A heterogeneous label propagation approach to explore the potential associations between miRNA and disease

[1]  Xing Chen,et al.  MicroRNAs and complex diseases: from experimental results to computational models , 2019, Briefings Bioinform..

[2]  Lei Wang,et al.  BNPMDA: Bipartite Network Projection for MiRNA–Disease Association prediction , 2018, Bioinform..

[3]  Xing Chen,et al.  MDHGI: Matrix Decomposition and Heterogeneous Graph Inference for miRNA-disease association prediction , 2018, PLoS Comput. Biol..

[4]  Na-Na Guan,et al.  Predicting miRNA‐disease association based on inductive matrix completion , 2018, Bioinform..

[5]  Yan Zhao,et al.  ELLPMDA: Ensemble learning and link prediction for miRNA-disease association prediction , 2018, RNA biology.

[6]  Xing Chen,et al.  EGBMMDA: Extreme Gradient Boosting Machine for MiRNA-Disease Association prediction , 2018, Cell Death & Disease.

[7]  Xing Chen,et al.  LRSSLMDA: Laplacian Regularized Sparse Subspace Learning for MiRNA-Disease Association prediction , 2017, PLoS Comput. Biol..

[8]  A. Jemal,et al.  Breast cancer statistics, 2017, racial disparity in mortality by state , 2017, CA: a cancer journal for clinicians.

[9]  Zhu-Hong You,et al.  A novel computational model based on super-disease and miRNA for potential miRNA-disease association prediction. , 2017, Molecular bioSystems.

[10]  Xing Chen,et al.  RKNNMDA: Ranking-based KNN for MiRNA-Disease Association prediction , 2017, RNA biology.

[11]  Edwin Wang,et al.  Network Analysis Reveals A Signaling Regulatory Loop in the PIK3CA-mutated Breast Cancer Predicting Survival Outcome , 2017, Genom. Proteom. Bioinform..

[12]  Xiaojun Chen,et al.  Large-scale prediction of microRNA-disease associations by combinatorial prioritization algorithm , 2017, Scientific Reports.

[13]  Xing Chen,et al.  PBMDA: A novel and effective path-based computational model for miRNA-disease association prediction , 2017, PLoS Comput. Biol..

[14]  Xing Chen,et al.  MCMDA: Matrix completion for MiRNA-disease association prediction , 2017, Oncotarget.

[15]  Nasser Ghadiri,et al.  Heter-LP: A heterogeneous label propagation algorithm and its application in drug repositioning , 2017, J. Biomed. Informatics.

[16]  Xing Chen,et al.  Long non-coding RNAs and complex diseases: from experimental results to computational models , 2016, Briefings Bioinform..

[17]  Dejia Li,et al.  The Novel miR-9600 Suppresses Tumor Progression and Promotes Paclitaxel Sensitivity in Non–small-cell Lung Cancer Through Altering STAT3 Expression , 2016, Molecular therapy. Nucleic acids.

[18]  Dejia Li,et al.  MicroRNA-346 facilitates cell growth and metastasis, and suppresses cell apoptosis in human non-small cell lung cancer by regulation of XPC/ERK/Snail/E-cadherin pathway , 2016, Aging.

[19]  Xing Chen,et al.  HGIMDA: Heterogeneous graph inference for miRNA-disease association prediction , 2016, Oncotarget.

[20]  Yongdong Zhang,et al.  Drug-target interaction prediction: databases, web servers and computational models , 2016, Briefings Bioinform..

[21]  Feng Zhang,et al.  Long non-coding RNA NEAT1 promotes non-small cell lung cancer progression through regulation of miR-377-3p-E2F3 pathway , 2016, Oncotarget.

[22]  C. Pasquier,et al.  Prediction of miRNA-disease associations with a vector space model , 2016, Scientific Reports.

[23]  Dejia Li,et al.  Integrative analysis of microRNA and mRNA expression profiles in non-small-cell lung cancer , 2016, Cancer Gene Therapy.

[24]  Qionghai Dai,et al.  WBSMDA: Within and Between Score for MiRNA-Disease Association prediction , 2016, Scientific Reports.

[25]  Jinfeng Zou,et al.  Identification and Construction of Combinatory Cancer Hallmark-Based Gene Signature Sets to Predict Recurrence and Chemotherapy Benefit in Stage II Colorectal Cancer. , 2016, JAMA oncology.

