Xiaoping Liu, Yuetong Wang, Hongbin Ji, Kazuyuki Aihara, Luonan Chen. Nucleic Acids Res 2016
Times Cited: 109
Times Cited: 109
Times Cited
Times Co-cited
Similarity
Detecting early-warning signals for sudden deterioration of complex diseases by dynamical network biomarkers.
Luonan Chen, Rui Liu, Zhi-Ping Liu, Meiyi Li, Kazuyuki Aihara. Sci Rep 2012
Luonan Chen, Rui Liu, Zhi-Ping Liu, Meiyi Li, Kazuyuki Aihara. Sci Rep 2012
29
Diagnosing phenotypes of single-sample individuals by edge biomarkers.
Wanwei Zhang, Tao Zeng, Xiaoping Liu, Luonan Chen. J Mol Cell Biol 2015
Wanwei Zhang, Tao Zeng, Xiaoping Liu, Luonan Chen. J Mol Cell Biol 2015
50
Individual-specific edge-network analysis for disease prediction.
Xiangtian Yu, Jingsong Zhang, Shaoyan Sun, Xin Zhou, Tao Zeng, Luonan Chen. Nucleic Acids Res 2017
Xiangtian Yu, Jingsong Zhang, Shaoyan Sun, Xin Zhou, Tao Zeng, Luonan Chen. Nucleic Acids Res 2017
57
Quantifying critical states of complex diseases using single-sample dynamic network biomarkers.
Xiaoping Liu, Xiao Chang, Rui Liu, Xiangtian Yu, Luonan Chen, Kazuyuki Aihara. PLoS Comput Biol 2017
Xiaoping Liu, Xiao Chang, Rui Liu, Xiangtian Yu, Luonan Chen, Kazuyuki Aihara. PLoS Comput Biol 2017
45
Dynamic network biomarker indicates pulmonary metastasis at the tipping point of hepatocellular carcinoma.
Biwei Yang, Meiyi Li, Wenqing Tang, Weixin Liu, Si Zhang, Luonan Chen, Jinglin Xia. Nat Commun 2018
Biwei Yang, Meiyi Li, Wenqing Tang, Weixin Liu, Si Zhang, Luonan Chen, Jinglin Xia. Nat Commun 2018
22
Early diagnosis of complex diseases by molecular biomarkers, network biomarkers, and dynamical network biomarkers.
Rui Liu, Xiangdong Wang, Kazuyuki Aihara, Luonan Chen. Med Res Rev 2014
Rui Liu, Xiangdong Wang, Kazuyuki Aihara, Luonan Chen. Med Res Rev 2014
15
Part mutual information for quantifying direct associations in networks.
Juan Zhao, Yiwei Zhou, Xiujun Zhang, Luonan Chen. Proc Natl Acad Sci U S A 2016
Juan Zhao, Yiwei Zhou, Xiujun Zhang, Luonan Chen. Proc Natl Acad Sci U S A 2016
17
Dysfunction of PLA2G6 and CYP2C44-associated network signals imminent carcinogenesis from chronic inflammation to hepatocellular carcinoma.
Meiyi Li, Chen Li, Wei-Xin Liu, Conghui Liu, Jingru Cui, Qingrun Li, Hong Ni, Yingcheng Yang, Chaochao Wu, Chunlei Chen,[...]. J Mol Cell Biol 2017
Meiyi Li, Chen Li, Wei-Xin Liu, Conghui Liu, Jingru Cui, Qingrun Li, Hong Ni, Yingcheng Yang, Chaochao Wu, Chunlei Chen,[...]. J Mol Cell Biol 2017
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Network medicine: a network-based approach to human disease.
Albert-László Barabási, Natali Gulbahce, Joseph Loscalzo. Nat Rev Genet 2011
Albert-László Barabási, Natali Gulbahce, Joseph Loscalzo. Nat Rev Genet 2011
14
Hunt for the tipping point during endocrine resistance process in breast cancer by dynamic network biomarkers.
Rui Liu, Jinzeng Wang, Masao Ukai, Ki Sewon, Pei Chen, Yutaka Suzuki, Haiyun Wang, Kazuyuki Aihara, Mariko Okada-Hatakeyama, Luonan Chen. J Mol Cell Biol 2019
Rui Liu, Jinzeng Wang, Masao Ukai, Ki Sewon, Pei Chen, Yutaka Suzuki, Haiyun Wang, Kazuyuki Aihara, Mariko Okada-Hatakeyama, Luonan Chen. J Mol Cell Biol 2019
43
Estimating Sample-Specific Regulatory Networks.
