Tensor decomposition- based unsupervised feature extraction applied to matrix products for multi-view data processing

被引:16
作者
Taguchi, Y-h. [1 ]
机构
[1] Chuo Univ, Dept Phys, Bunkyo Ku, 1-13-27 Kasuga, Tokyo 1128551, Japan
来源
PLOS ONE | 2017年 / 12卷 / 08期
基金
日本学术振兴会;
关键词
INHIBITS TUMOR-GROWTH; CELL LUNG-CANCER; BREAST-CANCER; TARGETING METADHERIN; EXPRESSION ANALYSIS; PROSTATE-CANCER; R-PACKAGE; METASTASIS; GENE; INVASION;
D O I
10.1371/journal.pone.0183933
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
In the current era of big data, the amount of data available is continuously increasing. Both the number and types of samples, or features, are on the rise. The mixing of distinct features often makes interpretation more difficult. However, separate analysis of individual types requires subsequent integration. A tensor is a useful framework to deal with distinct types of features in an integrated manner without mixing them. On the other hand, tensor data is not easy to obtain since it requires the measurements of huge numbers of combinations of distinct features; if there are m kinds of features, each of which has N dimensions, the number of measurements needed are as many as N m, which is often too large to measure. In this paper, I propose a new method where a tensor is generated from individual features without combinatorial measurements, and the generated tensor was decomposed back to matrices, by which unsupervised feature extraction was performed. In order to demonstrate the usefulness of the proposed strategy, it was applied to synthetic data, as well as three omics datasets. It outperformed other matrix-based methodologies.
引用
收藏
页数:36
相关论文
共 80 条
  • [1] TTCA: an R package for the identification of differentially expressed genes in time course microarray data
    Albrecht, Marco
    Stichel, Damian
    Mueller, Benedikt
    Merkle, Ruth
    Sticht, Carsten
    Gretz, Norbert
    Klingmueller, Ursula
    Breuhahn, Kai
    Matthaeus, Franziska
    [J]. BMC BIOINFORMATICS, 2017, 18
  • [2] [Anonymous], 2016, SOX9 UPREGULATION BR
  • [3] CONTROLLING THE FALSE DISCOVERY RATE - A PRACTICAL AND POWERFUL APPROACH TO MULTIPLE TESTING
    BENJAMINI, Y
    HOCHBERG, Y
    [J]. JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY, 1995, 57 (01) : 289 - 300
  • [4] EMT and induction of miR-21 mediate metastasis development in Trp53-deficient tumours
    Bornachea, Olga
    Santos, Mirentxu
    Belen Martinez-Cruz, Ana
    Garcia-Escudero, Ramon
    Duenas, Marta
    Costa, Clotilde
    Segrelles, Carmen
    Lorz, Corina
    Buitrago, Agueda
    Saiz-Ladera, Cristina
    Agirre, Xabier
    Grande, Teresa
    Paradela, Beatriz
    Maraver, Antonio
    Ariza, Jose M.
    Prosper, Felipe
    Serrano, Manuel
    Sanchez-Cespedes, Montse
    Paramio, Jesus M.
    [J]. SCIENTIFIC REPORTS, 2012, 2
  • [5] Prognostic significance of cytoplasmic SOX9 in invasive ductal carcinoma and metastatic breast cancer
    Chakravarty, Geetika
    Moroz, Krzysztof
    Makridakis, Nick M.
    Lloyd, Shelby Alaine
    Galvez, Sarah E.
    Canavello, Peter R.
    Lacey, Michelle R.
    Agrawal, Krishna
    Mondal, Debasis
    [J]. EXPERIMENTAL BIOLOGY AND MEDICINE, 2011, 236 (02) : 145 - 155
  • [6] Combined administration of fucoidan ameliorates tumor and chemotherapy-induced skeletal muscle atrophy in bladder cancer-bearing mice
    Chen, Meng-Chuan
    Hsu, Wen-Lin
    Hwang, Pa-An
    Chen, Yen-Lin
    Chou, Tz-Chong
    [J]. ONCOTARGET, 2016, 7 (32) : 51608 - 51618
  • [7] Structure of the extracellular region of HER2 alone and in complex with the Herceptin Fab
    Cho, HS
    Mason, K
    Ramyar, KX
    Stanley, AM
    Gabelli, SB
    Denney, DW
    Leahy, DJ
    [J]. NATURE, 2003, 421 (6924) : 756 - 760
  • [8] A multilinear singular value decomposition
    De Lathauwer, L
    De Moor, B
    Vandewalle, J
    [J]. SIAM JOURNAL ON MATRIX ANALYSIS AND APPLICATIONS, 2000, 21 (04) : 1253 - 1278
  • [9] miR-145 inhibits tumor growth and metastasis by targeting metadherin in high-grade serous ovarian carcinoma
    Dong, Ruifen
    Liu, Xiaolin
    Zhang, Qing
    Jiang, Zhijun
    Li, Yingwei
    Wei, Yuyan
    Li, Yinuo
    Yang, Qifeng
    Liu, Jinsong
    Wei, Jian-Jun
    Shao, Changshun
    Liu, Zhaojian
    Kong, Beihua
    [J]. ONCOTARGET, 2014, 5 (21) : 10816 - 10829
  • [10] Epigenetic silencing of miR-145-5p contributes to brain metastasis
    Donzelli, Sara
    Mori, Federica
    Bellissimo, Teresa
    Sacconi, Andrea
    Casini, Beatrice
    Frixa, Tania
    Roscilli, Giuseppe
    Aurisicchio, Luigi
    Facciolo, Francesco
    Pompili, Alfredo
    Carosi, Maria Antonia
    Pescarmona, Edoardo
    Segatto, Oreste
    Pond, Greg
    Muti, Paola
    Telera, Stefano
    Strano, Sabrina
    Yarden, Yosef
    Blandino, Giovanni
    [J]. ONCOTARGET, 2015, 6 (34) : 35183 - 35201