[26]  Qionghai Dai,et al.  RBMMMDA: predicting multiple types of disease-microRNA associations , 2015, Scientific Reports.

[27]  Xia Li,et al.  Prediction of potential disease-associated microRNAs based on random walk , 2015, Bioinform..

[28]  E. Wang,et al.  Predictive genomics: a cancer hallmark network framework for predicting tumor clinical phenotypes using genome sequencing data. , 2014, Seminars in cancer biology.

[29]  M. Berry.  Esophageal cancer: staging system and guidelines for staging and treatment. , 2014, Journal of thoracic disease.

[30]  Xing Chen,et al.  Semi-supervised learning for potential human microRNA-disease associations inference , 2014, Scientific Reports.

[31]  Qun Zhou,et al.  Downregulation of miR-140 promotes cancer stem cell formation in basal-like early stage breast cancer , 2014, Oncogene.

[32]  Hui Zhou,et al.  starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein–RNA interaction networks from large-scale CLIP-Seq data , 2013, Nucleic Acids Res..

[33]  Jan Gorodkin,et al.  Protein-driven inference of miRNA–disease associations , 2013, Bioinform..

[34]  Yang Li,et al.  HMDD v2.0: a database for experimentally supported human microRNA and disease associations , 2013, Nucleic Acids Res..

[35]  Xi Chen,et al.  mAPC-GibbsOS: an integrated approach for robust identification of gene regulatory networks , 2013, BMC Systems Biology.

[36]  Xing Chen,et al.  Novel human lncRNA-disease association inference based on lncRNA expression profiles , 2013, Bioinform..

[37]  Xia Li,et al.  Walking the interactome to identify human miRNA-disease associations through the functional link between miRNA targets and disease genes , 2013, BMC Systems Biology.

[38]  Mohammed Al-Shalalfa,et al.  Using context-specific effect of miRNAs to identify functional associations between miRNAs and gene signatures , 2013, BMC Bioinformatics.

[39]  Yufei Huang,et al.  Prediction of microRNAs Associated with Human Diseases Based on Weighted k Most Similar Neighbors , 2013, PloS one.

[40]  T. Zhao,et al.  Re‐expression of microRNA‐150 induces EBV‐positive Burkitt lymphoma differentiation by modulating c‐Myb in vitro , 2013, Cancer science.

[41]  A. Rice,et al.  miR-132 enhances HIV-1 replication. , 2013, Virology.

[42]  Xing Chen,et al.  LncRNADisease: a database for long-non-coding RNA-associated diseases , 2012, Nucleic Acids Res..

[43]  C. Mantri,et al.  Cocaine Enhances HIV-1 Replication in CD4+ T Cells by Down-Regulating MiR-125b , 2012, PloS one.

[44]  F. Kopp,et al.  miR-200c Sensitizes Breast Cancer Cells to Doxorubicin Treatment by Decreasing TrkB and Bmi1 Expression , 2012, PloS one.

[45]  Chen Chen,et al.  MicroRNAs in esophageal cancer (review). , 2012, Molecular medicine reports.

[46]  Xing Chen,et al.  RWRMDA: predicting novel human microRNA-disease associations. , 2012, Molecular bioSystems.

[47]  L. Staudt,et al.  Genome-wide miRNA profiling of mantle cell lymphoma reveals a distinct subgroup with poor prognosis. , 2012, Blood.

[48]  Harald J. Maier,et al.  FOXO1 is a tumor suppressor in classical Hodgkin lymphoma. , 2012, Blood.

[49]  T. Rohan,et al.  Hsa‐miR‐375 is differentially expressed during breast lobular neoplasia and promotes loss of mammary acinar polarity , 2012, The Journal of pathology.

[50]  Elena Marchiori,et al.  Gaussian interaction profile kernels for predicting drug-target interaction , 2011, Bioinform..

[51]  J. Haier,et al.  Chemotherapy-induced modification of microRNA expression in esophageal cancer. , 2011, Oncology reports.

[52]  Yun Xiao,et al.  Prioritizing Candidate Disease miRNAs by Topological Features in the miRNA Target–Dysregulated Network: Case Study of Prostate Cancer , 2011, Molecular Cancer Therapeutics.

[53]  H. Tagawa,et al.  The role of microRNA-150 as a tumor suppressor in malignant lymphoma , 2011, Leukemia.

