Genome-Wide Association Study of Young-Onset Hypertension in the Han Chinese Population of Taiwan
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{"title"=>"Genome-wide association study of young-onset hypertension in the Han Chinese population of Taiwan", "type"=>"journal", "authors"=>[{"first_name"=>"Hsin Chou", "last_name"=>"Yang", "scopus_author_id"=>"49762407800"}, {"first_name"=>"Yu Jen", "last_name"=>"Liang", "scopus_author_id"=>"36071186900"}, {"first_name"=>"Yi Lin", "last_name"=>"Wu", "scopus_author_id"=>"56093263500"}, {"first_name"=>"Chia Min", "last_name"=>"Chung", "scopus_author_id"=>"22950004900"}, {"first_name"=>"Kuang Mao", "last_name"=>"Chiang", "scopus_author_id"=>"26535699000"}, {"first_name"=>"Hung Yun", "last_name"=>"Ho", "scopus_author_id"=>"26649875400"}, {"first_name"=>"Chih Tai", "last_name"=>"Ting", "scopus_author_id"=>"7202187141"}, {"first_name"=>"Tsung Hsien", "last_name"=>"Lin", "scopus_author_id"=>"34868210000"}, {"first_name"=>"Sheng Hsiung", "last_name"=>"Sheu", "scopus_author_id"=>"7202895031"}, {"first_name"=>"Wei Chuan", "last_name"=>"Tsai", "scopus_author_id"=>"56506212500"}, {"first_name"=>"Jyh Hong", "last_name"=>"Chen", "scopus_author_id"=>"56062627000"}, {"first_name"=>"Hsin Bang", "last_name"=>"Leu", "scopus_author_id"=>"13408577100"}, {"first_name"=>"Wei Hsian", "last_name"=>"Yin", "scopus_author_id"=>"7202298884"}, {"first_name"=>"Ting Yu", "last_name"=>"Chiu", "scopus_author_id"=>"36730424900"}, {"first_name"=>"Chin Luan", "last_name"=>"Chen", "scopus_author_id"=>"56075936400"}, {"first_name"=>"Cathy S.J.", "last_name"=>"Fann", "scopus_author_id"=>"7003548346"}, {"first_name"=>"Jer Yuarn", "last_name"=>"Wu", "scopus_author_id"=>"7409255678"}, {"first_name"=>"Teng Nan", "last_name"=>"Lin", "scopus_author_id"=>"7404861757"}, {"first_name"=>"Shing Jong", "last_name"=>"Lin", "scopus_author_id"=>"7407605154"}, {"first_name"=>"Yuan Tsong", "last_name"=>"Chen", "scopus_author_id"=>"56496251400"}, {"first_name"=>"Jaw Wen", "last_name"=>"Chen", "scopus_author_id"=>"35267970100"}, {"first_name"=>"Wen Harn", "last_name"=>"Pan", "scopus_author_id"=>"7402219783"}], "year"=>2009, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"65549171064", "doi"=>"10.1371/journal.pone.0005459", "pui"=>"354579455", "issn"=>"19326203", "pmid"=>"19421330", "isbn"=>"5210239381", "scopus"=>"2-s2.0-65549171064"}, "id"=>"5d5a093c-ea39-3985-bb7b-c6f714b92346", "abstract"=>"Young-onset hypertension has a stronger genetic component than late-onset counterpart; thus, the identification of genes related to its susceptibility is a critical issue for the prevention and management of this disease. We carried out a two-stage association scan to map young-onset hypertension susceptibility genes. The first-stage analysis, a genome-wide association study, analyzed 175 matched case-control pairs; the second-stage analysis, a confirmatory association study, verified the results at the first stage based on a total of 1,008 patients and 1,008 controls. Single-locus association tests, multilocus association tests and pair-wise gene-gene interaction tests were performed to identify young-onset hypertension susceptibility genes. After considering stringent adjustments of