Novel link prediction for large-scale miRNA-lncRNA interaction network in a bipartite graph

Inferring Interactions between Novel Drugs and Novel Targets via Instance-Neighborhood-Based Models

(2018) Jian-Yu Shi et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

A Systematic Prediction of Drug-Target Interactions Using Molecular Fingerprints and Protein Sequences

(2018) Yu-an Huang et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Prediction of microbe–disease association from the integration of neighbor and graph with collaborative recommendation model

(2017) Yu-An Huang et al.   Journal of Translational Medicine

LRLSHMDA: Laplacian Regularized Least Squares for Human Microbe–Disease Association prediction

(2017) Fan Wang et al.   Scientific Reports

Predicting existing targets for new drugs base on strategies for missing interactions

(2016) Jian-Yu Shi et al.   BMC BIOINFORMATICS

Improved protein-protein interactions prediction via weighted sparse representation model combining continuous wavelet descriptor and PseAA composition

(2016) Yu-An Huang et al.   BMC Systems Biology

lncRNA/MicroRNA interactions in the vasculature

(2016) MD Ballantyne et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

Unique features of long non-coding RNA biogenesis and function

(2016) Jeffrey J. Quinn et al.   NATURE REVIEWS GENETICS

Construction of reliable protein–protein interaction networks using weighted sparse representation based classifier with pseudo substitution matrix representation features

(2016) Yu-An Huang et al.   NEUROCOMPUTING

PTEN ceRNA networks in human cancer

(2015) Laura Poliseno et al.   METHODS

Predicting drug–target interaction for new drugs using enhanced similarity measures and super-target clustering

(2015) Jian-Yu Shi et al.   METHODS

miRTarBase 2016: updates to the experimentally validated miRNA-target interactions database

(2015) Chih-Hung Chou et al.   NUCLEIC ACIDS RESEARCH

LncRNA: A link between RNA and cancer

(2014) Guodong Yang et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

LncTar: a tool for predicting the RNA targets of long noncoding RNAs

(2014) Jianwei Li et al.   BRIEFINGS IN BIOINFORMATICS

lncRNASNP: a database of SNPs in lncRNAs and their potential functions in human and mouse

(2014) Jing Gong et al.   NUCLEIC ACIDS RESEARCH

Functional interactions among microRNAs and long noncoding RNAs

(2014) Je-Hyun Yoon et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Long noncoding RNA associated-competing endogenous RNAs in gastric cancer

(2014) Tian Xia et al.   Scientific Reports

miRBase: annotating high confidence microRNAs using deep sequencing data

(2013) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

Deciphering the rules of ceRNA networks

(2013) M. Cesana et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Integrated transcriptional and competitive endogenous RNA networks are cross-regulated in permissive molecular environments

(2013) U. Ala et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

LNCipedia: a database for annotated human lncRNA transcript sequences and structures

(2012) Pieter-Jan Volders et al.   NUCLEIC ACIDS RESEARCH

Long non-coding RNAs function annotation: a global prediction method based on bi-colored networks

(2012) Xingli Guo et al.   NUCLEIC ACIDS RESEARCH

A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language?

(2011) Leonardo Salmena et al.   CELL

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

(2011) M. N. Cabili et al.   GENES & DEVELOPMENT

MicroRNAs can generate thresholds in target gene expression

(2011) Shankar Mukherji et al.   NATURE GENETICS

NONCODE v3.0: integrative annotation of long noncoding RNAs

(2011) D. Bu et al.   NUCLEIC ACIDS RESEARCH

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

Small RNAs establish gene expression thresholds

(2008) Erel Levine et al.   CURRENT OPINION IN MICROBIOLOGY

Molecular Titration and Ultrasensitivity in Regulatory Networks

(2008) Nicolas E. Buchler et al.   JOURNAL OF MOLECULAR BIOLOGY