Marieke Lydia Kuijjer, Matthew George Tung, GuoCheng Yuan, John Quackenbush, Kimberly Glass. iScience 2019
Marieke Lydia Kuijjer, Matthew George Tung, GuoCheng Yuan, John Quackenbush, Kimberly Glass. iScience 2019
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WGCNA: an R package for weighted correlation network analysis.
Peter Langfelder, Steve Horvath. BMC Bioinformatics 2008
Peter Langfelder, Steve Horvath. BMC Bioinformatics 2008
13
Discovering personalized driver mutation profiles of single samples in cancer by network control strategy.
Wei-Feng Guo, Shao-Wu Zhang, Li-Li Liu, Fei Liu, Qian-Qian Shi, Lei Zhang, Ying Tang, Tao Zeng, Luonan Chen. Bioinformatics 2018
Wei-Feng Guo, Shao-Wu Zhang, Li-Li Liu, Fei Liu, Qian-Qian Shi, Lei Zhang, Ying Tang, Tao Zeng, Luonan Chen. Bioinformatics 2018
36
Pan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes.
Mark D M Leiserson, Fabio Vandin, Hsin-Ta Wu, Jason R Dobson, Jonathan V Eldridge, Jacob L Thomas, Alexandra Papoutsaki, Younhun Kim, Beifang Niu, Michael McLellan,[...]. Nat Genet 2015
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A census of human cancer genes.
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EdgeMarker: Identifying differentially correlated molecule pairs as edge-biomarkers.
Wanwei Zhang, Tao Zeng, Luonan Chen. J Theor Biol 2014
Wanwei Zhang, Tao Zeng, Luonan Chen. J Theor Biol 2014
23
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
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Cell-specific network constructed by single-cell RNA sequencing data.
Hao Dai, Lin Li, Tao Zeng, Luonan Chen. Nucleic Acids Res 2019
Hao Dai, Lin Li, Tao Zeng, Luonan Chen. Nucleic Acids Res 2019
26
Big-data-based edge biomarkers: study on dynamical drug sensitivity and resistance in individuals.
Tao Zeng, Wanwei Zhang, Xiangtian Yu, Xiaoping Liu, Meiyi Li, Luonan Chen. Brief Bioinform 2016
Tao Zeng, Wanwei Zhang, Xiangtian Yu, Xiaoping Liu, Meiyi Li, Luonan Chen. Brief Bioinform 2016
32
Mutual exclusivity analysis identifies oncogenic network modules.
Giovanni Ciriello, Ethan Cerami, Chris Sander, Nikolaus Schultz. Genome Res 2012
Giovanni Ciriello, Ethan Cerami, Chris Sander, Nikolaus Schultz. Genome Res 2012
9
DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer.
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9
The Cancer Genome Atlas Pan-Cancer analysis project.
John N Weinstein, Eric A Collisson, Gordon B Mills, Kenna R Mills Shaw, Brad A Ozenberger, Kyle Ellrott, Ilya Shmulevich, Chris Sander, Joshua M Stuart. Nat Genet 2013
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9
Identifying critical transitions and their leading biomolecular networks in complex diseases.
Rui Liu, Meiyi Li, Zhi-Ping Liu, Jiarui Wu, Luonan Chen, Kazuyuki Aihara. Sci Rep 2012
Rui Liu, Meiyi Li, Zhi-Ping Liu, Jiarui Wu, Luonan Chen, Kazuyuki Aihara. Sci Rep 2012
10
Cancer genome landscapes.
Bert Vogelstein, Nickolas Papadopoulos, Victor E Velculescu, Shibin Zhou, Luis A Diaz, Kenneth W Kinzler. Science 2013
Bert Vogelstein, Nickolas Papadopoulos, Victor E Velculescu, Shibin Zhou, Luis A Diaz, Kenneth W Kinzler. Science 2013
8
Cytoscape: a software environment for integrated models of biomolecular interaction networks.
Paul Shannon, Andrew Markiel, Owen Ozier, Nitin S Baliga, Jonathan T Wang, Daniel Ramage, Nada Amin, Benno Schwikowski, Trey Ideker. Genome Res 2003
Paul Shannon, Andrew Markiel, Owen Ozier, Nitin S Baliga, Jonathan T Wang, Daniel Ramage, Nada Amin, Benno Schwikowski, Trey Ideker. Genome Res 2003
8
Controllability of complex networks.