multiple testing, gene annotation and single-nucleotide polymorphism (SNP) quality, four SNPs from two SNP triplets with strong association signals (-log(10)(p)>7) and 13 SNPs from 8 interactive SNP pairs with strong interactive signals (-log(10)(p)>8) were carefully re-examined. The confirmatory study verified the association for a SNP quartet 219 kb and 495 kb downstream of LOC344371 (a hypothetical gene) and RASGRP3 on chromosome 2p22.3, respectively. The latter has been implicated in the abnormal vascular responsiveness to endothelin-1 and angiotensin II in diabetic-hypertensive rats. Intrinsic synergy involving IMPG1 on chromosome 6q14.2-q15 was also verified. IMPG1 encodes interphotoreceptor matrix proteoglycan 1 which has cation binding capacity. The genes are novel hypertension targets identified in this first genome-wide hypertension association study of the Han Chinese population.", "link"=>"http://www.mendeley.com/research/genomewide-association-study-youngonset-hypertension-han-chinese-population-taiwan", "reader_count"=>31, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>5, "Student > Doctoral Student"=>1, "Student > Ph. D. Student"=>10, "Student > Postgraduate"=>4, "Student > Master"=>2, "Student > Bachelor"=>3, "Lecturer > Senior Lecturer"=>1, "Professor"=>3}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>5, "Student > Doctoral Student"=>1, "Student > Ph. D. Student"=>10, "Student > Postgraduate"=>4, "Student > Master"=>2, "Student > Bachelor"=>3, "Lecturer > Senior Lecturer"=>1, "Professor"=>3}, "reader_count_by_subject_area"=>{"Unspecified"=>4, "Biochemistry, Genetics and Molecular Biology"=>2, "Medicine and Dentistry"=>7, "Agricultural and Biological Sciences"=>15, "Business, Management and Accounting"=>1, "Psychology"=>1, "Immunology and Microbiology"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>7}, "Psychology"=>{"Psychology"=>1}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>15}, "Business, Management and Accounting"=>{"Business, Management and Accounting"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>4}}, "group_count"=>1}

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Scopus | Further Information

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  • {"files"=>["https://ndownloader.figshare.com/files/899405"], "description"=>"<p>For each SNP pair, chromosome (CHR), RS number (RS), nucleotide types (NT) and gene information (GI) are shown. Based on combined samples or independent samples in CMAS, the interactive effect was examined using a ULR-NOMINAL analysis [model: logit{Prob(Y = YOH|I<sub>11</sub>, I<sub>12</sub>,I<sub>21</sub>,I<sub>22</sub>,I<sub>11</sub>×I<sub>21</sub>,I<sub>11</sub>×I<sub>22</sub>,I<sub>12</sub>×I<sub>21</sub>,I<sub>12</sub>×I<sub>22</sub>,I<sub>Gender</sub>,Z<sub>Age</sub>)} = a<sub>0</sub>+a<sub>11</sub>×I<sub>11</sub>+a<sub>12</sub>×I<sub>12</sub>+a<sub>21</sub>×I<sub>21</sub>+a<sub>22</sub>×I<sub>22</sub>+b<sub>1</sub>×I<sub>11</sub>×I<sub>21</sub>+b<sub>2</sub>×I<sub>11</sub>×I<sub>22</sub>+b<sub>3</sub>×I<sub>12</sub>×I<sub>21</sub>+b<sub>4</sub>×I<sub>12</sub>×I<sub>22</sub>+c×I<sub>Gender</sub>+d×Z<sub>Age</sub>] or a ULR-ORDINAL analysis [model: logit{Prob(Y = YOH|X<sub>1</sub>,X<sub>2</sub>,X<sub>1</sub>×X<sub>2</sub>,I<sub>Gender</sub>,Z<sub>Age</sub>))} = a<sub>0</sub>+a<sub>1</sub>×X<sub>1</sub>+a2×X<sub>2</sub>+a<sub>3</sub>×X<sub>1</sub>×X<sub>2</sub>+c×I<sub>Gender</sub>+d×Z<sub>Age</sub>], where Y is YOH status, I<sub>ij</sub> is an indicator of the three genotypes (j = 1, 2) of SNP i (i = 1, 2), I<sub>Gender</sub> is an indicator of gender, Z<sub>Age</sub> is a covariate for age, and X<sub>i</sub> denotes the number of reference alleles of SNP i (i = 1, 2). The exact p values (in −log<sub>10</sub> scale) for the combined and independent samples are shown.</p>", "links"=>[], "tags"=>["computer science/applications", "genetics and genomics/complex traits", "cardiovascular disorders/hypertension", "public health and epidemiology/epidemiology"], "article_id"=>569837, "categories"=>["Genetics", "Computational Biology", "Neuroscience", "Cancer"], "users"=>["Hsin-Chou Yang", "Yu-Jen Liang", "Yi-Lin Wu", "Chia-Min Chung", "Kuang-Mao Chiang", "Hung-Yun Ho", "Chih-Tai Ting", "Tsung-Hsien Lin", "Sheng-Hsiung Sheu", "Wei-Chuan Tsai", "Jyh-Hong Chen", "Hsin-Bang Leu", "Wei-Hsian Yin", "Ting-Yu Chiu", "Chin-Iuan Chen", "Cathy S. J. Fann", "Jer-Yuarn Wu", "Teng-Nan Lin", "Shing-Jong Lin", "Yuan-Tsong Chen", "Jaw-Wen Chen", "Wen-Harn Pan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0005459.t006", "stats"=>{"downloads"=>0, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Confirmatory_interaction_analysis_/569837", "title"=>"Confirmatory interaction analysis.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-05-07 02:43:57"}
  • {"files"=>["https://ndownloader.figshare.com/files/899448"], "description"=>"<p>SNP pairs, triplets and quartets that were identified by the p-value combination method in GWAS were verified in CMAS. Truncated product p-value statistics were calculated by combing single p values from the previous single-locus ULR-NOMINAL analysis or ULR-ORDINAL analysis in CMAS. The exact p values (in −log<sub>10</sub> scale) for the combined and independent samples are shown.</p>", "links"=>[], "tags"=>["p-value"], "article_id"=>569883, "categories"=>["Genetics", "Computational Biology", "Neuroscience", "Cancer"], "users"=>["Hsin-Chou Yang", "Yu-Jen Liang", "Yi-Lin Wu", "Chia-Min Chung", "Kuang-Mao Chiang", "Hung-Yun Ho", "Chih-Tai Ting", "Tsung-Hsien Lin", "Sheng-Hsiung Sheu", "Wei-Chuan Tsai", "Jyh-Hong Chen", "Hsin-Bang Leu", "Wei-Hsian Yin", "Ting-Yu Chiu", "Chin-Iuan Chen", "Cathy S. J. Fann", "Jer-Yuarn Wu", "Teng-Nan Lin", "Shing-Jong Lin", "Yuan-Tsong Chen", "Jaw-Wen Chen", "Wen-Harn Pan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0005459.t005", "stats"=>{"downloads"=>8, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Confirmatory_p_value_combination_analysis_/569883", "title"=>"Confirmatory p-value combination analysis.