TY - JOUR AU - Friedman, M. PY - 1937 DA - 1937// TI - The use of ranks to avoid the assumption of normality implicit in the analysis of variance JO - J Am Stat Assoc VL - 32 UR - https://doi.org/10.1080/01621459.1937.10503522 DO - 10.1080/01621459.1937.10503522 ID - Friedman1937 ER - TY - JOUR AU - Demšar, J. PY - 2006 DA - 2006// TI - Statistical comparisons of classifiers over multiple data sets JO - J Mach Learn Res VL - 7 ID - Demšar2006 ER - TY - JOUR AU - García, S. AU - Herrera, F. PY - 2008 DA - 2008// TI - An extension on “Statistical comparisons of classifiers over multiple data sets” for all pairwise comparisons JO - J Mach Learn Res VL - 9 ID - García2008 ER - TY - JOUR AU - Derrac, J. AU - García, S. AU - Molina, D. AU - Herrera, F. PY - 2011 DA - 2011// TI - A practical tutorial on the use of nonparametric statistical tests as a methodology for comparing evolutionary and swarm intelligence algorithms JO - Swarm Evol Comput VL - 1 UR - https://doi.org/10.1016/j.swevo.2011.02.002 DO - 10.1016/j.swevo.2011.02.002 ID - Derrac2011 ER - TY - JOUR AU - Perrodou, E. AU - Chica, C. AU - Poch, O. AU - Gibson, T. J. AU - Thompson, J. D. PY - 2008 DA - 2008// TI - A new protein linear motif benchmark for multiple sequence alignment software JO - BMC Bioinformatics VL - 9 UR - https://doi.org/10.1186/1471-2105-9-213 DO - 10.1186/1471-2105-9-213 ID - Perrodou2008 ER - TY - JOUR AU - Jones, M. E. AU - Mayne, G. C. AU - Wang, T. AU - Watson, D. I. AU - Hussey, D. J. PY - 2014 DA - 2014// TI - A fixed-point algorithm for estimating amplification efficiency from a polymerase chain reaction dilution series JO - BMC Bioinformatics VL - 15 UR - https://doi.org/10.1186/s12859-014-0372-4 DO - 10.1186/s12859-014-0372-4 ID - Jones2014 ER - TY - JOUR AU - Souto, M. C. P. AU - Jaskowiak, P. A. AU - Costa, I. G. PY - 2015 DA - 2015// TI - Impact of missing data imputation methods on gene expression clustering and classification JO - BMC Bioinformatics VL - 16 UR - https://doi.org/10.1186/s12859-015-0494-3 DO - 10.1186/s12859-015-0494-3 ID - Souto2015 ER - TY - JOUR AU - Carvalho, S. G. AU - Guerra-Sá, R. AU - de C Merschmann, L. H. PY - 2015 DA - 2015// TI - The impact of sequence length and number of sequences on promoter prediction performance JO - BMC Bioinformatics VL - 16 UR - https://doi.org/10.1186/1471-2105-16-S19-S5 DO - 10.1186/1471-2105-16-S19-S5 ID - Carvalho2015 ER - TY - JOUR AU - Frades, I. AU - Resjö, S. AU - Andreasson, E. PY - 2015 DA - 2015// TI - Comparison of phosphorylation patterns across eukaryotes by discriminative N-gram analysis JO - BMC Bioinformatics VL - 16 UR - https://doi.org/10.1186/s12859-015-0657-2 DO - 10.1186/s12859-015-0657-2 ID - Frades2015 ER - TY - JOUR AU - Staržar, M. AU - Žitnik, M. AU - Zupan, B. AU - Ule, J. AU - Curk, T. PY - 2016 DA - 2016// TI - Orthogonal matrix factorization enables integrative analysis of multiple RNA binding proteins JO - Bioinformatics VL - 32 UR - https://doi.org/10.1093/bioinformatics/btw003 DO - 10.1093/bioinformatics/btw003 ID - Staržar2016 ER - TY - JOUR