[54]  Ana Kozomara,et al.  miRBase: integrating microRNA annotation and deep-sequencing data , 2010, Nucleic Acids Res..

[55]  Changning Liu,et al.  dbDEMC: a database of differentially expressed miRNAs in human cancers , 2010, BMC Genomics.

[56]  Dong Wang,et al.  Inferring the human microRNA functional similarity and functional network based on microRNA-associated diseases , 2010, Bioinform..

[57]  I. Pogribny,et al.  E‐cadherin transcriptional down‐regulation by epigenetic and microRNA‐200 family alterations is related to mesenchymal and drug‐resistant phenotypes in human breast cancer cells , 2010, International journal of cancer.

[58]  Yadong Wang,et al.  Prioritization of disease microRNAs through a human phenome-microRNAome network , 2010, BMC Systems Biology.

[59]  Ujjwal Maulik,et al.  Development of the human cancer microRNA network , 2010 .

[60]  Sandro Banfi,et al.  microRNAs and genetic diseases , 2009, PathoGenetics.

[61]  N. Lynam‐Lennon,et al.  The roles of microRNA in cancer and apoptosis , 2009, Biological reviews of the Cambridge Philosophical Society.

[62]  Peter Möller,et al.  Hodgkin lymphoma cell lines are characterized by a specific miRNA expression profile. , 2009, Neoplasia.

[63]  D. Bartel.  MicroRNAs: Target Recognition and Regulatory Functions , 2009, Cell.

[64]  Yadong Wang,et al.  miR2Disease: a manually curated database for microRNA deregulation in human disease , 2008, Nucleic Acids Res..

[65]  Q. Cui,et al.  An Analysis of Human MicroRNA and Disease Associations , 2008, PloS one.

[66]  J. Steitz,et al.  Switching from Repression to Activation: MicroRNAs Can Up-Regulate Translation , 2007, Science.

[67]  M. Latronico,et al.  Emerging role of microRNAs in cardiovascular biology. , 2007, Circulation research.

[68]  Yi-Cheng Zhang,et al.  Bipartite network projection and personal recommendation. , 2007, Physical review. E, Statistical, nonlinear, and soft matter physics.

[69]  E. Wiemer.  The role of microRNAs in cancer: no small matter. , 2007, European journal of cancer.

[70]  A. Barabasi,et al.  The human disease network , 2007, Proceedings of the National Academy of Sciences.

[71]  Q. Cui,et al.  Principles of microRNA regulation of a human cellular signaling network , 2006, Molecular systems biology.

[72]  Bassem A. Hassan,et al.  Gene prioritization through genomic data fusion , 2006, Nature Biotechnology.

[73]  F. Slack,et al.  Oncomirs — microRNAs with a role in cancer , 2006, Nature Reviews Cancer.

[74]  Juan Manuel Peralta,et al.  Linkage disequilibrium across two different single-nucleotide polymorphism genome scans , 2005, BMC Genetics.

[75]  Xantha Karp,et al.  Encountering MicroRNAs in Cell Fate Signaling , 2005, Science.

[76]  E. Miska,et al.  MicroRNA functions in animal development and human disease , 2005, Development.

[77]  E. Miska,et al.  How microRNAs control cell division, differentiation and death. , 2005, Current opinion in genetics & development.

[78]  P. Sarnow,et al.  Modulation of Hepatitis C Virus RNA Abundance by a Liver-Specific MicroRNA , 2005, Science.

[79]  P. Bork,et al.  G2D: a tool for mining genes associated with disease , 2005, BMC Genetics.

[80]  M. Byrom,et al.  Antisense inhibition of human miRNAs and indications for an involvement of miRNA in cell growth and apoptosis , 2005, Nucleic acids research.

[81]  Peizhang Xu,et al.  MicroRNAs and the regulation of cell death. , 2004, Trends in genetics : TIG.

[82]  V. Ambros.  The functions of animal microRNAs , 2004, Nature.

[83]  T. Tuschl,et al.  Mechanisms of gene silencing by double-stranded RNA , 2004, Nature.

[84]  D. Bartel.  MicroRNAs Genomics, Biogenesis, Mechanism, and Function , 2004, Cell.

[85]  P. Bork,et al.  Association of genes to genetically inherited diseases using data mining , 2002, Nature Genetics.

[86]  V. Ambros.  microRNAs Tiny Regulators with Great Potential , 2001, Cell.