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-05-07 02:44:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/899588"], "description"=>"<p>For each SNP, the method used (M), chromosome (CHR), RS number (RS), nucleotide types (NT) and gene information (GI) are shown. The results for combined samples and independent samples are shown as follows: (1) genotyping call rate (GCR(%)), (2) minor allele and minor allele frequency (MA:MAF), (3) p values of the exact HWE test (HWE), (4) exact p value of the ULR-NOMINAL analysis [model: logit{Prob(Y = YOH|I<sub>11</sub>,I<sub>12</sub>,I<sub>Gender</sub>,Z<sub>Age</sub>} = a<sub>0</sub>+a<sub>11</sub>×I<sub>11</sub>+a<sub>12</sub>×I<sub>12</sub>+a<sub>2</sub>×I<sub>Gender</sub>+a<sub>3</sub>×Z<sub>Age</sub>] and (5) exact p value of the ULR-ORDINAL analysis [model: logit{Prob(Y = YOH|X,I<sub>Gender</sub>,Z<sub>Age</sub>)} = a<sub>0</sub>+a<sub>1</sub>×X+a<sub>2</sub>×I<sub>Gender</sub>+a<sub>3</sub>×Z<sub>Age</sub>], where Y is YOH status, I<sub>1j</sub> is an indicator of the three genotypes (j = 1, 2) of a SNP, I<sub>Gender</sub> is an indicator of gender, Z<sub>Age</sub> is a covariate for age, and X is a variable for the number of reference alleles.</p>", "links"=>[], "tags"=>["snps", "GWAS", "re-examined"], "article_id"=>570028, "categories"=>["Genetics", "Computational Biology", "Neuroscience", "Cancer"], "users"=>["Hsin-Chou Yang", "Yu-Jen Liang", "Yi-Lin Wu", "Chia-Min Chung", "Kuang-Mao Chiang", "Hung-Yun Ho", "Chih-Tai Ting", "Tsung-Hsien Lin", "Sheng-Hsiung Sheu", "Wei-Chuan Tsai", "Jyh-Hong Chen", "Hsin-Bang Leu", "Wei-Hsian Yin", "Ting-Yu Chiu", "Chin-Iuan Chen", "Cathy S. J. Fann", "Jer-Yuarn Wu", "Teng-Nan Lin", "Shing-Jong Lin", "Yuan-Tsong Chen", "Jaw-Wen Chen", "Wen-Harn Pan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0005459.t003", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_list_of_SNPs_initially_identified_by_GWAS_and_re_examined_in_CMAS_/570028", "title"=>"A list of SNPs initially identified by GWAS and re-examined in CMAS.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-05-07 00:00:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/899264"], "description"=>"<p>The <i>y</i> axis denotes −log<sub>10</sub>(pFDR), and the <i>x</i> axis denotes cumulative physical positions on autosomes. The red reference line signifies −log<sub>10</sub>(pFDR) = 3. (A) Results of p-value combination tests based on p-values from a CLR-NOMINAL analysis; (B) Results of p-value combination tests based on p-values from a CLR-ORDINAL analysis.</p>", "links"=>[], "tags"=>["genome-wide", "p-value", "clr-nominal", "clr-ordinal"], "article_id"=>569685, "categories"=>["Genetics", "Computational Biology", "Neuroscience", "Cancer"], "users"=>["Hsin-Chou Yang", "Yu-Jen Liang", "Yi-Lin Wu", "Chia-Min Chung", "Kuang-Mao Chiang", "Hung-Yun Ho", "Chih-Tai Ting", "Tsung-Hsien Lin", "Sheng-Hsiung Sheu", "Wei-Chuan Tsai", "Jyh-Hong Chen", "Hsin-Bang Leu", "Wei-Hsian Yin", "Ting-Yu Chiu", "Chin-Iuan Chen", "Cathy S. J. Fann", "Jer-Yuarn Wu", "Teng-Nan Lin", "Shing-Jong Lin", "Yuan-Tsong Chen", "Jaw-Wen Chen", "Wen-Harn Pan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0005459.g001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Results_of_genome_wide_p_value_combination_analysis_using_p_values_from_CLR_NOMINAL_or_CLR_ORDINAL_analyses_/569685", "title"=>"Results of genome-wide p-value combination analysis using p values from CLR-NOMINAL or CLR-ORDINAL analyses.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-05-07 02:41:25"}
