‘SGoFicance Trace’: Assessing Significance in High Dimensional Testing Problems
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{"title"=>"'SGoFicance trace': Assessing significance in high dimensional testing problems", "type"=>"journal", "authors"=>[{"first_name"=>"Jacobo", "last_name"=>"de Uña-Alvarez", "scopus_author_id"=>"6603553828"}, {"first_name"=>"Antonio", "last_name"=>"Carvajal-Rodriguez", "scopus_author_id"=>"8850713200"}], "year"=>2010, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"78650831867", "issn"=>"19326203", "pmid"=>"21209966", "pui"=>"361034588", "doi"=>"10.1371/journal.pone.0015930", "scopus"=>"2-s2.0-78650831867"}, "id"=>"ba70a05f-b237-3f2b-a8f7-5dea219456aa", "abstract"=>"Recently, an exact binomial test called SGoF (Sequential Goodness-of-Fit) has been introduced as a new method for handling high dimensional testing problems. SGoF looks for statistical significance when comparing the amount of null hypotheses individually rejected at level γ = 0.05 with the expected amount under the intersection null, and then proceeds to declare a number of effects accordingly. SGoF detects an increasing proportion of true effects with the number of tests, unlike other methods for which the opposite is true. It is worth mentioning that the choice γ = 0.05 is not essential to the SGoF procedure, and more power may be reached at other values of γ depending on the situation. In this paper we enhance the possibilities of SGoF by letting the γ vary on the whole interval (0,1). In this way, we introduce the 'SGoFicance Trace' (from SGoF's significance trace), a graphical complement to SGoF which can help to make decisions in multiple-testing problems. A script has been written for the computation in R of the SGoFicance Trace. This script is available from the web site http://webs.uvigo.es/acraaj/SGoFicance.htm.", "link"=>"http://www.mendeley.com/research/sgoficance-trace-assessing-significance-high-dimensional-testing-problems", "reader_count"=>11, "reader_count_by_academic_status"=>{"Researcher"=>2, "Student > Ph. D. Student"=>4, "Student > Master"=>3, "Lecturer > Senior Lecturer"=>1, "Professor"=>1}, "reader_count_by_user_role"=>{"Researcher"=>2, "Student > Ph. D. Student"=>4, "Student > Master"=>3, "Lecturer > Senior Lecturer"=>1, "Professor"=>1}, "reader_count_by_subject_area"=>{"Mathematics"=>1, "Agricultural and Biological Sciences"=>10}, "reader_count_by_subdiscipline"=>{"Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>10}, "Mathematics"=>{"Mathematics"=>1}}, "reader_count_by_country"=>{"United Kingdom"=>1}, "group_count"=>1}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/809300"], "description"=>"<p>The dashed lines correspond to the BH method at nominal FDR of 0.05. The number of hypotheses is 1,000 and there is an effect of 10%. Averages were computed through 1,000 Monte Carlo trials.</p>", "links"=>[], "tags"=>["fdr", "sgof"], "article_id"=>479672, "categories"=>["Mathematics", "Biological Sciences"], "users"=>["Jacobo de Uña-Alvarez", "Antonio Carvajal-Rodriguez"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015930.g001", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Power_left_and_FDR_right_of_SGoF_depending_of_947_/479672", "title"=>"Power (left) and FDR (right) of SGoF depending of γ.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 21:32:54"}
  • {"files"=>["https://ndownloader.figshare.com/files/809427"], "description"=>"<p>(A): SGoF's log-significance plot; (B): SGoF's number of effects; (C): SGoF's FDR; (D): SGoF's threshold for <i>p</i>-values. The number of hypotheses is 1,000 and there is an effect of 10%. The proportion of true nulls was taken as its true value (0.9) for the computation of FDR's.</p>", "links"=>[], "tags"=>["fwer", "monte", "carlo", "simulation"], "article_id"=>479798, "categories"=>["Mathematics", "Biological Sciences"], "users"=>["Jacobo de Uña-Alvarez", "Antonio Carvajal-Rodriguez"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015930.g002", "stats"=>{"downloads"=>0, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_SGoFicance_Trace_at_FWER_5_for_the_Monte_Carlo_trial_101_in_the_simulation_study_/479798", "title"=>"SGoFicance Trace at FWER 5% for the Monte Carlo trial #101 in the simulation study.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 21:33:37"}
  • {"files"=>["https://ndownloader.figshare.com/files/809577"], "description"=>"<p>(A): SGoF's log-significance plot; (B): SGoF's number of effects; (C): SGoF's FDR; (D): SGoF's threshold for <i>p</i>-values. The proportion of true nulls for the computation of the FDRs was estimated according to Dalmasso et al. <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0015930#pone.0015930-Dalmasso1\" target=\"_blank\">[6]</a>, case <i>n</i> = 1.</p>", "links"=>[], "tags"=>["fwer", "genes", "hedenfalk", "et"], "article_id"=>479942, "categories"=>["Mathematics", "Biological Sciences"], "users"=>["Jacobo de Uña-Alvarez", "Antonio Carvajal-Rodriguez"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015930.g003", "stats"=>{"downloads"=>1, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_SGoFicance_Trace_at_FWER_5_for_the_3_170_genes_of_Hedenfalk_et_al_2001_/479942", "title"=>"SGoFicance Trace at FWER 5% for the 3,170 genes of Hedenfalk et al. (2001).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 21:34:23"}
  • {"files"=>["https://ndownloader.figshare.com/files/809713"], "description"=>"<p>The number of hypotheses is 1,000 and the proportion of non-true nulls is 10% or 30%. Strong (<i>w</i> = 2), intermediate (<i>w</i> = 1.5) and weak (<i>w</i> = 1) effects are considered. BH method at FDR of 5% is included. Averages were computed through 1,000 Monte Carlo trials.</p>", "links"=>[], "tags"=>["fdr", "sgof"], "article_id"=>480086, "categories"=>["Mathematics", "Biological Sciences"], "users"=>["Jacobo de Uña-Alvarez", "Antonio Carvajal-Rodriguez"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015930.t001", "stats"=>{"downloads"=>3, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Average_power_and_FDR_of_SGoF_945_8202_8202_0_05_depending_on_947_/480086", "title"=>"Average power and FDR of SGoF (α = 0.05) depending on γ.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-20 21:35:09"}

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