AU - Bacardit, J. AU - Widera, P. AU - Márquez-Chamorro, A. AU - Divina, F. AU - Aguilar-Ruiz, J. S. AU - Krasnogor, N. PY - 2012 DA - 2012// TI - Contact map prediction using a large-scale ensemble of rule sets and the fusion of multiple predicted structural features JO - Bioinformatics VL - 28 UR - https://doi.org/10.1093/bioinformatics/bts472 DO - 10.1093/bioinformatics/bts472 ID - Bacardit2012 ER - TY - JOUR AU - Allhoff, M. AU - Seré, K. AU - Chauvistré, H. AU - Lin, Q. AU - Zenke, M. AU - Costa, I. G. PY - 2014 DA - 2014// TI - Detecting differential peaks in ChIP-seq signals with ODIN JO - Bioinformatics VL - 30 UR - https://doi.org/10.1093/bioinformatics/btu722 DO - 10.1093/bioinformatics/btu722 ID - Allhoff2014 ER - TY - JOUR AU - Gusmao, E. G. AU - Dieterich, C. AU - Zenke, M. AU - Costa, I. G. PY - 2014 DA - 2014// TI - Detection of active transcription factor binding sites with the combination of DNase hypersensitivity and histone modifications JO - Bioinformatics VL - 30 UR - https://doi.org/10.1093/bioinformatics/btu519 DO - 10.1093/bioinformatics/btu519 ID - Gusmao2014 ER - TY - JOUR AU - Gong, H. AU - Liu, H. AU - Wu, J. AU - He, H. PY - 2014 DA - 2014// TI - Data construction for phosphorylation site prediction JO - Brief Bioinform VL - 15 UR - https://doi.org/10.1093/bib/bbt012 DO - 10.1093/bib/bbt012 ID - Gong2014 ER - TY - JOUR AU - Xue, L. C. AU - Rodrigues, J. P. G. L. M. AU - Dobbs, D. AU - Honavar, V. AU - Bonvin, A. M. J. J. PY - 2016 DA - 2016// TI - Template-based protein–protein docking exploiting pairwise interfacial residue restraints JO - Brief Bioinform ID - Xue2016 ER - TY - JOUR AU - Iranzo, J. AU - Gómez, M. J. AU - López de Saro, F. J. AU - Manrubia, S. PY - 2014 DA - 2014// TI - Large-scale genomic analysis suggests a neutral punctuated dynamics of transposable elements in bacterial genomes JO - PLoS Comput Biol VL - 10 UR - https://doi.org/10.1371/journal.pcbi.1003680 DO - 10.1371/journal.pcbi.1003680 ID - Iranzo2014 ER - TY - JOUR AU - Pontes, B. AU - Giráldez, R. AU - Aquilar-Ruiz, J. S. PY - 2013 DA - 2013// TI - Configurable pattern-based evolutionary biclustering of gene expression data JO - Algorithm Mol Biol VL - 8 UR - https://doi.org/10.1186/1748-7188-8-4 DO - 10.1186/1748-7188-8-4 ID - Pontes2013 ER - TY - BOOK AU - Siegel, S. AU - Castellan, N. J. PY - 1988 DA - 1988// TI - Nonparametric Statistics for the Behavioral Sciences PB - McGraw-Hill CY - New York ID - Siegel1988 ER - TY - BOOK AU - Daniel, W. W. PY - 1990 DA - 1990// TI - Applied Nonparametric Statistics PB - Houghton Mifflin CY - Boston ID - Daniel1990 ER - TY - BOOK AU - Zarr, J. H. PY - 1999 DA - 1999// TI - Biostatistical analysis PB - Prentice-Hall CY - Upper Saddle River ID - Zarr1999 ER - TY - BOOK AU - Gibbons, J. D. AU - Chakraborti, S. PY - 2003 DA - 2003// TI - Nonparametric Statistical Inference PB - Marcel Dekker CY - New York ID - Gibbons2003 ER - TY - BOOK AU - Sheskin, D. J. PY - 2011 DA - 2011// TI - Handbook of parametric and nonparametric statistical procedures PB - Chapman and Hall/CRC