  • {"files"=>["https://ndownloader.figshare.com/files/445005", "https://ndownloader.figshare.com/files/445042", "https://ndownloader.figshare.com/files/445070"], "description"=>"<div><p>Young-onset hypertension has a stronger genetic component than late-onset counterpart; thus, the identification of genes related to its susceptibility is a critical issue for the prevention and management of this disease. We carried out a two-stage association scan to map young-onset hypertension susceptibility genes. The first-stage analysis, a genome-wide association study, analyzed 175 matched case-control pairs; the second-stage analysis, a confirmatory association study, verified the results at the first stage based on a total of 1,008 patients and 1,008 controls. Single-locus association tests, multilocus association tests and pair-wise gene-gene interaction tests were performed to identify young-onset hypertension susceptibility genes. After considering stringent adjustments of multiple testing, gene annotation and single-nucleotide polymorphism (SNP) quality, four SNPs from two SNP triplets with strong association signals (−log<sub>10</sub>(p)>7) and 13 SNPs from 8 interactive SNP pairs with strong interactive signals (−log<sub>10</sub>(p)>8) were carefully re-examined. The confirmatory study verified the association for a SNP quartet 219 kb and 495 kb downstream of <em>LOC344371</em> (a hypothetical gene) and <em>RASGRP3</em> on chromosome 2p22.3, respectively. The latter has been implicated in the abnormal vascular responsiveness to endothelin-1 and angiotensin II in diabetic-hypertensive rats. Intrinsic synergy involving <em>IMPG1</em> on chromosome 6q14.2-q15 was also verified. <em>IMPG1</em> encodes interphotoreceptor matrix proteoglycan 1 which has cation binding capacity. The genes are novel hypertension targets identified in this first genome-wide hypertension association study of the Han Chinese population.</p></div>", "links"=>[], "tags"=>["genome-wide", "young-onset", "hypertension", "han", "chinese", "taiwan"], "article_id"=>147696, "categories"=>["Genetics", "Biological Sciences", "Neuroscience", "Cancer"], "users"=>["Hsin-Chou Yang", "Yu-Jen Liang", "Yi-Lin Wu", "Chia-Min Chung", "Kuang-Mao Chiang", "Hung-Yun Ho", "Chih-Tai Ting", "Tsung-Hsien Lin", "Sheng-Hsiung Sheu", "Wei-Chuan Tsai", "Jyh-Hong Chen", "Hsin-Bang Leu", "Wei-Hsian Yin", "Ting-Yu Chiu", "Chin-Iuan Chen", "Cathy S. J. Fann", "Jer-Yuarn Wu", "Teng-Nan Lin", "Shing-Jong Lin", "Yuan-Tsong Chen", "Jaw-Wen Chen", "Wen-Harn Pan"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0005459.s001", "https://dx.doi.org/10.1371/journal.pone.0005459.s002", "https://dx.doi.org/10.1371/journal.pone.0005459.s003"], "stats"=>{"downloads"=>0, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Genome_Wide_Association_Study_of_Young_Onset_Hypertension_in_the_Han_Chinese_Population_of_Taiwan/147696", "title"=>"Genome-Wide Association Study of Young-Onset Hypertension in the Han Chinese Population of Taiwan", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2009-05-07 02:08:16"}
