JIVE swMATH ID: 9511 Software Authors: Lock, Eric F.; Hoadley, Katherine A.; Marron, J.S.; Nobel, Andrew B. Description: Joint and Individual Variation Explained (JIVE) for integrated analysis of multiple data types. Research in several fields now requires the analysis of data sets in which multiple high-dimensional types of data are available for a common set of objects. In particular, The Cancer Genome Atlas (TCGA) includes data from several diverse genomic technologies on the same cancerous tumor samples. In this paper we introduce Joint and Individual Variation Explained (JIVE), a general decomposition of variation for the integrated analysis of such data sets. The decomposition consists of three terms: a low-rank approximation capturing joint variation across data types, low-rank approximations for structured variation individual to each data type, and residual noise. JIVE quantifies the amount of joint variation between data types, reduces the dimensionality of the data and provides new directions for the visual exploration of joint and individual structures. The proposed method represents an extension of Principal Component Analysis and has clear advantages over popular two-block methods such as Canonical Correlation Analysis and Partial Least Squares. A JIVE analysis of gene expression and miRNA data on Glioblastoma Multiforme tumor samples reveals gene-miRNA associations and provides better characterization of tumor types. par Data and software are available at https://genome.unc.edu/jive/. Homepage: https://genome.unc.edu/jive/ Keywords: data integration; multi-block data; principal component analysis; data fusion Related Software: PMA; GitHub; Scikit; PyTorch; Seaborn; Python; ElemStatLearn; Matplotlib; NumPy; SciPy; AJIVE; R; MultiCluster; PRMLT; Pyro; Jupyter; Tensorlab; mvlearn; Multiview; UCI-ml Cited in: 24 Publications all top 5 Cited by 74 Authors 6 Marron, James Stephen 3 Hoadley, Katherine A. 3 Lock, Eric F. 2 Carmichael, Iain 2 Dunson, David Brian 2 Gaynanova, Irina 2 Hannig, Jan 2 Herring, Amy H. 2 Li, Gen 2 Nobel, Andrew B. 2 Risk, Benjamin B. 2 Shen, Haipeng 2 Shu, Hai 2 Wang, Miaoyan 1 Ablin, Pierre 1 Ahn, Jeongyoun 1 Aoshima, Makoto 1 Bai, Jiawei 1 Bowler, Russell P. 1 Calhoun, Benjamin C. 1 Chang, Alexander 1 Chung, Hee Cheol 1 Couture, Heather D. 1 Feng, Qing 1 Fischer, Jonathan 1 Franz, Cameron 1 Geradts, Joseph 1 Godichon-Baggioni, Antoine 1 Gramfort, Alexandre 1 Green, Philip 1 Guo, Richard 1 Harris, Tamara B. 1 Hersh, Craig P. 1 Hu, Jiaxin 1 Huang, Lei 1 Ivanescu, Andrada E. 1 Jeon, Yongho 1 Jiang, Meilei 1 Jung, Sungkyu 1 Kharyuk, P. V. 1 Koul, Arman 1 Lavine, Isaac 1 Lee, Chanwoo 1 Lee, Theodore 1 Matteson, David S. 1 Maugis-Rabusseau, Cathy 1 Maurer, Mathew 1 Mischler, Gavin 1 Moran, Kelly R. 1 Mostofsky, Stewart H. 1 Nebel, Mary Beth 1 Niethammer, Marc 1 Olsson, Linnea 1 Oseledets, Ivan Valer’evich 1 Palzer, Elise F. 1 Park, Yunyoung 1 Perou, Charles M. 1 Perry, Ronan 1 Qu, Zhe 1 Richard, Hugo 1 Roy, Arkaprava 1 Safo, Sandra E. 1 Shen, Dan 1 Song, Yun S. 1 Troester, Melissa A. 1 Vogelstein, Joshua T. 1 Wendt, Christine H. 1 Wheeler, Matthew W. 1 Yang, Dan 1 Yata, Kazuyoshi 1 Zhao, Yuxuan 1 Zhou, Yihui 1 Zhu, Hongtu 1 Zipunnikov, Vadim M. all top 5 Cited in 10 Serials 9 The Annals of Applied Statistics 3 Journal of the American Statistical Association 3 Computational Statistics and Data Analysis 2 Journal of Multivariate Analysis 2 Journal of Computational and Graphical Statistics 1 Computational Mathematics and Mathematical Physics 1 Test 1 Australian & New Zealand Journal of Statistics 1 Journal of Machine Learning Research (JMLR) 1 Electronic Journal of Statistics Cited in 4 Fields 23 Statistics (62-XX) 6 Computer science (68-XX) 1 Probability theory and stochastic processes (60-XX) 1 Biology and other natural sciences (92-XX) Citations by Year