G-Cimp Status Prediction Of Glioblastoma Samples Using mRNA Expression Data
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{"title"=>"G-Cimp Status Prediction Of Glioblastoma Samples Using mRNA Expression Data", "type"=>"journal", "authors"=>[{"first_name"=>"Mehmet", "last_name"=>"Baysan"}, {"first_name"=>"Serdar", "last_name"=>"Bozdag"}, {"first_name"=>"Margaret C.", "last_name"=>"Cam"}, {"first_name"=>"Svetlana", "last_name"=>"Kotliarova"}, {"first_name"=>"Susie", "last_name"=>"Ahn"}, {"first_name"=>"Jennifer", "last_name"=>"Walling"}, {"first_name"=>"Jonathan K.", "last_name"=>"Killian"}, {"first_name"=>"Holly", "last_name"=>"Stevenson"}, {"first_name"=>"Paul", "last_name"=>"Meltzer"}, {"first_name"=>"Howard A.", "last_name"=>"Fine"}], "year"=>2012, "source"=>"PLoS ONE", "identifiers"=>{"pui"=>"366400022", "sgr"=>"84876435048", "pmid"=>"23139755", "scopus"=>"2-s2.0-84876435048", "isbn"=>"2122639210", "doi"=>"10.1371/journal.pone.0047839", "issn"=>"1932-6203"}, "id"=>"e98d50e9-a1b2-3bc7-8f5c-cbf83f187f27", "abstract"=>"Glioblastoma Multiforme (GBM) is a tumor with high mortality and no known cure. The dramatic molecular and clinical heterogeneity seen in this tumor has led to attempts to define genetically similar subgroups of GBM with the hope of developing tumor specific therapies targeted to the unique biology within each of these subgroups. Recently, a subset of relatively favorable prognosis GBMs has been identified. These glioma CpG island methylator phenotype, or G-CIMP tumors, have distinct genomic copy number aberrations, DNA methylation patterns, and (mRNA) expression profiles compared to other GBMs. While the standard method for identifying G-CIMP tumors is based on genome-wide DNA methylation data, such data is often not available compared to the more widely available gene expression data. In this study, we have developed and evaluated a method to predict the G-CIMP status of GBM samples based solely on gene expression data.", "link"=>"http://www.mendeley.com/research/gcimp-status-prediction-glioblastoma-samples-using-mrna-expression-data", "reader_count"=>38, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Professor > Associate Professor"=>1, "Researcher"=>11, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>9, "Student > Postgraduate"=>2, "Student > Master"=>5, "Other"=>3, "Student > Bachelor"=>1, "Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Professor > Associate Professor"=>1, "Researcher"=>11, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>9, "Student > Postgraduate"=>2, "Student > Master"=>5, "Other"=>3, "Student > Bachelor"=>1, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>2, "Biochemistry, Genetics and Molecular Biology"=>6, "Medicine and Dentistry"=>14, "Agricultural and Biological Sciences"=>11, "Neuroscience"=>1, "Computer Science"=>4}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>14}, "Neuroscience"=>{"Neuroscience"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>11}, "Computer Science"=>{"Computer Science"=>4}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>6}, "Unspecified"=>{"Unspecified"=>2}}, "reader_count_by_country"=>{"United States"=>1, "Japan"=>1, "Brazil"=>2}, "group_count"=>2}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/292502", "https://ndownloader.figshare.com/files/292517", "https://ndownloader.figshare.com/files/292524", "https://ndownloader.figshare.com/files/292540", "https://ndownloader.figshare.com/files/292555", "https://ndownloader.figshare.com/files/292567", "https://ndownloader.figshare.com/files/292596", "https://ndownloader.figshare.com/files/292626", "https://ndownloader.figshare.com/files/292653", "https://ndownloader.figshare.com/files/292664", "https://ndownloader.figshare.com/files/292676", "https://ndownloader.figshare.com/files/292684", "https://ndownloader.figshare.com/files/292693", "https://ndownloader.figshare.com/files/292700", "https://ndownloader.figshare.com/files/292710", "https://ndownloader.figshare.com/files/292722"], "description"=>"<div><p>Glioblastoma