CY - Boca Raton ID - Sheskin2011 ER - TY - BOOK AU - Hollander, M. AU - Wolfe, D. A. AU - Chicken, E. PY - 2014 DA - 2014// TI - Nonparametric statistical methods PB - Wiley CY - New York ID - Hollander2014 ER - TY - JOUR AU - Whitfield, J. W. PY - 1954 DA - 1954// TI - The distribution of the difference in total rank value for two particular objects in m rankings of n objects JO - Brit J Statist Psych VL - 7 UR - https://doi.org/10.1111/j.2044-8317.1954.tb00139.x DO - 10.1111/j.2044-8317.1954.tb00139.x ID - Whitfield1954 ER - TY - BOOK AU - Miller, R. G. PY - 1966 DA - 1966// TI - Simultaneous statistical inference PB - McGraw-Hill CY - New York ID - Miller1966 ER - TY - JOUR AU - Stuart, A. PY - 1954 DA - 1954// TI - Limit distributions for total rank values JO - Brit J Statist Psych VL - 7 UR - https://doi.org/10.1111/j.2044-8317.1954.tb00137.x DO - 10.1111/j.2044-8317.1954.tb00137.x ID - Stuart1954 ER - TY - JOUR AU - Koziol, J. A. PY - 2013 DA - 2013// TI - A note on multiple comparison procedures for analysis of ranked data JO - Universal Journal of Food and Nutrition Science VL - 1 ID - Koziol2013 ER - TY - JOUR AU - Wiel, M. A. PY - 2004 DA - 2004// TI - Exact null distributions of quadratic distribution-free statistics for two-way classification JO - J Stat Plan Infer VL - 120 UR - https://doi.org/10.1016/S0378-3758(02)00498-6 DO - 10.1016/S0378-3758(02)00498-6 ID - Wiel2004 ER - TY - BOOK PY - 2016 DA - 2016// TI - StatXact: Statistical Software for Exact Nonparametric Inference PB - Cytel Software Corporation CY - Cambridge ID - ref29 ER - TY - JOUR AU - Boulesteix, A. -. L. AU - Hable, R. AU - Lauer, S. AU - Eugster, M. J. A. PY - 2015 DA - 2015// TI - A statistical framework for hypothesis testing in real data comparison studies JO - Am Stat VL - 69 UR - https://doi.org/10.1080/00031305.2015.1005128 DO - 10.1080/00031305.2015.1005128 ID - Boulesteix2015 ER - TY - JOUR AU - Boulesteix, A. -. L. PY - 2013 DA - 2013// TI - On representative and illustrative comparisons with real data in bioinformatics: response to the letter to the editor by Smith et al JO - Bioinformatics VL - 20 UR - https://doi.org/10.1093/bioinformatics/btt458 DO - 10.1093/bioinformatics/btt458 ID - Boulesteix2013 ER - TY - CHAP AU - Jensen, D. R. ED - Block, H. W. ED - Sampson, A. R. ED - Savits, T. H. PY - 1990 DA - 1990// TI - Invariance under dependence by mixing BT - Topics in Statistical Dependence. Lectures Notes - Monograph Series Volume 16 PB - Institute of Mathematical Statistics CY - Hayward ID - Jensen1990 ER - TY - BOOK AU - Hettmansperger, T. P. PY - 1984 DA - 1984// TI - Statistical inference based on ranks PB - Wiley CY - New York ID - Hettmansperger1984 ER - TY - BOOK AU - Puri, M. L. AU - Sen, P. K. PY - 1971 DA - 1971// TI - Nonparametric methods in multivariate analysis PB - Wiley CY - New York ID - Puri1971 ER - TY - JOUR AU - Laurent, R. S. AU - Turk, P. PY - 2013 DA - 2013// TI - The effects of misconceptions on the properties of Friedman’s test JO - Commun Stat Simulat VL - 42 UR - https://doi.org/10.1080/03610918.2012.671874 