Authentic Assessment on Classroom Quality (2007)

Rena Hallam, Jennifer Grisham-Brown, Xin Gao, Robyn Brookshire

Twenty-six Head Start preschool classrooms participated in a yearlong intervention designed to link the Head Start Child Outcomes Framework with authentic assessment practices. Teachers in...

A Comparison of Federated Databases with Web Services for the Integration of Bioinformatics Data (2007)

Zhiming Wang, Xin Gao, Congzhou He, John A. Miller, Jessica C. Kissinger, Mark Heiges, ...

Abstract- Between technological breakthroughs and new computational approaches, the amount of biological data is increasing explosively. Currently, there are many data integration approaches that can...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

A Service for Audio Icon and Audio Books in the Mobile Tourist Information System (TIP) via the Greenstone Digital Library (2007)

Gao, Xin

This project provides an audio notification about nearby tourism place to visit (named sight in this thesis), a chapter based Audio Books related to the current sight and involving Digital Library to...

Preparation of nanomagnetic absorbent for partition coefficient measurement (2006)

Tsang, Shik Chi, Yu, Chih Hao, Gao, Xin, Tam, Kin Y.

In this paper, we report a new method based on supercritical carbon dioxide (scCO2) to fill and distribute the porous magnetic nanoparticles with n-octanol in a homogeneous manner. The high...

The TIP/Greenstone Bridge: A Service for Mobile Location-Based Access to Digital Libraries (2006)

Hinze, Annika, Gao, Xin, Bainbridge, David

This paper introduces the first combination of a mobile tourist guide with a digital library. Location-based search allows for access to a rich set of materials with cross references between...

Tracing of inernal layers in radar echograms from a Greenland study region [electronic resource] / (2006)

Gao, Xin.

Signs of long-term glaciological processes and past ice sheet structure are preserved in the internal layer signatures of the Greenland ice sheet. Internal layer data have been collected over a...

Construction of null statistics in permutation-based multiple testing for multi-factorial microarray experiments (2006)

Gao, Xin

Motivation: The parametric F-test has been widely used in the analysis of factorial microarray experiments to assess treatment effects. However, the normality assumption is often untenable for...

CryptoDB: a Cryptosporidium bioinformatics resource update (2006)

Heiges, Mark, Wang, Haiming, Robinson, Edward, Aurrecoechea, Cristina, Gao, Xin, Kaluskar, Nivedita, ...

The database, CryptoDB (http://CryptoDB.org), is a community bioinformatics resource for the AIDS-related apicomplexan-parasite, Cryptosporidium. CryptoDB integrates whole genome sequence and...

Nonparametric tests for differential gene expression and interaction effects in multi-factorial microarray experiments (2005)

Gao, Xin, Song, Peter XK

Abstract Background Numerous nonparametric approaches have been proposed in literature to detect differential gene expression in the setting of two user-defined groups. However, there is a lack of...

interaction effects in multi-factorial microarray experiments (2005)

Xin Gao, Peter Xk Song

Background: Numerous nonparametric approaches have been proposed in literature to detect differential gene expression in the setting of two user-defined groups. However, there is a lack of...

Systematik der Verbindungen-ein beitrag zum methodischen Konstruieren / (1983)

Gao, Xin.

Thesis (doctoral)--Rheinisch-Westfälische Technische Hochschule Aachen, 1983.

Transformation of Sib-Pair Values for the Haseman-Elston Method

Wang, Daolong, Lin, Shili, Cheng, Rong, Gao, Xin, Wright, Fred A.

The squared sib-pair phenotype difference (SQD) has been used as a dependent variable in the Haseman-Elston (H-E) regression quantitative-trait locus (QTL) linkage method, but it has been shown that...

CryptoDB: a Cryptosporidium bioinformatics resource update

Heiges, Mark, Wang, Haiming, Robinson, Edward, Aurrecoechea, Cristina, Gao, Xin, Kaluskar, Nivedita, ...

The database, CryptoDB (), is a community bioinformatics resource for the AIDS-related apicomplexan-parasite, Cryptosporidium. CryptoDB integrates whole genome sequence and annotation with expressed...

Nonparametric disequilibrium mapping of functional sites using haplotypes of multiple tightly linked single-nucleotide polymorphism markers.

Cheng, Rong, Ma, Jennie Z, Wright, Fred A, Lin, Shili, Gao, Xin, Wang, Daolong, ...