Multiforme (GBM) is a tumor with high mortality and no known cure. The dramatic molecular and clinical heterogeneity seen in this tumor has led to attempts to define genetically similar subgroups of GBM with the hope of developing tumor specific therapies targeted to the unique biology within each of these subgroups. Recently, a subset of relatively favorable prognosis GBMs has been identified. These glioma CpG island methylator phenotype, or G-CIMP tumors, have distinct genomic copy number aberrations, DNA methylation patterns, and (mRNA) expression profiles compared to other GBMs. While the standard method for identifying G-CIMP tumors is based on genome-wide DNA methylation data, such data is often not available compared to the more widely available gene expression data. In this study, we have developed and evaluated a method to predict the G-CIMP status of GBM samples based solely on gene expression data.</p> </div>", "links"=>[], "tags"=>["g-cimp", "glioblastoma", "samples", "mrna", "data"], "article_id"=>117573, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0047839.s001", "https://dx.doi.org/10.1371/journal.pone.0047839.s002", "https://dx.doi.org/10.1371/journal.pone.0047839.s003", "https://dx.doi.org/10.1371/journal.pone.0047839.s004", "https://dx.doi.org/10.1371/journal.pone.0047839.s005", "https://dx.doi.org/10.1371/journal.pone.0047839.s006", "https://dx.doi.org/10.1371/journal.pone.0047839.s007", "https://dx.doi.org/10.1371/journal.pone.0047839.s008", "https://dx.doi.org/10.1371/journal.pone.0047839.s009", "https://dx.doi.org/10.1371/journal.pone.0047839.s010", "https://dx.doi.org/10.1371/journal.pone.0047839.s011", "https://dx.doi.org/10.1371/journal.pone.0047839.s012", "https://dx.doi.org/10.1371/journal.pone.0047839.s013", "https://dx.doi.org/10.1371/journal.pone.0047839.s014", "https://dx.doi.org/10.1371/journal.pone.0047839.s015", "https://dx.doi.org/10.1371/journal.pone.0047839.s016"], "stats"=>{"downloads"=>86, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/G_Cimp_Status_Prediction_Of_Glioblastoma_Samples_Using_mRNA_Expression_Data__/117573", "title"=>"G-Cimp Status Prediction Of Glioblastoma Samples Using mRNA Expression Data", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2012-11-06 02:06:13"}
  • {"files"=>["https://ndownloader.figshare.com/files/548222"], "description"=>"<p>As expected, normal brain samples are clustered together, and TCGA and NOB samples are not separated. We used high variation 1482 probe sets (std. dev. >1) in combined data set.</p>", "links"=>[], "tags"=>["TCGA", "nob", "samples", "batch"], "article_id"=>218696, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0047839.g002", "stats"=>{"downloads"=>1, "page_views"=>39, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_PCA_plot_of_TCGA_and_NOB_samples_after_batch_effect_removal_/218696", "title"=>"PCA plot of TCGA and NOB samples after batch effect removal.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-11-06 02:24:56"}
  • {"files"=>["https://ndownloader.figshare.com/files/548727"], "description"=>"<p>This data set includes 394 samples and 1438 methylation sites.</p>", "links"=>[], "tags"=>["TCGA", "nob", "samples", "methylation"], "article_id"=>219212, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0047839.g006", "stats"=>{"downloads"=>1, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_PCA_plot_of_TCGA_and_NOB_samples_in_combined_methylation_data_set_/219212", "title"=>"PCA plot of TCGA and NOB samples in combined methylation data set.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-11-06 02:33:32"}
