Search Results - "Xia, Li Charlie"

Integrated metagenomic data analysis demonstrates that a loss of diversity in oral microbiota is associated with periodontitis by Ai, Dongmei, Huang, Ruocheng, Wen, Jin, Li, Chao, Zhu, Jiangping, Xia, Li Charlie

“…Periodontitis is an inflammatory disease affecting the tissues supporting teeth (periodontium). Integrative analysis of metagenomic samples from multiple…”
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Correlation detection strategies in microbial data sets vary widely in sensitivity and precision by Weiss, Sophie, Van Treuren, Will, Lozupone, Catherine, Faust, Karoline, Friedman, Jonathan, Deng, Ye, Xia, Li Charlie, Xu, Zhenjiang Zech, Ursell, Luke, Alm, Eric J, Birmingham, Amanda, Cram, Jacob A, Fuhrman, Jed A, Raes, Jeroen, Sun, Fengzhu, Zhou, Jizhong, Knight, Rob

“…Disruption of healthy microbial communities has been linked to numerous diseases, yet microbial interactions are little understood. This is due in part to the…”
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Identifying local associations in biological time series: algorithms, statistical significance, and applications by Ai, Dongmei, Chen, Lulu, Xie, Jiemin, Cheng, Longwei, Zhang, Fang, Luan, Yihui, Li, Yang, Hou, Shengwei, Sun, Fengzhu, Xia, Li Charlie

“…Abstract Local associations refer to spatial–temporal correlations that emerge from the biological realm, such as time-dependent gene co-expression or seasonal…”
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Ksak : A high-throughput tool for alignment-free phylogenetics by Liu, Xuemei, Cheng, Ziqi, Xu, Guohao, Xie, Jiemin, Liu, Xudong, Ren, Bozhen, Ai, Dongmei, Chen, Yangxin, Xia, Li Charlie

“…Phylogenetic tools are fundamental to the studies of evolutionary relationships. In this paper, we present , a novel high-throughput tool for alignment-free…”
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SVEngine: an efficient and versatile simulator of genome structural variations with features of cancer clonal evolution by Xia, Li Charlie, Ai, Dongmei, Lee, Hojoon, Andor, Noemi, Li, Chao, Zhang, Nancy R, Ji, Hanlee P

“…Simulating genome sequence data with variant features facilitates the development and benchmarking of structural variant analysis programs. However, there are…”
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F1‐01‐01: Structural Variation (SV) in Heterogenous Whole‐Genome Sequencing Data From 111 Families at Risk For Alzheimer Disease: Alzheimer Disease Sequencing Project SV Study by Xia, Li Charlie

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STRUCTURAL VARIATION (SV) IN HETEROGENOUS WHOLE-GENOME SEQUENCING DATA FROM 111 FAMILIES AT RISK FOR ALZHEIMER DISEASE: ALZHEIMER DISEASE SEQUENCING PROJECT SV STUDY by Xia, Li Charlie

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STRUCTURAL VARIATION (SV) IN HETEROGENOUS WHOLE-GENOME SEQUENCING DATA FROM 111 FAMILIES AT RISK FOR ALZHEIMER DISEASE: ALZHEIMER DISEASE SEQUENCING PROJECT SV STUDY by Xia, Li Charlie

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Abstract 438: High-quality CNV segments from low-coverage whole genome sequencing from FFPE cancer biopsies based on an evaluation of multiple CNV tools by Lee, HoJoon, Xia, Li Charlie, Greer, Stephanie, Bell, John, Grimes, Sue M., Bouwens, Christina Wood, Shin, Giwon, Lau, Billy TC, Johnson, Lucas, Andor, Noemi, Day, Kenneth, Miller, Mickey, Escobar, Helaman, Nadauld, Lincoln, Ji, Hanlee P., Hummelen, Paul Van

“…Abstract Changes in DNA copy number, i.e., somatic CNVs, are common genetic aberrations in cancers. The effects of CNV include alteration in gene dosage across…”
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3. Integrated whole-genome sequencing and bioinformatics analysis for copy number profiling identifies a recurrent alteration associated with poor survival in Stage III colorectal cancer by Xia, Li Charlie, Lee, Hojoon, Grimes, Sue, Kubit, Matt, Van Hummelen, Paul, Nadauld, Lincoln, Ji, Hanlee