DO - 10.1080/03610918.2012.671874 ID - Laurent2013 ER - TY - JOUR AU - Munzel, U. AU - Brunner, E. PY - 2002 DA - 2002// TI - An exact paired rank test JO - Biometrical J VL - 44 UR - https://doi.org/3.0.CO;2-9 DO - 3.0.CO;2-9 ID - Munzel2002 ER - TY - JOUR AU - Iman, R. L. AU - Davenport, J. M. PY - 1980 DA - 1980// TI - Approximations of the critical region of the Friedman statistic JO - Comm Stat A Theor Meth VL - 9 UR - https://doi.org/10.1080/03610928008827904 DO - 10.1080/03610928008827904 ID - Iman1980 ER - TY - JOUR AU - Skillings, J. H. AU - Mack, G. A. PY - 1981 DA - 1981// TI - On the use of a Friedman-type statistic in balanced and unbalanced block designs JO - Technometrics VL - 23 UR - https://doi.org/10.1080/00401706.1981.10486261 DO - 10.1080/00401706.1981.10486261 ID - Skillings1981 ER - TY - BOOK AU - Nemenyi, P. B. PY - 1963 DA - 1963// TI - Distribution-free multiple comparisons, PhD thesis PB - Princeton University CY - Princeton ID - Nemenyi1963 ER - TY - BOOK AU - Desu, M. M. AU - Raghavarao, D. PY - 2004 DA - 2004// TI - Nonparametric statistical methods for complete and censored data PB - Chapman and Hall/CRC CY - Boca Raton ID - Desu2004 ER - TY - BOOK AU - Bortz, J. AU - Lienert, G. A. AU - Boehnke, K. PY - 1990 DA - 1990// TI - Verteilungsfreie Methoden in der Biostatistik PB - Springer CY - Berlin UR - https://doi.org/10.1007/978-3-662-22593-6 DO - 10.1007/978-3-662-22593-6 ID - Bortz1990 ER - TY - BOOK AU - Wike, E. L. PY - 2006 DA - 2006// TI - Data analysis. A statistical primer for psychology students PB - Aldine Transaction CY - New Brunswick ID - Wike2006 ER - TY - JOUR AU - Saville, D. J. PY - 1990 DA - 1990// TI - Multiple comparison procedures: the practical solution JO - Am Stat VL - 44 ID - Saville1990 ER - TY - JOUR AU - Rosenthal, I. AU - Ferguson, T. S. PY - 1965 DA - 1965// TI - An asymptotically distribution-free multiple comparison method with application to the problem of n rankings of m objects JO - Brit J Math Stat Psych VL - 18 UR - https://doi.org/10.1111/j.2044-8317.1965.tb00344.x DO - 10.1111/j.2044-8317.1965.tb00344.x ID - Rosenthal1965 ER - TY - BOOK AU - Conover, W. J. PY - 1990 DA - 1990// TI - Practical x PB - Wiley CY - New York ID - Conover1990 ER - TY - BOOK AU - Sprent, P. AU - Smeeton, N. C. PY - 2001 DA - 2001// TI - Applied nonparametric statistical methods PB - Chapman and Hall/CRC CY - Boca Raton FL ID - Sprent2001 ER - TY - JOUR AU - Waller, R. A. AU - Duncan, D. B. PY - 1969 DA - 1969// TI - A Bayes rule for symmetric multiple comparisons problem JO - J Am Stat Assoc VL - 64 ID - Waller1969 ER - TY - STD TI - Conover WJ, Iman RL. On multiple-comparisons procedures. Technical report LA-7677-MS. Los Alamos: Los Alamos Scientific Laboratory. 