Predicting Long Noncoding RNA and Protein Interactions Using Heterogeneous Network Model

A global view of network of lncRNAs and their binding proteins

(2015) Desi Shang et al.   Molecular BioSystems

The Role of Long Noncoding RNAs in the Epigenetic Control of Gene Expression

(2014) Mariangela Morlando et al.   ChemMedChem

Predicting Essential Proteins Based on Weighted Degree Centrality

(2014) Xiwei Tang et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Effective identification of essential proteins based on priori knowledge, network topology and gene expressions

(2014) Min Li et al.   METHODS

Increased expression of long intergenic non-coding RNA LINC00152 in gastric cancer and its clinical significance

(2014) Qianqian Pang et al.   TUMOR BIOLOGY

Computational prediction of associations between long non-coding RNAs and proteins

(2013) Qiongshi Lu et al.   BMC GENOMICS

starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein–RNA interaction networks from large-scale CLIP-Seq data

(2013) Jun-Hao Li et al.   NUCLEIC ACIDS RESEARCH

NPInter v2.0: an updated database of ncRNA interactions

(2013) Jiao Yuan et al.   NUCLEIC ACIDS RESEARCH

NONCODEv4: exploring the world of long non-coding RNA genes

(2013) Chaoyong Xie et al.   NUCLEIC ACIDS RESEARCH

Function of lncRNAs and approaches to lncRNA-protein interactions

(2013) JuanJuan Zhu et al.   Science China-Life Sciences

A new essential protein discovery method based on the integration of protein-protein interaction and gene expression data

(2012) Min Li et al.   BMC Systems Biology

Drug–target interaction prediction by random walk on the heterogeneous network

(2012) Xing Chen et al.   Molecular BioSystems

Nuclear Matrix Factor hnRNP U/SAF-A Exerts a Global Control of Alternative Splicing by Regulating U2 snRNP Maturation

(2012) Rui Xiao et al.   MOLECULAR CELL

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

(2012) Andrea Franceschini et al.   NUCLEIC ACIDS RESEARCH

Predicting RNA-Protein Interactions Using Only Sequence Information

(2011) Usha K Muppirala et al.   BMC BIOINFORMATICS

Deciphering the role of RNA-binding proteins in the post-transcriptional control of gene expression

(2011) S. Kishore et al.   Briefings in Functional Genomics

Bioinformatics Tools and Novel Challenges in Long Non-Coding RNAs (lncRNAs) Functional Analysis

(2011) Letizia Da Sacco et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

Predicting protein associations with long noncoding RNAs

(2011) Matteo Bellucci et al.   NATURE METHODS

RNA–protein interactions in human health and disease

(2011) Ahmad M. Khalil et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Long noncoding RNAs and human disease

(2011) Orly Wapinski et al.   TRENDS IN CELL BIOLOGY

Genome-wide inferring gene–phenotype relationship by walking on the heterogeneous network

(2010) Yongjin Li et al.   BIOINFORMATICS

Correlation and quantitation of microRNA aberrant expression in tissues and sera from patients with breast tumor

(2010) Fengjun Wang et al.   GYNECOLOGIC ONCOLOGY

Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis

(2010) Rajnish A. Gupta et al.   NATURE

Integrative Modeling Defines the Nova Splicing-Regulatory Network and Its Combinatorial Controls

(2010) C. Zhang et al.   SCIENCE

Associating Genes and Protein Complexes with Disease via Network Propagation

(2010) Oron Vanunu et al.   PLoS Computational Biology

Evolution and Functions of Long Noncoding RNAs

(2009) Chris P. Ponting et al.   CELL

Non-coding RNAs: regulators of disease

(2009) Ryan J Taft et al.   JOURNAL OF PATHOLOGY

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

Long non-coding RNAs: insights into functions

(2009) Tim R. Mercer et al.   NATURE REVIEWS GENETICS

Walking the Interactome for Prioritization of Candidate Disease Genes

(2008) Sebastian Köhler et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Characterization of microRNAs in serum: a novel class of biomarkers for diagnosis of cancer and other diseases

(2008) Xi Chen et al.   CELL RESEARCH

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS