MKPLS: Multiple kernel partial least squares for transcription factor binding site identification

2017 Chinese Automation Congress (CAC) ◽

10.1109/cac.2017.8243278 ◽

2017 ◽

Author(s):

Ling Chai ◽

Qinke Peng ◽

Xiongpan Zhang ◽

Laiyi Fu ◽

Shiquan Sun

Keyword(s):

Transcription Factor ◽

Least Squares ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Partial Least Squares ◽

Factor Binding Site ◽

Kernel Partial Least Squares ◽

Multiple Kernel ◽

Binding Site Identification ◽

Site Identification

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Transcription Factor Binding Site Identification by Phylogenetic Footprinting

Frontiers in Computational and Systems Biology - Computational Biology ◽

10.1007/978-1-84996-196-7_6 ◽

2010 ◽

pp. 113-131

Author(s):

Haiyan Hu ◽

Xiaoman Li

Keyword(s):

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Phylogenetic Footprinting ◽

Transcription Factor Binding ◽

Factor Binding Site ◽

Factor Binding ◽

Binding Site Identification ◽

Site Identification

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Transcription factor binding site identification using the self-organizing map

Bioinformatics ◽

10.1093/bioinformatics/bti256 ◽

2005 ◽

Vol 21 (9) ◽

pp. 1807-1814 ◽

Author(s):

S. Mahony ◽

D. Hendrix ◽

A. Golden ◽

T. J. Smith ◽

D. S. Rokhsar

Keyword(s):

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Transcription Factor Binding ◽

The Self ◽

Self Organizing Map ◽

Factor Binding Site ◽

Factor Binding ◽

Binding Site Identification ◽

Site Identification

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Transcription factor binding site identification in yeast: a comparison of high-density oligonucleotide and PCR-based microarray platforms

Functional & Integrative Genomics ◽

10.1007/s10142-007-0054-7 ◽

2007 ◽

Vol 7 (4) ◽

pp. 335-345 ◽

Author(s):

Anthony R. Borneman ◽

Zhengdong D. Zhang ◽

Joel Rozowsky ◽

Michael R. Seringhaus ◽

Mark Gerstein ◽

...

Keyword(s):

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Transcription Factor Binding ◽

High Density ◽

Factor Binding Site ◽

Factor Binding ◽

Binding Site Identification ◽

Site Identification

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Improved Models for Transcription Factor Binding Site Identification Using Nonindependent Interactions

Genetics ◽

10.1534/genetics.112.138685 ◽

2012 ◽

Vol 191 (3) ◽

pp. 781-790 ◽

Author(s):

Yue Zhao ◽

Shuxiang Ruan ◽

Manishi Pandey ◽

Gary D. Stormo

Keyword(s):

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Transcription Factor Binding ◽

Factor Binding Site ◽

Factor Binding ◽

Binding Site Identification ◽

Site Identification

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A sequential Monte Carlo EM approach to the transcription factor binding site identification problem

Bioinformatics ◽

10.1093/bioinformatics/btm054 ◽

2007 ◽

Vol 23 (11) ◽

pp. 1313-1320 ◽

Author(s):

E. S. Jackson ◽

W. J. Fitzgerald

Keyword(s):

Monte Carlo ◽

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Sequential Monte Carlo ◽

Identification Problem ◽

Factor Binding Site ◽

Binding Site Identification ◽

Site Identification ◽

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Transcription Factor–Binding Site Identification and Enrichment Analysis

Methods in Molecular Biology - Detection of Cell Death Mechanisms ◽

10.1007/978-1-0716-1162-3_20 ◽

2020 ◽

pp. 241-261

Author(s):

Joe L. Guy ◽

Gil G. Mor

Keyword(s):

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Enrichment Analysis ◽

Transcription Factor Binding ◽

Factor Binding Site ◽

Factor Binding ◽

Binding Site Identification ◽

Site Identification

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A Sequential Monte Carlo EM Solution to the Transcription Factor Binding Site Identification Problem

2006 IEEE Nonlinear Statistical Signal Processing Workshop ◽

10.1109/nsspw.2006.4378859 ◽

2006 ◽

Author(s):

Edmund S. Jackson ◽

William J. Fitzgerald

Keyword(s):

Monte Carlo ◽

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Sequential Monte Carlo ◽

Identification Problem ◽

Factor Binding Site ◽

Binding Site Identification ◽

Site Identification ◽

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Sequential Integration of Fuzzy Clustering and Expectation Maximization for Transcription Factor Binding Site Identification

Journal of Computational Biology ◽

10.1089/cmb.2017.0230 ◽

2018 ◽

Vol 25 (11) ◽

pp. 1247-1256

Author(s):

Ali Yousefian-Jazi ◽

Jinwook Choi

Keyword(s):

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Fuzzy Clustering ◽

Expectation Maximization ◽

Transcription Factor Binding ◽

Factor Binding Site ◽

Factor Binding ◽

Binding Site Identification ◽

Site Identification

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Transcription factor-binding site identification and gene classification via fusion of the supervised-weighted discrete kernel clustering and support vector machine

Journal of Applied Statistics ◽

10.1080/02664763.2013.845143 ◽

2013 ◽

Vol 41 (3) ◽

pp. 573-581 ◽

Author(s):

Insuk Sohn ◽

Jooyong Shim ◽

Changha Hwang ◽

Sujong Kim ◽

Jae Won Lee

Keyword(s):

Support Vector Machine ◽

Transcription Factor ◽

Binding Site ◽

Transcription Factor Binding Site ◽

Support Vector ◽

Factor Binding Site ◽

Factor Binding ◽

Kernel Clustering ◽

Binding Site Identification ◽

Site Identification

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Computational inference of transcriptional regulatory networks from expression profiling and transcription factor binding site identification

Nucleic Acids Research ◽

10.1093/nar/gkh183 ◽

2004 ◽

Vol 32 (1) ◽

pp. 179-188 ◽

Author(s):

P. M. Haverty

Keyword(s):

Transcription Factor ◽

Binding Site ◽

Expression Profiling ◽

Regulatory Networks ◽

Transcriptional Regulatory Networks ◽

Factor Binding Site ◽

Computational Inference ◽

Transcriptional Regulatory ◽

Binding Site Identification ◽

Site Identification

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