Literature DB >> 27896966

ENFORCING CO-EXPRESSION IN MULTIMODAL REGRESSION FRAMEWORK.

Pascal Zille1, Vince D Calhoun, Yu-Ping Wang.   

Abstract

We consider the problem of multimodal data integration for the study of complex neurological diseases (e.g. schizophrenia). Among the challenges arising in such situation, estimating the link between genetic and neurological variability within a population sample has been a promising direction. A wide variety of statistical models arose from such applications. For example, Lasso regression and its multitask extension are often used to fit a multivariate linear relationship between given phenotype(s) and associated observations. Other approaches, such as canonical correlation analysis (CCA), are widely used to extract relationships between sets of variables from different modalities. In this paper, we propose an exploratory multivariate method combining these two methods. More Specifically, we rely on a 'CCA-type' formulation in order to regularize the classical multimodal Lasso regression problem. The underlying motivation is to extract discriminative variables that display are also co-expressed across modalities. We first evaluate the method on a simulated dataset, and further validate it using Single Nucleotide Polymorphisms (SNP) and functional Magnetic Resonance Imaging (fMRI) data for the study of schizophrenia.

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Year:  2017        PMID: 27896966      PMCID: PMC5415360          DOI: 10.1142/9789813207813_0011

Source DB:  PubMed          Journal:  Pac Symp Biocomput        ISSN: 2335-6928


  22 in total

1.  Significant correlation between a set of genetic polymorphisms and a functional brain network revealed by feature selection and sparse Partial Least Squares.

Authors:  Edith Le Floch; Vincent Guillemot; Vincent Frouin; Philippe Pinel; Christophe Lalanne; Laura Trinchera; Arthur Tenenhaus; Antonio Moreno; Monica Zilbovicius; Thomas Bourgeron; Stanislas Dehaene; Bertrand Thirion; Jean-Baptiste Poline; Edouard Duchesnay
Journal:  Neuroimage       Date:  2012-07-08       Impact factor: 6.556

2.  Sparse canonical correlation analysis with application to genomic data integration.

Authors:  Elena Parkhomenko; David Tritchler; Joseph Beyene
Journal:  Stat Appl Genet Mol Biol       Date:  2009-01-06

3.  Candidate genes for schizophrenia: a survey of association studies and gene ranking.

Authors:  Jingchun Sun; Po-Hsiu Kuo; Brien P Riley; Kenneth S Kendler; Zhongming Zhao
Journal:  Am J Med Genet B Neuropsychiatr Genet       Date:  2008-10-05       Impact factor: 3.568

4.  Collaborative regression.

Authors:  Samuel M Gross; Robert Tibshirani
Journal:  Biostatistics       Date:  2014-11-17       Impact factor: 5.899

5.  Structure-constrained sparse canonical correlation analysis with an application to microbiome data analysis.

Authors:  Jun Chen; Frederic D Bushman; James D Lewis; Gary D Wu; Hongzhe Li
Journal:  Biostatistics       Date:  2012-10-15       Impact factor: 5.899

6.  Functional and structural abnormalities associated with empathy in patients with schizophrenia: An fMRI and VBM study.

Authors:  Sadhana Singh; Shilpi Modi; Satnam Goyal; Prabhjot Kaur; Namita Singh; Triptish Bhatia; Smita N Deshpande; Subash Khushu
Journal:  J Biosci       Date:  2015-06       Impact factor: 1.826

7.  SZGR: a comprehensive schizophrenia gene resource.

Authors:  P Jia; J Sun; A Y Guo; Z Zhao
Journal:  Mol Psychiatry       Date:  2010-05       Impact factor: 15.992

8.  Gene copy number variation in schizophrenia.

Authors:  Smitha R Sutrala; Dirk Goossens; Nigel M Williams; Lien Heyrman; Rolf Adolfsson; Nadine Norton; Paul R Buckland; Jurgen Del-Favero
Journal:  Schizophr Res       Date:  2007-09-07       Impact factor: 4.939

9.  Correspondence between fMRI and SNP data by group sparse canonical correlation analysis.

Authors:  Dongdong Lin; Vince D Calhoun; Yu-Ping Wang
Journal:  Med Image Anal       Date:  2013-10-31       Impact factor: 8.545

10.  Genome scan meta-analysis of schizophrenia and bipolar disorder, part II: Schizophrenia.

Authors:  Cathryn M Lewis; Douglas F Levinson; Lesley H Wise; Lynn E DeLisi; Richard E Straub; Iiris Hovatta; Nigel M Williams; Sibylle G Schwab; Ann E Pulver; Stephen V Faraone; Linda M Brzustowicz; Charles A Kaufmann; David L Garver; Hugh M D Gurling; Eva Lindholm; Hilary Coon; Hans W Moises; William Byerley; Sarah H Shaw; Andrea Mesen; Robin Sherrington; F Anthony O'Neill; Dermot Walsh; Kenneth S Kendler; Jesper Ekelund; Tiina Paunio; Jouko Lönnqvist; Leena Peltonen; Michael C O'Donovan; Michael J Owen; Dieter B Wildenauer; Wolfgang Maier; Gerald Nestadt; Jean-Louis Blouin; Stylianos E Antonarakis; Bryan J Mowry; Jeremy M Silverman; Raymond R Crowe; C Robert Cloninger; Ming T Tsuang; Dolores Malaspina; Jill M Harkavy-Friedman; Dragan M Svrakic; Anne S Bassett; Jennifer Holcomb; Gursharan Kalsi; Andrew McQuillin; Jon Brynjolfson; Thordur Sigmundsson; Hannes Petursson; Elena Jazin; Tomas Zoëga; Tomas Helgason
Journal:  Am J Hum Genet       Date:  2003-06-11       Impact factor: 11.025

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  2 in total

1.  Biomarker Identification Through Integrating fMRI and Epigenetics.

Authors:  Yuntong Bai; Zille Pascal; Wenxing Hu; Vince D Calhoun; Yu-Ping Wang
Journal:  IEEE Trans Biomed Eng       Date:  2019-08-02       Impact factor: 4.538

2.  Enforcing Co-Expression Within a Brain-Imaging Genomics Regression Framework.

Authors:  Pascal Zille; Vince D Calhoun; Yu-Ping Wang
Journal:  IEEE Trans Med Imaging       Date:  2017-06-28       Impact factor: 10.048

  2 in total

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