  • {"files"=>["https://ndownloader.figshare.com/files/899521"], "description"=>"<p>For each SNP, the method used (M), chromosome (CHR), RS number (RS), nucleotide types (NT) and gene information (GI) are shown. Two genotypic odds, OR<sub>1</sub> and OR<sub>2</sub>, from the ULR-NOMINAL analysis [model: logit{Prob(Y = YOH|I<sub>11</sub>,I<sub>12</sub>,I<sub>Gender</sub>,Z<sub>Age</sub>)} = a<sub>0</sub>+a<sub>11</sub>×I<sub>11</sub>+a<sub>12</sub>×I<sub>12</sub>+a<sub>2</sub>×I<sub>Gender</sub>+a<sub>3</sub>×Z<sub>Age</sub>] and one allelic odds ratio, OR<sub>3</sub>, from the ULR-ORDINAL analysis [model: logit{Prob(Y = YOH|X,I<sub>Gender</sub>,Z<sub>Age</sub>)} = a<sub>0</sub>+a<sub>1</sub>×X+a<sub>2</sub>×I<sub>Gender</sub>+a<sub>3</sub>×Z<sub>Age</sub>] were calculated, where Y is YOH status, I<sub>1j</sub> is an indicator of the three genotypes (j = 1, 2) of a SNP, I<sub>Gender</sub> is an indicator of gender, Z<sub>Age</sub> is a covariate for age, and X is a variable for the number of reference alleles. The results for combined samples and independent samples are shown.</p>", "links"=>[], "tags"=>["ratios", "intervals", "snps", "p-value", "snp-snp"], "article_id"=>569949, "categories"=>["Genetics", "Computational Biology", "Neuroscience", "Cancer"], "users"=>["Hsin-Chou Yang", "Yu-Jen Liang", "Yi-Lin Wu", "Chia-Min Chung", "Kuang-Mao Chiang", "Hung-Yun Ho", "Chih-Tai Ting", "Tsung-Hsien Lin", "Sheng-Hsiung Sheu", "Wei-Chuan Tsai", "Jyh-Hong Chen", "Hsin-Bang Leu", "Wei-Hsian Yin", "Ting-Yu Chiu", "Chin-Iuan Chen", "Cathy S. J. Fann", "Jer-Yuarn Wu", "Teng-Nan Lin", "Shing-Jong Lin", "Yuan-Tsong Chen", "Jaw-Wen Chen", "Wen-Harn Pan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0005459.t004", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Odds_ratios_and_95_confidence_intervals_of_SNPs_identified_by_a_p_value_combination_method_and_a_SNP_SNP_interaction_analysis_in_GWAS_/569949", "title"=>"Odds ratios and 95% confidence intervals of SNPs identified by a p-value combination method and a SNP-SNP interaction analysis in GWAS.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-05-07 02:45:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/899707"], "description"=>"<p>The p-value combination analysis with a window size of 3 identified 20 triplets of SNPs in GWAS. Chromosome (CHR), RS number (RS), physical position (PP) and gene information (GI) of the anchor (central) marker of each SNP triplet are shown. The last four columns represent unadjusted p value (−log<sub>10</sub>(p)) and adjusted p value (−log<sub>10</sub>(pFDR)) of the p-value combination analysis based on single-locus p values from a CLR-NOMINAL analysis [model: logit{Prob(Y = YOH|I<sub>11</sub>,I<sub>12</sub>)} = a<sub>0</sub>+a<sub>11</sub>×I<sub>11</sub>+a<sub>12</sub>×I<sub>12</sub>] and a CLR-ORDINAL analysis [model: logit{Prob(Y = YOH|X)} = a<sub>0</sub>+a<sub>1</sub>×X], where Y is YOH status, I<sub>1j</sub> is an indicator of the three genotypes (j = 1, 2) of a SNP and X is a variable for the number of reference alleles. Anchor markers that had −log<sub>10</sub>(pFDR)>3 for both tests and were located in known or hypothetical gene regions are highlighted in bold font.