As the speed and efficiency of genotyping single-nucleotide polymorphisms (SNPs) increase, using the SNP map, it becomes possible to evaluate the extent to which a common haplotype contributes to the...

Transformation of Sib-Pair Values for the Haseman-Elston Method

Wang, Daolong, Lin, Shili, Cheng, Rong, Gao, Xin, Wright, Fred A.

The squared sib-pair phenotype difference (SQD) has been used as a dependent variable in the Haseman-Elston (H-E) regression quantitative-trait locus (QTL) linkage method, but it has been shown that...

CryptoDB: a Cryptosporidium bioinformatics resource update

Heiges, Mark, Wang, Haiming, Robinson, Edward, Aurrecoechea, Cristina, Gao, Xin, Kaluskar, Nivedita, ...

The database, CryptoDB (), is a community bioinformatics resource for the AIDS-related apicomplexan-parasite, Cryptosporidium. CryptoDB integrates whole genome sequence and annotation with expressed...

Nonparametric disequilibrium mapping of functional sites using haplotypes of multiple tightly linked single-nucleotide polymorphism markers.

Cheng, Rong, Ma, Jennie Z, Wright, Fred A, Lin, Shili, Gao, Xin, Wang, Daolong, ...

As the speed and efficiency of genotyping single-nucleotide polymorphisms (SNPs) increase, using the SNP map, it becomes possible to evaluate the extent to which a common haplotype contributes to the...

Characterizing HMW-GS alleles of decaploid Agropyron elongatum in relation to evolution and wheat breeding

Liu, Shuwei, Gao, Xin, Xia, Guangmin

Bread wheat quality is mainly correlated with high molecular weight glutenin subunits (HMW-GS) of endosperm. The number of HMW-GS alleles with good processing quality is limited in bread wheat...

ToxoDB: an integrated Toxoplasma gondii database resource

Gajria, Bindu, Bahl, Amit, Brestelli, John, Dommer, Jennifer, Fischer, Steve, Gao, Xin, ...

ToxoDB (http://ToxoDB.org) is a genome and functional genomic database for the protozoan parasite Toxoplasma gondii. It incorporates the sequence and annotation of the T. gondii ME49 strain, as well...

Mechanisms of skeletal muscle injury and repair revealed by gene expression studies in mouse models

Warren, Gordon L, Summan, Mukesh, Gao, Xin, Chapman, Rebecca, Hulderman, Tracy, Simeonova, Petia P

Common acute injuries to skeletal muscle can lead to significant pain and disability. The current therapeutic approaches for treating muscle injuries are dependent on the clinical severity but not on...

Transition Dependency: A Gene-Gene Interaction Measure for Times Series Microarray Data

Gao, Xin, Pu, Daniel Q., Song, Peter X.-K.

Gene-Gene dependency plays a very important role in system biology as it pertains to the crucial understanding of different biological mechanisms. Time-course microarray data provides a new platform...

GiardiaDB and TrichDB: integrated genomic resources for the eukaryotic protist pathogens Giardia lamblia and Trichomonas vaginalis

Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Carlton, Jane M., Dommer, Jennifer, Fischer, Steve, ...

GiardiaDB (http://GiardiaDB.org) and TrichDB (http://TrichDB.org) house the genome databases for Giardia lamblia and Trichomonas vaginalis, respectively, and represent the latest additions to the...

PlasmoDB: a functional genomic database for malaria parasites

Aurrecoechea, Cristina, Brestelli, John, Brunk, Brian P., Dommer, Jennifer, Fischer, Steve, Gajria, Bindu, ...

PlasmoDB (http://PlasmoDB.org) is a functional genomic database for Plasmodium spp. that provides a resource for data analysis and visualization in a gene-by-gene or genome-wide scale. PlasmoDB...

PICKY: a novel SVD-based NMR spectra peak picking method

Alipanahi, Babak, Gao, Xin, Karakoc, Emre, Donaldson, Logan, Li, Ming

Motivation: Picking peaks from experimental NMR spectra is a key unsolved problem for automated NMR protein structure determination. Such a process is a prerequisite for resonance assignment, nuclear...

Designing succinct structural alphabets

Li, Shuai Cheng, Bu, Dongbo, Gao, Xin, Xu, Jinbo, Li, Ming

Motivation: The 3D structure of a protein sequence can be assembled from the substructures corresponding to small segments of this sequence. For each small sequence segment, there are only a few more...