A classification model for lncRNA and mRNA based on k-mers and a convolutional neural network

[1]  De-Shuang Huang,et al.  Weakly-Supervised Convolutional Neural Network Architecture for Predicting Protein-DNA Binding , 2020, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[2]  Haiying Li,et al.  Short-term passenger flow prediction under passenger flow control using a dynamic radial basis function network , 2019, Appl. Soft Comput..

[3]  De-Shuang Huang,et al.  High-Order Convolutional Neural Network Architecture for Predicting DNA-Protein Binding Sites , 2019, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[4]  Guohui Chuai,et al.  DeepCRISPR: optimized CRISPR guide RNA design by deep learning , 2018, Genome Biology.

[5]  Kuo-Chen Chou,et al.  An Unprecedented Revolution in Medicinal Chemistry Driven by the Progress of Biological Science. , 2017, Current topics in medicinal chemistry.

[6]  Bo Du,et al.  Air quality data clustering using EPLS method , 2017, Inf. Fusion.

[7]  De-shuang Huang,et al.  WSMD: weakly-supervised motif discovery in transcription factor ChIP-seq data , 2017, Scientific Reports.

[8]  Katerina Shamalov,et al.  A novel lncRNA, GASL1, inhibits cell proliferation and restricts E2F1 activity , 2017, Oncotarget.

[9]  K. Lindblad-Toh,et al.  FEELnc: a tool for long non-coding RNA annotation and its application to the dog transcriptome , 2017, Nucleic acids research.

[10]  Syed Mansoor Raza,et al.  A Review of Computational Methods for Finding Non-Coding RNA Genes , 2016, Genes.

[11]  Yanchun Liang,et al.  Long Noncoding RNA Identification: Comparing Machine Learning Based Tools for Long Noncoding Transcripts Discrimination , 2016, BioMed research international.

[12]  M. Othman,et al.  Anaerobic Codigestion of Municipal Wastewater Treatment Plant Sludge with Food Waste: A Case Study , 2016, BioMed research international.

[13]  David K. Gifford,et al.  Convolutional neural network architectures for predicting DNA–protein binding , 2016, Bioinform..

[14]  B. Frey,et al.  Predicting the sequence specificities of DNA- and RNA-binding proteins by deep learning , 2015, Nature Biotechnology.

[15]  K. Chou Impacts of bioinformatics to medicinal chemistry. , 2015, Medicinal chemistry (Shariqah (United Arab Emirates)).

[16]  Boonserm Kaewkamnerdpong,et al.  Identification of non-coding RNAs with a new composite feature in the Hybrid Random Forest Ensemble algorithm , 2014, Nucleic acids research.

[17]  Yi Zhao,et al.  Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts , 2013, Nucleic acids research.

[18]  Nadav S. Bar,et al.  Landscape of transcription in human cells , 2012, Nature.

[19]  Howard Y. Chang,et al.  Corrigendum: Long noncoding RNAs and human disease: [Trends in Cell Biology 21 (2011), 354–361] , 2011 .

[20]  Manolis Kellis,et al.  PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions , 2011, Bioinform..

[21]  Howard Y. Chang,et al.  Long noncoding RNAs and human disease. , 2011, Trends in cell biology.

[22]  D. Trujillano,et al.  Long Noncoding RNAs, Chromatin, and Development , 2010, TheScientificWorldJournal.

[23]  K. Chou,et al.  REVIEW : Recent advances in developing web-servers for predicting protein attributes , 2009 .

[24]  Jennifer A. Mitchell,et al.  The Air Noncoding RNA Epigenetically Silences Transcription by Targeting G9a to Chromatin , 2008, Science.

[25]  C. Glass,et al.  Induced ncRNAs Allosterically Modify RNA Binding Proteins in cis to Inhibit Transcription , 2008, Nature.

[26]  Celso A. Espinoza,et al.  Human Alu RNA is a modular transacting repressor of mRNA transcription during heat shock. , 2008, Molecular cell.

[27]  Yong Zhang,et al.  CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine , 2007, Nucleic Acids Res..

[28]  Hilde van der Togt,et al.  Publisher's Note , 2003, J. Netw. Comput. Appl..