Abstract
In this chapter we will review some statistical approaches using the Wolfram Language. The Wolfram Language has extensive capabilities for statistics, including visualization tools. The abilities to generate distributions and intermix code with mathematical statistics greatly facilitate prototyping various analysis approaches.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Abell, M.L., Braselton, J.P., Rafter, J.A.: Statistics with Mathematica, vol. 1. Academic Press, New York (1999)
Ashburner, M., Ball, C.A., Blake, J.A., Botstein, D., Butler, H., Cherry, J.M., Davis, A.P., Dolinski, K., Dwight, S.S., Eppig, J.T., Harris, M.A., Hill, D.P., Issel-Tarver, L., Kasarskis, A., Lewis, S., Matese, J.C., Richardson, J.E., Ringwald, M., Rubin, G.M., Sherlock, G.: Gene ontology: tool for the unification of biology. The gene ontology consortium. Nat. Genet. 25(1), 25–9 (2000)
Baglivo, J.A.: Mathematica Laboratories for Mathematical Statistics: Emphasizing Simulation and Computer Intensive Methods. SIAM, Philadelphia (2005)
Barrett, T., Wilhite, S.E., Ledoux, P., Evangelista, C., Kim, I.F., Tomashevsky, M., Marshall, K.A., Phillippy, K.H., Sherman, P.M., Holko, M., Yefanov, A., Lee, H., Zhang, N., Robertson, C.L., Serova, N., Davis, S., Soboleva, A.: NCBI GEO: archive for functional genomics data sets–update. Nucleic Acids Res. 41(D1), D991–D995 (2013)
Benjamini, Y., Hochberg, Y.: Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. B (Methodol.) 57, 289–300 (1995)
Chen*, R., Mias*, G.I., Li-Pook-Than*, J., Jiang*, L., Lam, H.Y., Chen, R., Miriami, E., Karczewski, K.J., Hariharan, M., Dewey, F.E., Cheng, Y., Clark, M.J., Im, H., Habegger, L., Balasubramanian, S., O’Huallachain, M., Dudley, J.T., Hillenmeyer, S., Haraksingh, R., Sharon, D., Euskirchen, G., Lacroute, P., Bettinger, K., Boyle, A.P., Kasowski, M., Grubert, F., Seki, S., Garcia, M., Whirl-Carrillo, M., Gallardo, M., Blasco, M.A., Greenberg, P.L., Snyder, P., Klein, T.E., Altman, R.B., Butte, A.J., Ashley, E.A., Gerstein, M., Nadeau, K.C., Tang, H., Snyder, M.: Personal omics profiling reveals dynamic molecular and medical phenotypes. Cell 148(6), 1293–307 (2012)
Dekking, F.M.: A Modern Introduction to Probability and Statistics: Understanding Why and How. Springer Science & Business Media (2005)
Denker, M., Woyczynski, W.: Introductory Statistics and Random Phenomena: Uncertainty, Complexity and Chaotic Behavior in Engineering and Science. Springer Science & Business Media (2012)
Edgar, R., Domrachev, M., Lash, A.E.: Gene expression omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 30(1), 207–210 (2002)
Feller, W.: An Introduction to Probability Theory and Its Applications: Volume I, vol. 3. Wiley, New York (1968)
Feller, W.: Introduction to the Theory of Probability and Its Applications, vol. 2, 2nd edn. New York, Wiley (1971)
Golub, T.R., Slonim, D.K., Tamayo, P., Huard, C., Gaasenbeek, M., Mesirov, J.P., Coller, H., Loh, M.L., Downing, J.R., Caligiuri, M.A., Bloomfield, C.D., Lander, E.S.: Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science 286(5439), 531–537 (1999)
Heyries, K.A., Tropini, C., VanInsberghe, M., Doolin, C., Petriv, I., Singhal, A., Leung, K., Hughesman, C.B., Hansen, C.L.: Megapixel digital PCR. Nat. Methods 8(8), 649–651 (2011)
Karolchik, D., Hinrichs, A.S., Kent, W.J.: The UCSC genome browser. Current Protocols in Bioinformatics Chapter 1, Unit1 4 (2012)
Kolesnikov, N., Hastings, E., Keays, M., Melnichuk, O., Tang, Y.A., Williams, E., Dylag, M., Kurbatova, N., Brandizi, M., Burdett, T., Megy, K., Pilicheva, E., Rustici, G., Tikhonov, A., Parkinson, H., Petryszak, R., Sarkans, U., Brazma, A.: Arrayexpress update–simplifying data submissions. Nucleic Acids Res. 43(Database issue), D1113—D1116 (2015)
Kuhn, R.M., Haussler, D., Kent, W.J.: The UCSC genome browser and associated tools. Brief Bioinform 14(2), 144–61 (2013)
Lawler, G.F., Coyle, L.N.: Lectures on Contemporary Probability, vol. 2. American Mathematical Society (1999)
Marcobal, A., Yusufaly, T., Higginbottom, S., Snyder, M., Sonnenburg, J.L., Mias, G.I.: Metabolome progression during early gut microbial colonization of gnotobiotic mice. Sci. Rep. 5, 11,589 (2015)
Mias, G., Snyder, M.: Personal genomes, quantitative dynamic omics and personalized medicine. Quant. Biol. 1(1), 71–90 (2013)
Mias, G.I., Snyder, M.: Multimodal dynamic profiling of healthy and diseased states for future personalized health care. Clin. Pharmacol. Ther. 93(1), 29–32 (2013)
Mias, G.I., Yusufaly, T., Roushangar, R., Brooks, L.R., Singh, V.V., Christou, C.: MathlOmica: An integrative platform for dynamic omics. Sci. Rep. 6, 37,237 (2016)
Pavlidis, P.: Using ANOVA for gene selection from microarray studies of the nervous system. Methods 31(4), 282–289 (2003) (Candidate Genes from DNA Array Screens: application to neuroscience)
Pavlidis, P., Noble, W.S.: Matrix2png: a utility for visualizing matrix data. Bioinformatics 19(2), 295–296 (2003)
Rees, D.: Essential Statistics. Springer, Berlin (2013)
Sandberg, R., Yasuda, R., Pankratz, D.G., Carter, T.A., Del Rio, J.A., Wodicka, L., Mayford, M., Lockhart, D.J., Barlow, C.: Regional and strain-specific gene expression mapping in the adult mouse brain. Proc. Natl. Acad. Sci. 97(20), 11038–11043 (2000)
Vogelstein, B., Kinzler, K.W.: Digital PCR. Proc. Natl. Acad. Sci. 96(16), 9236–9241 (1999)
Wasserman, L.: All of statistics: a concise course in statistical inference. Springer Science & Business Media (2013)
Wolfram Alpha LLC: Wolfram\(\mid \)Alpha (2017). Accessed November 2017
Wolfram Research, Inc.: Mathematica, Version 11.2. Champaign, IL, 2017
Yamagishi, M.E.B., Shimabukuro, A.I.: Nucleotide frequencies in human genome and Fibonacci numbers. Bull. Math. Biol. 70(3), 643–653 (2008)
Author information
Authors and Affiliations
Corresponding author
3.1 Electronic supplementary material
Below is the link to the electronic supplementary material.
Rights and permissions
Copyright information
© 2018 Springer International Publishing AG, part of Springer Nature
About this chapter
Cite this chapter
Mias, G. (2018). Statistics. In: Mathematica for Bioinformatics. Springer, Cham. https://doi.org/10.1007/978-3-319-72377-8_3
Download citation
DOI: https://doi.org/10.1007/978-3-319-72377-8_3
Published:
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-72376-1
Online ISBN: 978-3-319-72377-8
eBook Packages: Biomedical and Life SciencesBiomedical and Life Sciences (R0)