  • {"files"=>["https://ndownloader.figshare.com/files/548435"], "description"=>"<p>Limits of box and whiskers plot are 10%, 25%, 50%, 75% and 90%.</p>", "links"=>[], "tags"=>["nob", "TCGA", "g-cimp"], "article_id"=>218920, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0047839.g004", "stats"=>{"downloads"=>2, "page_views"=>35, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Box_Whisker_plot_of_age_of_NOB_and_TCGA_G_CIMP_positive_and_G_CIMP_negative_samples_/218920", "title"=>"Box-Whisker plot of age of NOB and TCGA G-CIMP positive and G-CIMP negative samples.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-11-06 02:28:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/548862"], "description"=>"<p>Samples are labeled by histopathology check results.</p>", "links"=>[], "tags"=>["TCGA", "nob", "samples", "methylation"], "article_id"=>219348, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0047839.g007", "stats"=>{"downloads"=>4, "page_views"=>17, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_PCA_plot_of_TCGA_and_NOB_samples_in_combined_methylation_data_set_/219348", "title"=>"PCA plot of TCGA and NOB samples in combined methylation data set.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-11-06 02:35:48"}
  • {"files"=>["https://ndownloader.figshare.com/files/548963"], "description"=>"<p>Comparison of TCGA G-CIMP labels and our G-CIMP calls.</p>", "links"=>[], "tags"=>["TCGA", "g-cimp", "labels"], "article_id"=>219445, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0047839.t001", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_TCGA_G_CIMP_labels_and_our_G_CIMP_calls_/219445", "title"=>"Comparison of TCGA G-CIMP labels and our G-CIMP calls.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2012-11-06 02:37:25"}
  • {"files"=>["https://ndownloader.figshare.com/files/548037"], "description"=>"<p>1509 methylation sites (std. dev. >0.2) have been shown.</p>", "links"=>[], "tags"=>["TCGA", "samples", "methylation", "g-cimp"], "article_id"=>218522, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0047839.g001", "stats"=>{"downloads"=>1, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_PCA_plot_for_TCGA_samples_based_on_methylation_data_Blue_G_CIMP_positive_red_G_CIMP_negative_samples_/218522", "title"=>"PCA plot for TCGA samples based on methylation data (Blue: G-CIMP positive, red: G-CIMP negative samples).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-11-06 02:22:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/548331"], "description"=>"<p>Data processing flowchart for predicting G-CIMP calls of NOB samples from TCGA gene expression data.</p>", "links"=>[], "tags"=>["flowchart", "predicting", "g-cimp", "calls", "nob", "samples", "TCGA"], "article_id"=>218812, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0047839.g003", "stats"=>{"downloads"=>10, "page_views"=>71, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Data_processing_flowchart_for_predicting_G_CIMP_calls_of_NOB_samples_from_TCGA_gene_expression_data_/218812", "title"=>"Data processing flowchart for predicting G-CIMP calls of NOB samples from TCGA gene expression data.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-11-06 02:26:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/548580"], "description"=>"<p>Kaplan-Meier survival plot for NOB G-CIMP+ (n = 7), NOB G-CIMP− (n = 123), TCGA G-CIMP+ (n = 30) and TCGA G-CIMP− (n = 361) samples.</p>", "links"=>[], "tags"=>["nob", "TCGA"], "article_id"=>219069, "categories"=>["Cancer", "Biological Sciences", "Genetics", "Biotechnology"], "users"=>["Mehmet Baysan", "Serdar Bozdag", "Margaret C. Cam", "Svetlana Kotliarova", "Susie Ahn", "Jennifer Walling", "Jonathan K. Killian", "Holly Stevenson", "Paul Meltzer", "Howard A. Fine"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0047839.g005", "stats"=>{"downloads"=>1, "page_views"=>41, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Kaplan_Meier_survival_plot_for_NOB_G_CIMP_n_8202_8202_7_NOB_G_CIMP_8722_n_8202_8202_123_TCGA_G_CIMP_n_8202_8202_30_and_TCGA_G_CIMP_8722_n_8202_8202_361_samples_/219069", "title"=>"Kaplan-Meier survival plot for NOB G-CIMP+ (n = 7), NOB G-CIMP− (n = 123), TCGA G-CIMP+ (n = 30) and TCGA G-CIMP− (n = 361) samples.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-11-06 02:31:09"}

PMC Usage Stats | Further Information

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Relative Metric

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