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Loss of TP53 as a prognostic biomarker of poor survival in stage III colorectal cancer patients by Nadauld, Lincoln, Van Hummelen, Paul, Xia, Li Charlie, Day, Kenneth, Lee, Hojoon, Bell, John, Grimes, Susan M., Kubit, Matt, Miller, Mickey, Shin, Giwon, Wood, Christina, Greer, Stephanie, Escobar, Helaman, Haslem, Derrick S., Ji, Hanlee

“…Abstract only…”
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Genetic analysis of differentiation of T-helper lymphocytes by Wang, Qixin, Li, Menghui, Xia, Li Charlie, Wen, Ge, Zu, Hualong, Gao, Mingyi

“…Genetics and Molecular Research 2 (2012) 972-987 In the human immune system, T-helper cells are able to differentiate into two lymphocyte subsets: Th1 and Th2…”
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A comparative study of structural variant calling in WGS from Alzheimer's disease families by Malamon, John S, Farrell, John J, Xia, Li Charlie, Dombroski, Beth A, Das, Rueben G, Way, Jessica, Kuzma, Amanda B, Valladares, Otto, Leung, Yuk Yee, Scanlon, Allison J, Lopez, Irving Antonio Barrera, Brehony, Jack, Worley, Kim C, Zhang, Nancy R, Wang, Li-San, Farrer, Lindsay A, Schellenberg, Gerard D, Lee, Wan-Ping, Vardarajan, Badri N

“…Detecting structural variants (SVs) in whole-genome sequencing poses significant challenges. We present a protocol for variant calling, merging, genotyping,…”
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P1‐129: Structural Variation (SV) in Heterogenous Whole‐Genome Sequencing Data from 111 Families at Risk For Alzheimer's Disease: Alzheimer's Disease Sequencing Project SV Study by Xia, Li Charlie, Farrell, John, Zhang, Nancy, Salerno, William, Malamon, John, Murali, Shwetha C., Wang, Weixin, Wang, Li-San, Farrer, Lindsay A., Worley, Kim C., Schellenberg, Gerard D.

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STRUCTURAL VARIATION (SV) IN HETEROGENOUS WHOLE-GENOME SEQUENCING DATA FROM 111 FAMILIES AT RISK FOR ALZHEIMER'S DISEASE: ALZHEIMER'S DISEASE SEQUENCING PROJECT SV STUDY by Xia, Li Charlie, Farrell, John, Zhang, Nancy, Salerno, William, Malamon, John, Murali, Shwetha C, Wang, Weixin, Wang, Li-San, Farrer, Lindsay A, Worley, Kim C, Schellenberg, Gerard D

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23. Low-coverage whole genome sequencing revealed a deletion on chromosome 17p, carrying TP53, that suggests poor survival in stage III colorectal cancer by Van Hummelen, Paul, Xia, Li Charlie, Lee, HoJoon, Kubit, Matthew, Bouwens, Christina Wood, Shin, GiWon, Greer, Stephanie, Bell, John, Grimes, Sue, Lau, Billy, Johnson, Lucas, Andor, Noemi, Day, Kenneth, Miller, Mickey, Escobar, Helaman, Nadauld, Lincoln, Ji, Hanlee P.

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STRUCTURAL VARIATION (SV) IN HETEROGENOUS WHOLE-GENOME SEQUENCING DATA FROM 111 FAMILIES AT RISK FOR ALZHEIMER'S DISEASE: ALZHEIMER'S DISEASE SEQUENCING PROJECT SV STUDY by Xia, Li Charlie, Farrell, John, Zhang, Nancy, Salerno, William, Malamon, John, Murali, Shwetha C., Wang, Weixin, Wang, Li-San, Farrer, Lindsay A., Worley, Kim C., Schellenberg, Gerard D.

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Developing statistical and algorithmic methods for shotgun metagenomics and time series analysis by Xia, Li Charlie

“…Recent developments in experimental molecular techniques, such as microarray, next generation sequencing technologies, have led molecular biology into a…”
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Efficient statistical significance approximation for local association analysis of high-throughput time series data by Xia, Li Charlie

“…Local association analysis, such as local similarity analysis and local shape analysis, of biological time series data helps elucidate the varying dynamics of…”
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A quantitative evaluation of health care system in US, China, and Sweden by Wang, Qixin, Li, Menghui, Zu, Hualong, Gao, Mingyi, Cao, Chenghua, Xia, Li Charlie

“…HealthMED 4 (2013) 1064-1074 This study is mainly aimed at evaluating the effectiveness of current health care systems of several representative countries and…”
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