Predicting the potential human lncRNA–miRNA interactions based on graph convolution network with conditional random field

Mosaic composition of RIP1–RIP3 signalling hub and its role in regulating cell death

(2022) Xin Chen et al.   NATURE CELL BIOLOGY

A deep learning method for predicting metabolite–disease associations via graph neural network

(2022) Feiyue Sun et al.   BRIEFINGS IN BIOINFORMATICS

A merged molecular representation deep learning method for blood–brain barrier permeability prediction

(2022) Qiang Tang et al.   BRIEFINGS IN BIOINFORMATICS

RIP1-dependent linear and nonlinear recruitments of caspase-8 and RIP3 respectively to necrosome specify distinct cell death outcomes

(2021) Xiang Li et al.   Protein & Cell

Multi-dimensional data integration algorithm based on random walk with restart

(2021) Yuqi Wen et al.   BMC BIOINFORMATICS

Multi-view Multichannel Attention Graph Convolutional Network for miRNA–disease association prediction

(2021) Xinru Tang et al.   BRIEFINGS IN BIOINFORMATICS

Circular RNAs and complex diseases: from experimental results to computational models

(2021) Chun-Chun Wang et al.   BRIEFINGS IN BIOINFORMATICS

GCRFLDA: scoring lncRNA-disease associations using graph convolution matrix completion with conditional random field

(2021) Yongxian Fan et al.   BRIEFINGS IN BIOINFORMATICS

Using Network Distance Analysis to Predict lncRNA–miRNA Interactions

(2021) Li Zhang et al.   Interdisciplinary Sciences-Computational Life Sciences

preMLI: a pre-trained method to uncover microRNA–lncRNA potential interactions

(2021) Xinyu Yu et al.   BRIEFINGS IN BIOINFORMATICS

Mining plant endogenous target mimics from miRNA–lncRNA interactions based on dual-path parallel ensemble pruning method

(2021) Qiang Kang et al.   BRIEFINGS IN BIOINFORMATICS

PmliPred: a method based on hybrid model and fuzzy decision for plant miRNA–lncRNA interaction prediction

(2020) Qiang Kang et al.   BIOINFORMATICS

NCResNet: Noncoding Ribonucleic Acid Prediction Based on a Deep Resident Network of Ribonucleic Acid Sequences

(2020) Sen Yang et al.   Frontiers in Genetics

Predicting Human Microbe-Drug Associations via Graph Convolutional Network with Conditional Random Field

(2020) Yahui Long et al.   BIOINFORMATICS

RWR-algorithm-based dissection of microRNA-506-3p and microRNA-140-5p as radiosensitive biomarkers in colorectal cancer

(2020) Fei Liao et al.   Aging-US

Deep-belief network for predicting potential miRNA-disease associations

(2020) Xing Chen et al.   BRIEFINGS IN BIOINFORMATICS

Predicting drug–disease associations through layer attention graph convolutional network

(2020) Zhouxin Yu et al.   BRIEFINGS IN BIOINFORMATICS

LncMirNet: Predicting LncRNA–miRNA Interaction Based on Deep Learning of Ribonucleic Acid Sequences

(2020) Sen Yang et al.   MOLECULES

Graph embedding ensemble methods based on the heterogeneous network for lncRNA-miRNA interaction prediction

(2020) Chengshuai Zhao et al.   BMC GENOMICS

GENCODE 2021

(2020) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

Levenshtein Distance, Sequence Comparison and Biological Database Search

(2020) Bonnie Berger et al.   IEEE TRANSACTIONS ON INFORMATION THEORY

Ensemble of decision tree reveals potential miRNA-disease associations

(2019) Xing Chen et al.   PLoS Computational Biology

Predicting lncRNA-miRNA Interaction via Graph Convolution Auto-Encoder

(2019) Yu-An Huang et al.   Frontiers in Genetics

Integrating Bipartite Network Projection and KATZ Measure to Identify Novel CircRNA-Disease Associations

(2019) Qi Zhao et al.   IEEE TRANSACTIONS ON NANOBIOSCIENCE

LncRNA-miRNA interaction prediction through sequence-derived linear neighborhood propagation method with information combination

(2019) Wen Zhang et al.   BMC GENOMICS

NCMCMDA: miRNA–disease association prediction through neighborhood constraint matrix completion

(2019) Xing Chen et al.   BRIEFINGS IN BIOINFORMATICS

Learning Multimodal Networks From Heterogeneous Data for Prediction of lncRNA–miRNA Interactions

(2019) Pengwei Hu et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

The Function and Mechanism of Long Non-coding RNA-ATB in Cancers

(2018) Huizhong Xiao et al.   Frontiers in Physiology

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

(2018) Zhi-An Huang et al.   BMC Medical Genomics

miRBase: from microRNA sequences to function

(2018) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

lncRNASNP2: an updated database of functional SNPs and mutations in human and mouse lncRNAs

(2017) Ya-Ru Miao et al.   NUCLEIC ACIDS RESEARCH

LncRNA-mediated regulation of cell signaling in cancer

(2017) W-X Peng et al.   ONCOGENE

LncRNA AFAP1-AS1 promotes growth and metastasis of cholangiocarcinoma cells

(2017) Xiuhui Shi et al.   Oncotarget

Long Noncoding RNAs Regulate Cell Growth, Proliferation, and Apoptosis

(2016) Jingqiu Li et al.   DNA AND CELL BIOLOGY

HGIMDA: Heterogeneous graph inference for miRNA-disease association prediction

(2016) Xing Chen et al.   Oncotarget

Analysis of the miRNA-mRNA-lncRNA networks in ER+ and ER− breast cancer cell lines

(2015) Qian Wu et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

Bioinformatics Method to Predict Two Regulation Mechanism: TF–miRNA–mRNA and lncRNA–miRNA–mRNA in Pancreatic Cancer

(2014) Song Ye et al.   CELL BIOCHEMISTRY AND BIOPHYSICS

Integrative Analysis of miRNA-mRNA and miRNA-miRNA Interactions

(2014) Li Guo et al.   Biomed Research International

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

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