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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Chignon, Arnaud; Mathieu, Samuel; Rufiange, Anne; Argaud, D��borah; +5 Authors

    Additional file 2. Supplemental Table 2: DEPICT genetic association in pathways.

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    Authors: Mughal, Anisa Y.; Devadas, Jackson; Ardman, Eric; Levis, Brooke; +2 Authors

    Additional file 1. Appendix

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    Authors: Castellani, Christina A.; Longchamps, Ryan J.; Sumpter, Jason A.; Newcomb, Charles E.; +20 Authors

    Additional file 4: Table S3. A. Results for 34 independent ARIC Discovery Meta-Analysis identified mtDNA-CN associated CpGs across all studied cohorts and Validation Meta-Analysis/All Cohort Meta-Analysis. Validation meta-analysis included CHS AA, CHS EA and FHS EA cohorts (P

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    Authors: Yifeng Li; Wenqiang Shi; Wyeth Wasserman;

    Genome-wide predictions of cis-regulatory regions for all six cell types. (ZIP 20400 kb)

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    Authors: Patel, Zain M.; Hughes, Timothy R.;

    Additional file 3 : Table S2. Exact file IDs and links to all data obtained from ENCODE and Roadmap Epigenome.

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    Authors: Burke, John;

    Table S1A. All hydrogen deuterium exchange (HDX) peptide data for experiments examining the global exchange of PI4KIIIA, TTC7B, and FAM126A. The charge state (Z), residue start, residue end number, retention time (RT) and sequence are displayed for every peptide. In the Raw Data column, the two time points (0.3s and full) are labelled, and the relative level of HDX is coloured according to the amount of deuterium incorporated, on a blue to red continuum. The data listed for the 0.3s time point are the average of three independent experiments, with SD shown next to all HDX values. In the Normalized to Full Deuteration column, the 0.3s data has been normalised to the full deuteration measurements with the exception of those data (surrounded by black lines) where the full deuteration measurement was lower than 20% deuterium incorporation. The third column denotes the corresponding peptide centroid.Table S1B. All HDX peptide data for experiments examining the complex dynamics of PI4KIIIA, TTC7B, and FAM126A. The charge state (Z), residue start, residue end number, retention time (RT) and sequence are displayed for every peptide. The two columns represent each state examined (+/- PI4KIIIA) and contain the data for five time points. The data listed are the average of three independent experiments, with SD shown next to all HDX values. Table S1C. All HDX peptide data for experiments examining the dynamics of inhibitor specificity of PI4KIIIA, TTC7B, and FAM126A. The charge state (Z), residue start, residue end number, retention time (RT) and sequence are displayed for every peptide. The three columns represent each state examined (+/- inhibitor) and contain the data for four time points. The data listed are the average of three independent experiments, with SD shown next to all HDX values. THIS DATASET IS ARCHIVED AT DANS/EASY, BUT NOT ACCESSIBLE HERE. TO VIEW A LIST OF FILES AND ACCESS THE FILES IN THIS DATASET CLICK ON THE DOI-LINK ABOVE

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    Authors: Huang, Barbara; Boutros, Paul;

    AUC results for low p/n data. Low p/n results for prediction accuracy using AUC as the performance metric for non-cross-validation results, 10-fold cross-validation and stratified 10-fold cross-validation. Ranks indicate the relative performance of different models with lower ranks representing higher performing models i.e., a rank of 1 is the best model. The default settings (n tree = 500, m try = 3, sampsize = 720) are found on row 1502 of the table. (CSV 116 kb)

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    Authors: Novakovsky, Gherman; Saraswat, Manu; Fornes, Oriol; Mostafavi, Sara; +1 Authors

    Additional file 12: Table S1. Total number of ones, zeros and nulls in the sparse matrix for the 163 TFs used in this study.

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    Authors: Corkum, Christopher; Ings, Danielle; Burgess, Christopher; Karwowska, Sylwia; +2 Authors

    Comparison of gene expression of CD4+ T cells separated from PBMC isolated using CPT and Ficoll. A two-group comparison with permutation analysis for differential expression was performed, as described in Methods, on microarray data to identify differentially expressed genes between CD4+ T cells separated from CPT- and Ficoll-isolated PBMC. Probsets are ranked according to the FDR value. (CSV 26355 kb)

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    Authors: Yonghong Zhang; Petropoulos, Sophie; Jinhua Liu; Cheishvili, David; +5 Authors

    Differentially methylated sites between Stage 4 HCC and healthy controls. (CSV 3562 kb)

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    Authors: Chignon, Arnaud; Mathieu, Samuel; Rufiange, Anne; Argaud, D��borah; +5 Authors

    Additional file 2. Supplemental Table 2: DEPICT genetic association in pathways.

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    Authors: Mughal, Anisa Y.; Devadas, Jackson; Ardman, Eric; Levis, Brooke; +2 Authors

    Additional file 1. Appendix

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    Authors: Castellani, Christina A.; Longchamps, Ryan J.; Sumpter, Jason A.; Newcomb, Charles E.; +20 Authors

    Additional file 4: Table S3. A. Results for 34 independent ARIC Discovery Meta-Analysis identified mtDNA-CN associated CpGs across all studied cohorts and Validation Meta-Analysis/All Cohort Meta-Analysis. Validation meta-analysis included CHS AA, CHS EA and FHS EA cohorts (P

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    Authors: Yifeng Li; Wenqiang Shi; Wyeth Wasserman;

    Genome-wide predictions of cis-regulatory regions for all six cell types. (ZIP 20400 kb)

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