Yang-Yu Liu, Jean-Jacques Slotine, Albert-László Barabási. Nature 2011
Yang-Yu Liu, Jean-Jacques Slotine, Albert-László Barabási. Nature 2011
8
A human functional protein interaction network and its application to cancer data analysis.
Guanming Wu, Xin Feng, Lincoln Stein. Genome Biol 2010
Guanming Wu, Xin Feng, Lincoln Stein. Genome Biol 2010
8
Reactome: a database of reactions, pathways and biological processes.
David Croft, Gavin O'Kelly, Guanming Wu, Robin Haw, Marc Gillespie, Lisa Matthews, Michael Caudy, Phani Garapati, Gopal Gopinath, Bijay Jassal,[...]. Nucleic Acids Res 2011
David Croft, Gavin O'Kelly, Guanming Wu, Robin Haw, Marc Gillespie, Lisa Matthews, Michael Caudy, Phani Garapati, Gopal Gopinath, Bijay Jassal,[...]. Nucleic Acids Res 2011
8
Detection for disease tipping points by landscape dynamic network biomarkers.
Xiaoping Liu, Xiao Chang, Siyang Leng, Hui Tang, Kazuyuki Aihara, Luonan Chen. Natl Sci Rev 2019
Xiaoping Liu, Xiao Chang, Siyang Leng, Hui Tang, Kazuyuki Aihara, Luonan Chen. Natl Sci Rev 2019
47
7
Controllability analysis of the directed human protein interaction network identifies disease genes and drug targets.
Arunachalam Vinayagam, Travis E Gibson, Ho-Joon Lee, Bahar Yilmazel, Charles Roesel, Yanhui Hu, Young Kwon, Amitabh Sharma, Yang-Yu Liu, Norbert Perrimon,[...]. Proc Natl Acad Sci U S A 2016
Arunachalam Vinayagam, Travis E Gibson, Ho-Joon Lee, Bahar Yilmazel, Charles Roesel, Yanhui Hu, Young Kwon, Amitabh Sharma, Yang-Yu Liu, Norbert Perrimon,[...]. Proc Natl Acad Sci U S A 2016
7
Enrichment or depletion of a GO category within a class of genes: which test?
Isabelle Rivals, Léon Personnaz, Lieng Taing, Marie-Claude Potier. Bioinformatics 2007
Isabelle Rivals, Léon Personnaz, Lieng Taing, Marie-Claude Potier. Bioinformatics 2007
7
PID: the Pathway Interaction Database.
Carl F Schaefer, Kira Anthony, Shiva Krupa, Jeffrey Buchoff, Matthew Day, Timo Hannay, Kenneth H Buetow. Nucleic Acids Res 2009
Carl F Schaefer, Kira Anthony, Shiva Krupa, Jeffrey Buchoff, Matthew Day, Timo Hannay, Kenneth H Buetow. Nucleic Acids Res 2009
7
Identifying disease genes and module biomarkers by differential interactions.
Xiaoping Liu, Zhi-Ping Liu, Xing-Ming Zhao, Luonan Chen. J Am Med Inform Assoc 2012
Xiaoping Liu, Zhi-Ping Liu, Xing-Ming Zhao, Luonan Chen. J Am Med Inform Assoc 2012
9
Identifying critical transitions of complex diseases based on a single sample.
Rui Liu, Xiangtian Yu, Xiaoping Liu, Dong Xu, Kazuyuki Aihara, Luonan Chen. Bioinformatics 2014
Rui Liu, Xiangtian Yu, Xiaoping Liu, Dong Xu, Kazuyuki Aihara, Luonan Chen. Bioinformatics 2014
14
Dynamic versus static biomarkers in cancer immune checkpoint blockade: unravelling complexity.
W Joost Lesterhuis, Anthony Bosco, Michael J Millward, Michael Small, Anna K Nowak, Richard A Lake. Nat Rev Drug Discov 2017
W Joost Lesterhuis, Anthony Bosco, Michael J Millward, Michael Small, Anna K Nowak, Richard A Lake. Nat Rev Drug Discov 2017
7
Conditional mutual inclusive information enables accurate quantification of associations in gene regulatory networks.
