SubLocEP: a novel ensemble predictor of subcellular localization of eukaryotic mRNA based on machine learning

Network-based prediction of drug–target interactions using an arbitrary-order proximity embedded deep forest

(2020) Xiangxiang Zeng et al.   BIOINFORMATICS

StackCPPred: A Stacking and Pairwise Energy Content-based Prediction of Cell-Penetrating Peptides and Their Uptake Efficiency

(2020) Xiangzheng Fu et al.   BIOINFORMATICS

iMRM:a platform for simultaneously identifying multiple kinds of RNA modifications

(2020) Kewei Liu et al.   BIOINFORMATICS

Identification of Highest-Affinity Binding Sites of Yeast Transcription Factor Families

(2020) Zongyu Wang et al.   Journal of Chemical Information and Modeling

Application of deep learning methods in biological networks

(2020) Shuting Jin et al.   BRIEFINGS IN BIOINFORMATICS

mRNALoc: a novel machine-learning based in-silico tool to predict mRNA subcellular localization

(2020) Anjali Garg et al.   NUCLEIC ACIDS RESEARCH

k-Skip-n-Gram-RF: A Random Forest Based Method for Alzheimer's Disease Protein Identification

(2019) Lei Xu et al.   Frontiers in Genetics

deepDR: A network-based deep learning approach to in silico drug repositioning

(2019) Xiangxiang Zeng et al.   BIOINFORMATICS

LightCpG: a multi-view CpG sites detection on single-cell whole genome sequence data

(2019) Limin Jiang et al.   BMC GENOMICS

DUNet: A deformable network for retinal vessel segmentation

(2019) Qiangguo Jin et al.   KNOWLEDGE-BASED SYSTEMS

LncRRIsearch: A Web Server for lncRNA-RNA Interaction Prediction Integrated With Tissue-Specific Expression and Subcellular Localization Data

(2019) Tsukasa Fukunaga et al.   Frontiers in Genetics

Prediction of mRNA subcellular localization using deep recurrent neural networks

(2019) Zichao Yan et al.   BIOINFORMATICS

Critical evaluation of web-based prediction tools for human protein subcellular localization

(2019) Yinan Shen et al.   BRIEFINGS IN BIOINFORMATICS

A comparison and assessment of computational method for identifying recombination hotspots in Saccharomyces cerevisiae

(2019) Hui Yang et al.   BRIEFINGS IN BIOINFORMATICS

Prediction of CYP450 Enzyme–Substrate Selectivity Based on the Network-Based Label Space Division Method

(2019) Xiaoqi Shan et al.   Journal of Chemical Information and Modeling

iATP: A sequence based method for identifying anti-tubercular peptides

(2019) Wei Chen et al.   Medicinal Chemistry

DTI-CDF: a cascade deep forest model towards the prediction of drug-target interactions based on hybrid features

(2019) Yanyi Chu et al.   BRIEFINGS IN BIOINFORMATICS

Identification of membrane protein types via multivariate information fusion with Hilbert–Schmidt Independence Criterion

(2019) Hao Wang et al.   NEUROCOMPUTING

iRNA-m7G: Identifying N7-methylguanosine Sites by Fusing Multiple Features

(2019) Wei Chen et al.   Molecular Therapy-Nucleic Acids

The lncLocator: a subcellular localization predictor for long non-coding RNAs based on a stacked ensemble classifier

(2018) Zhen Cao et al.   BIOINFORMATICS

pLoc_bal-mAnimal: predict subcellular localization of animal proteins by balancing training dataset and PseAAC

(2018) Xiang Cheng et al.   BIOINFORMATICS

SeqSVM: A Sequence-Based Support Vector Machine Method for Identifying Antioxidant Proteins

(2018) Lei Xu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Integration of deep feature representations and handcrafted features to improve the prediction of N 6 -methyladenosine sites

(2018) Leyi Wei et al.   NEUROCOMPUTING

A Novel Hybrid Sequence-Based Model for Identifying Anticancer Peptides

(2018) Lei Xu et al.   Genes

M6APred-EL: A sequence-based predictor for identifying N6-methyladenosine sites using ensemble learning

(2018) Leyi Wei et al.   Molecular Therapy-Nucleic Acids

iTerm-PseKNC: a sequence-based tool for predicting bacterial transcriptional terminators

(2018) Chao-Qin Feng et al.   BIOINFORMATICS

PseUI: Pseudouridine sites identification based on RNA sequence information

(2018) Jingjing He et al.   BMC BIOINFORMATICS

Developing a Multi-Dose Computational Model for Drug-induced Hepatotoxicity Prediction based on Toxicogenomics Data

(2018) Ran Su et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

DeepT3: deep convolutional neural networks accurately identify Gram-negative bacterial type III secreted effectors using the N-terminal sequence

(2018) Li Xue et al.   BIOINFORMATICS

Identify origin of replication in Saccharomyces cerevisiae using two-step feature selection technique

(2018) Fu-Ying Dao et al.   BIOINFORMATICS

pLoc_bal-mEuk: predict subcellular localization of eukaryotic proteins by general PseAAC and quasi-balancing training dataset

(2018) Kuo-Chen Chou et al.   Medicinal Chemistry

An Efficient Classifier for Alzheimer’s Disease Genes Identification

(2018) Lei Xu et al.   MOLECULES

Identification of drug-side effect association via multiple information integration with centered kernel alignment

(2018) Yijie Ding et al.   NEUROCOMPUTING

PredT4SE-Stack: Prediction of Bacterial Type IV Secreted Effectors From Protein Sequences Using a Stacked Ensemble Method

(2018) Yi Xiong et al.   Frontiers in Microbiology

Identification of protein subcellular localization via integrating evolutionary and physicochemical information into Chou’s general PseAAC

(2018) Yinan Shen et al.   JOURNAL OF THEORETICAL BIOLOGY

Prediction and Validation of Disease Genes Using HeteSim Scores

(2017) Xiangxiang Zeng et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

CeFra-seq reveals broad asymmetric mRNA and noncoding RNA distribution profiles in Drosophila and human cells

(2017) Louis Philip Benoit Bouvrette et al.   RNA

Ensemble Linear Neighborhood Propagation for Predicting Subchloroplast Localization of Multi-Location Proteins

(2016) Shibiao Wan et al.   JOURNAL OF PROTEOME RESEARCH

Multi-location gram-positive and gram-negative bacterial protein subcellular localization using gene ontology and multi-label classifier ensemble

(2015) Xiao Wang et al.   BMC BIOINFORMATICS

Pse-in-One: a web server for generating various modes of pseudo components of DNA, RNA, and protein sequences

(2015) Bin Liu et al.   NUCLEIC ACIDS RESEARCH

HybridGO-Loc: Mining Hybrid Features on Gene Ontology for Predicting Subcellular Localization of Multi-Location Proteins

(2014) Shibiao Wan et al.   PLoS One

A novel insight into Gene Ontology semantic similarity

(2013) Yungang Xu et al.   GENOMICS

mGOASVM: Multi-label protein subcellular localization based on gene ontology and support vector machines

(2012) Shibiao Wan et al.   BMC BIOINFORMATICS

Axonal mRNA localization and local protein synthesis in nervous system assembly, maintenance and repair

(2012) Hosung Jung et al.   NATURE REVIEWS NEUROSCIENCE

mRNA Localization: Gene Expression in the Spatial Dimension

(2009) Kelsey C. Martin et al.   CELL

RNA and Disease

(2009) Thomas A. Cooper et al.   CELL