1979. ID - ref48 ER - TY - BOOK AU - Feller, W. PY - 1968 DA - 1968// TI - An introduction to probability theory and its applications, volume I PB - Wiley CY - New York ID - Feller1968 ER - TY - JOUR AU - Koziol, J. A. AU - Feng, A. C. PY - 2004 DA - 2004// TI - A note on the genome scan meta-analysis statistic JO - Ann Hum Genet VL - 68 UR - https://doi.org/10.1046/j.1529-8817.2004.00103.x DO - 10.1046/j.1529-8817.2004.00103.x ID - Koziol2004 ER - TY - JOUR AU - Szapudi, I. AU - Szalay, A. PY - 1993 DA - 1993// TI - Higher order statistics of the galaxy distribution using generating functions JO - Astrophys J VL - 408 UR - https://doi.org/10.1086/172568 DO - 10.1086/172568 ID - Szapudi1993 ER - TY - STD TI - OEIS Foundation Inc. The On-Line Encyclopedia of Integer Sequences, http://oeis.org; 2011. UR - http://oeis.org/ ID - ref52 ER - TY - JOUR AU - Tsao, C. K. PY - 1956 DA - 1956// TI - Distribution of the sum in random samples from a discrete population JO - Ann Math Stat VL - 27 UR - https://doi.org/10.1214/aoms/1177728177 DO - 10.1214/aoms/1177728177 ID - Tsao1956 ER - TY - BOOK AU - Dobrushkin, V. A. PY - 2009 DA - 2009// TI - Methods in algorithmic analysis PB - Chapman and Hall/CRC CY - Boca Raton ID - Dobrushkin2009 ER - TY - BOOK PY - 2012 DA - 2012// TI - R: A Language and Environment for Statistical Computing PB - R Foundation for Statistical Computing CY - Vienna ID - ref55 ER - TY - STD TI - Maechler M. Rmpfr: R MPFR – Multiple Precision Floating-Point Reliable, Version 0.6-0, December 4 2015, https://cran.r-project.org/web/packages/Rmpfr/index.html UR - https://cran.r-project.org/web/packages/Rmpfr/index.html ID - ref56 ER - TY - BOOK AU - Agresti, A. PY - 2002 DA - 2002// TI - Categorical data analysis PB - Wiley CY - New York UR - https://doi.org/10.1002/0471249688 DO - 10.1002/0471249688 ID - Agresti2002 ER - TY - JOUR AU - Schweder, T. AU - Spjøtvoll, E. PY - 1982 DA - 1982// TI - Plots of P-values to evaluate many tests simultaneously JO - Biometrika VL - 69 UR - https://doi.org/10.1093/biomet/69.3.493 DO - 10.1093/biomet/69.3.493 ID - Schweder1982 ER - TY - STD TI - Genz A, Bretz F, Miwa T, Mi X, Leisch F, Scheipl F, Bornkamp B, Maechler M, Hothorn T. Mvtnorm: multivariate normal and t distribution. Version. 2016;1. https://cran.r-project.org/web/packages/mvtnorm/. UR - https://cran.r-project.org/web/packages/mvtnorm/ ID - ref59 ER - TY - JOUR AU - Bathke, A. AU - Lankowski, D. PY - 2005 DA - 2005// TI - Rank procedures for a large number of treatments JO - J Stat Plan Infer VL - 133 UR - https://doi.org/10.1016/j.jspi.2004.03.020 DO - 10.1016/j.jspi.2004.03.020 ID - Bathke2005 ER - TY - JOUR AU - Brownie, C. AU - Boos, D. D. PY - 1994 DA - 1994// TI - Type I error robustness of ANOVA and ANOVA on ranks when the number of treatments is large JO - Biometrics VL - 50 UR - https://doi.org/10.2307/2533399 DO - 10.2307/2533399 ID - Brownie1994 ER - TY - JOUR AU - Walia, R. R. AU - Caragea, C. AU - Lewis, B. A. AU - Towfic, F. AU - Terribilini, M. AU - El-Manzalawy, Y. AU - Dobbs, D. AU - Honavar, V. PY - 2012 DA - 2012// TI - Protein-RNA interface residue prediction using machine learning: an assessment of the state of the art JO - BMC Bioinformatics VL - 13 UR - https://doi.org/10.1186/1471-2105-13-89 DO - 10.1186/1471-2105-13-89 ID - Walia2012 ER - TY - JOUR AU - Wilm, A. AU - Mainz, I. AU - Steger, G. PY - 2006 DA - 2006// TI - An enhanced RNA alignment benchmark for sequence alignment programs JO - Algorithms Mol Biol VL - 1 UR - https://doi.org/10.1186/1748-7188-1-19 DO - 10.1186/1748-7188-1-19 ID - Wilm2006 ER - TY - JOUR AU - Bultmann, C. A. AU - Weiskirschen, R. PY - 2014 DA - 2014// TI - MAKERGAUL: an innovative MAK2-based model and software for real-time PCR quantification JO - Clin Biochem VL - 47 UR - https://doi.org/10.1016/j.clinbiochem.2013.10.017 DO - 10.1016/j.clinbiochem.2013.10.017 ID - Bultmann2014 ER - TY - JOUR AU - Nascimento, C. S. AU - Barbosa, L. T. AU - Brito, C. AU - Fernandes, R. P. M. AU - Mann, R. S. AU - Pinto, A. P. G. AU - Oliviera, H. C. AU - Dodson, M. V. AU - Guimarães, S. E. F. AU - Duarte, M. S. PY - 2015 DA - 2015// TI - Identification of suitable reference genes for real time quantitative polymerase chain reaction assays on Pectoralis major muscle in chicken (Gallus gallus) JO - PLoS One VL - 10 UR - https://doi.org/10.1371/journal.pone.0127935 DO - 10.1371/journal.pone.0127935 ID - Nascimento2015 ER - TY - JOUR AU - Hosseini, I. AU - Gama, L. AU - Mac Gabhann, F. PY - 2015 DA - 2015// TI - Multiplexed component analysis to identify genes contributing to the immune response during acute SIV infection JO - PLoS One VL - 10 UR - https://doi.org/10.1371/journal.pone.0126843 DO - 10.1371/journal.pone.0126843 ID - Hosseini2015 ER - TY - JOUR AU - Eisinga, R. AU - Breitling, R. AU - Heskes, T. PY - 2013 DA - 2013// TI - The exact probability distribution of the rank product statistics for replicated experiments JO - FEBS Lett VL - 587 UR - https://doi.org/10.1016/j.febslet.2013.01.037 DO - 10.1016/j.febslet.2013.01.037 ID - Eisinga2013 ER - TY - JOUR AU - Heskes, T. AU - Eisinga, R. AU - Breitling, R. PY - 2014 DA - 2014// TI - A fast algorithm for determining bounds and accurate approximate p-values of the rank product statistic for replicate experiments JO - BMC Bioinformatics VL - 15 ID - Heskes2014 ER - TY - JOUR AU - Ruijter, J. M. AU - Pfaffl, M. W. AU - Zhao, S. AU - Spiess, A. N. AU - Boggy, G. AU - Blom, J. AU - Rutledge, R. G. AU - Sisti, D. AU - Lievens, A. AU - Preter, K. AU - Derveaux, S. AU - Hellemans, J. AU - Vandesompele, J. PY - 2013 DA - 2013// TI - Evaluation of qPCR curve analysis methods for reliable biomarker discovery: bias, resolution, precision, and implications JO - Methods VL - 59 UR - https://doi.org/10.1016/j.ymeth.2012.08.011 DO - 10.1016/j.ymeth.2012.08.011 ID - Ruijter2013 ER - TY - JOUR AU - Zagar, L. AU - Mulas, F. AU - Garagna, S. AU - Zuccotti, M. AU - Bellazzi, R. AU - Zupan, B. PY - 2011 DA - 2011// TI - Stage prediction of embryonic stem cell differentiation from genome-wide expression data JO - Bioinformatics VL - 27 ID - Zagar2011 ER - TY - JOUR AU - Breitling, R. AU - Armengaud, P. AU - Amtmann, A. AU - Herzyk, P. PY - 2004 DA - 2004// TI - Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments JO - FEBS Lett VL - 573 UR - https://doi.org/10.1016/j.febslet.2004.07.055 DO - 10.1016/j.febslet.2004.07.055 ID - Breitling2004 ER -