Xiujun Zhang, Juan Zhao, Jin-Kao Hao, Xing-Ming Zhao, Luonan Chen. Nucleic Acids Res 2015
Xiujun Zhang, Juan Zhao, Jin-Kao Hao, Xing-Ming Zhao, Luonan Chen. Nucleic Acids Res 2015
9
Detecting tissue-specific early warning signals for complex diseases based on dynamical network biomarkers: study of type 2 diabetes by cross-tissue analysis.
Meiyi Li, Tao Zeng, Rui Liu, Luonan Chen. Brief Bioinform 2014
Meiyi Li, Tao Zeng, Rui Liu, Luonan Chen. Brief Bioinform 2014
8
Patient-specific driver gene prediction and risk assessment through integrated network analysis of cancer omics profiles.
Denis Bertrand, Kern Rei Chng, Faranak Ghazi Sherbaf, Anja Kiesel, Burton K H Chia, Yee Yen Sia, Sharon K Huang, Dave S B Hoon, Edison T Liu, Axel Hillmer,[...]. Nucleic Acids Res 2015
Denis Bertrand, Kern Rei Chng, Faranak Ghazi Sherbaf, Anja Kiesel, Burton K H Chia, Yee Yen Sia, Sharon K Huang, Dave S B Hoon, Edison T Liu, Axel Hillmer,[...]. Nucleic Acids Res 2015
9
Edge biomarkers for classification and prediction of phenotypes.
Tao Zeng, WanWei Zhang, XiangTian Yu, XiaoPing Liu, MeiYi Li, Rui Liu, LuoNan Chen. Sci China Life Sci 2014
Tao Zeng, WanWei Zhang, XiangTian Yu, XiaoPing Liu, MeiYi Li, Rui Liu, LuoNan Chen. Sci China Life Sci 2014
28
Similarity network fusion for aggregating data types on a genomic scale.
Bo Wang, Aziz M Mezlini, Feyyaz Demir, Marc Fiume, Zhuowen Tu, Michael Brudno, Benjamin Haibe-Kains, Anna Goldenberg. Nat Methods 2014
Bo Wang, Aziz M Mezlini, Feyyaz Demir, Marc Fiume, Zhuowen Tu, Michael Brudno, Benjamin Haibe-Kains, Anna Goldenberg. Nat Methods 2014
6
KEGG for integration and interpretation of large-scale molecular data sets.
Minoru Kanehisa, Susumu Goto, Yoko Sato, Miho Furumichi, Mao Tanabe. Nucleic Acids Res 2012
Minoru Kanehisa, Susumu Goto, Yoko Sato, Miho Furumichi, Mao Tanabe. Nucleic Acids Res 2012
6
Identifying early-warning signals of critical transitions with strong noise by dynamical network markers.
Rui Liu, Pei Chen, Kazuyuki Aihara, Luonan Chen. Sci Rep 2015
Rui Liu, Pei Chen, Kazuyuki Aihara, Luonan Chen. Sci Rep 2015
14
Functional impact bias reveals cancer drivers.
Abel Gonzalez-Perez, Nuria Lopez-Bigas. Nucleic Acids Res 2012
Abel Gonzalez-Perez, Nuria Lopez-Bigas. Nucleic Acids Res 2012
6
OncodriveCLUST: exploiting the positional clustering of somatic mutations to identify cancer genes.
David Tamborero, Abel Gonzalez-Perez, Nuria Lopez-Bigas. Bioinformatics 2013
David Tamborero, Abel Gonzalez-Perez, Nuria Lopez-Bigas. Bioinformatics 2013
6
Mutational heterogeneity in cancer and the search for new cancer-associated genes.
Michael S Lawrence, Petar Stojanov, Paz Polak, Gregory V Kryukov, Kristian Cibulskis, Andrey Sivachenko, Scott L Carter, Chip Stewart, Craig H Mermel, Steven A Roberts,[...]. Nature 2013
Michael S Lawrence, Petar Stojanov, Paz Polak, Gregory V Kryukov, Kristian Cibulskis, Andrey Sivachenko, Scott L Carter, Chip Stewart, Craig H Mermel, Steven A Roberts,[...]. Nature 2013
6
Network biology: understanding the cell's functional organization.
Albert-László Barabási, Zoltán N Oltvai. Nat Rev Genet 2004
Albert-László Barabási, Zoltán N Oltvai. Nat Rev Genet 2004
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Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
6
ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking.
Matthew D Wilkerson, D Neil Hayes. Bioinformatics 2010
Matthew D Wilkerson, D Neil Hayes. Bioinformatics 2010
6
Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.