</p>", "links"=>[], "tags"=>["anchor", "snps", "p-value"], "article_id"=>570139, "categories"=>["Genetics", "Computational Biology", "Neuroscience", "Cancer"], "users"=>["Hsin-Chou Yang", "Yu-Jen Liang", "Yi-Lin Wu", "Chia-Min Chung", "Kuang-Mao Chiang", "Hung-Yun Ho", "Chih-Tai Ting", "Tsung-Hsien Lin", "Sheng-Hsiung Sheu", "Wei-Chuan Tsai", "Jyh-Hong Chen", "Hsin-Bang Leu", "Wei-Hsian Yin", "Ting-Yu Chiu", "Chin-Iuan Chen", "Cathy S. J. Fann", "Jer-Yuarn Wu", "Teng-Nan Lin", "Shing-Jong Lin", "Yuan-Tsong Chen", "Jaw-Wen Chen", "Wen-Harn Pan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0005459.t001", "stats"=>{"downloads"=>3, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_list_of_anchor_SNPs_identified_by_the_p_value_combination_analysis_in_GWAS_/570139", "title"=>"A list of anchor SNPs identified by the p-value combination analysis in GWAS.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-05-07 00:02:19"}
  • {"files"=>["https://ndownloader.figshare.com/files/899648"], "description"=>"<p>Interactive SNP pairs are listed in their order of significance. For each SNP of an interactive pair, chromosome (CHR), RS number (RS), physical position (PP), gene information (GI), genotyping call rate (GCR(%)) and minor allele frequency (MAF) are shown. Finally, the −log<sub>10</sub>(p) value from three interaction tests is shown: (1) the difference test of odds ratio (ORT), (2) an interaction test of the CLR-NOMINAL analysis [model: logit{Prob(Y = YOH|I<sub>11</sub>,I<sub>12</sub>,I<sub>21</sub>,I<sub>22</sub>,I<sub>11</sub>×I<sub>21</sub>,I<sub>11</sub>×I<sub>22</sub>,I<sub>12</sub>×I<sub>21</sub>,I<sub>12</sub>×I<sub>22</sub>)} = a<sub>0</sub>+a<sub>11</sub>×I<sub>11</sub>+a<sub>12</sub>×I<sub>12</sub>+a<sub>21</sub>×I<sub>21</sub>+a<sub>22</sub>×I<sub>22</sub>+b<sub>1</sub>×I<sub>11</sub>×I<sub>21</sub>+b<sub>2</sub>×I<sub>11</sub>×I<sub>22</sub>+b<sub>3</sub>×I<sub>12</sub>×I<sub>21</sub>+b<sub>4</sub>×I<sub>12</sub>×I<sub>22</sub>] and (3) an interaction test of the CLR-ORDINAL analysis [model: logit{Prob(Y = YOH|X<sub>1</sub>, X<sub>2</sub>, X<sub>1</sub>×X<sub>2</sub>)} = a<sub>0</sub>+a<sub>1</sub>×X<sub>1</sub>+a<sub>2</sub>×X<sub>2</sub>+a<sub>3</sub>×X<sub>1</sub>×X<sub>2</sub>], where Y is YOH status, I<sub>ij</sub> is an indicator of the three genotypes (j = 1, 2) of SNP i (i = 1, 2) and X<sub>i</sub> denotes the number of reference alleles of SNP i (i = 1, 2).</p>", "links"=>[], "tags"=>["snp", "pairs", "snp-snp"], "article_id"=>570085, "categories"=>["Genetics", "Computational Biology", "Neuroscience", "Cancer"], "users"=>["Hsin-Chou Yang", "Yu-Jen Liang", "Yi-Lin Wu", "Chia-Min Chung", "Kuang-Mao Chiang", "Hung-Yun Ho", "Chih-Tai Ting", "Tsung-Hsien Lin", "Sheng-Hsiung Sheu", "Wei-Chuan Tsai", "Jyh-Hong Chen", "Hsin-Bang Leu", "Wei-Hsian Yin", "Ting-Yu Chiu", "Chin-Iuan Chen", "Cathy S. J. Fann", "Jer-Yuarn Wu", "Teng-Nan Lin", "Shing-Jong Lin", "Yuan-Tsong Chen", "Jaw-Wen Chen", "Wen-Harn Pan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0005459.t002", "stats"=>{"downloads"=>0, "page_views"=>1, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_list_of_SNP_pairs_identified_by_SNP_SNP_interaction_tests_in_GWAS_/570085", "title"=>"A list of SNP pairs identified by SNP-SNP interaction tests in GWAS.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-05-07 00:01:25"}

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Relative Metric

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