标题
CPPred: coding potential prediction based on the global description of RNA sequence
作者
关键词
-
出版物
NUCLEIC ACIDS RESEARCH
Volume -, Issue -, Pages -
出版商
Oxford University Press (OUP)
发表日期
2019-02-01
DOI
10.1093/nar/gkz087
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- LncADeep: an ab initio lncRNA identification and functional annotation tool based on deep learning
- (2018) Cheng Yang et al. BIOINFORMATICS
- A comprehensive catalog of predicted functional upstream open reading frames in humans
- (2018) Patrick McGillivray et al. NUCLEIC ACIDS RESEARCH
- A deep recurrent neural network discovers complex biological rules to decipher RNA protein-coding potential
- (2018) Steven T Hill et al. NUCLEIC ACIDS RESEARCH
- Discovery of coding regions in the human genome by integrated proteogenomics analysis workflow
- (2018) Yafeng Zhu et al. Nature Communications
- FSPP: A Tool for Genome-Wide Prediction of smORF-Encoded Peptides and Their Functions
- (2018) Hui Li et al. Frontiers in Genetics
- An integrative strategy to identify the entire protein coding potential of prokaryotic genomes by proteogenomics
- (2017) Ulrich Omasits et al. GENOME RESEARCH
- Ensembl 2018
- (2017) Daniel R Zerbino et al. NUCLEIC ACIDS RESEARCH
- An update on sORFs.org: a repository of small ORFs identified by ribosome profiling
- (2017) Volodimir Olexiouk et al. NUCLEIC ACIDS RESEARCH
- CPC2: a fast and accurate coding potential calculator based on sequence intrinsic features
- (2017) Yu-Jian Kang et al. NUCLEIC ACIDS RESEARCH
- The Conservation and Function of RNA Secondary Structure in Plants
- (2016) Lee E. Vandivier et al. Annual Review of Plant Biology
- COME: a robust coding potential calculation tool for lncRNA identification and characterization based on multiple features
- (2016) Long Hu et al. NUCLEIC ACIDS RESEARCH
- A peptide encoded by a transcript annotated as long noncoding RNA enhances SERCA activity in muscle
- (2016) B. R. Nelson et al. SCIENCE
- lncScore: alignment-free identification of long noncoding RNA from assembled novel transcripts
- (2016) Jian Zhao et al. Scientific Reports
- iSeeRNA: identification of long intergenic non-coding RNA transcripts from transcriptome sequencing data
- (2016) Kun Sun et al. BMC GENOMICS
- LncRNApred: Classification of Long Non-Coding RNAs and Protein-Coding Transcripts by the Ensemble Algorithm with a New Hybrid Feature
- (2016) Cong Pian et al. PLoS One
- A Micropeptide Encoded by a Putative Long Noncoding RNA Regulates Muscle Performance
- (2015) Douglas M. Anderson et al. CELL
- Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
- (2015) Nuala A. O'Leary et al. NUCLEIC ACIDS RESEARCH
- PLEK: a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme
- (2014) Aimin Li et al. BMC BIOINFORMATICS
- Discovery of Human sORF-Encoded Polypeptides (SEPs) in Cell Lines and Tissue
- (2014) Jiao Ma et al. JOURNAL OF PROTEOME RESEARCH
- Sequence-based predictor of ATP-binding residues using random forest and mRMR-IFS feature selection
- (2014) Xin Ma et al. JOURNAL OF THEORETICAL BIOLOGY
- Quantitative profiling of initiating ribosomes in vivo
- (2014) Xiangwei Gao et al. NATURE METHODS
- Proteogenomics: concepts, applications and computational strategies
- (2014) Alexey I Nesvizhskii NATURE METHODS
- Emerging evidence for functional peptides encoded by short open reading frames
- (2014) Shea J. Andrews et al. NATURE REVIEWS GENETICS
- Insights into RNA structure and function from genome-wide studies
- (2014) Stefanie A. Mortimer et al. NATURE REVIEWS GENETICS
- The rise of regulatory RNA
- (2014) Kevin V. Morris et al. NATURE REVIEWS GENETICS
- Identification of non-coding RNAs with a new composite feature in the Hybrid Random Forest Ensemble algorithm
- (2014) Supatcha Lertampaiporn et al. NUCLEIC ACIDS RESEARCH
- Toddler: An Embryonic Signal That Promotes Cell Movement via Apelin Receptors
- (2014) A. Pauli et al. SCIENCE
- Combining in silico prediction and ribosome profiling in a genome-wide search for novel putatively coding sORFs
- (2013) Jeroen Crappé et al. BMC GENOMICS
- Long noncoding RNAs and the genetics of cancer
- (2013) S W Cheetham et al. BRITISH JOURNAL OF CANCER
- Long Noncoding RNAs: Cellular Address Codes in Development and Disease
- (2013) Pedro J. Batista et al. CELL
- ELABELA: A Hormone Essential for Heart Development Signals via the Apelin Receptor
- (2013) Serene C. Chng et al. DEVELOPMENTAL CELL
- Computational identification of human long intergenic non-coding RNAs using a GA–SVM algorithm
- (2013) Yanqiu Wang et al. GENE
- CPAT: Coding-Potential Assessment Tool using an alignment-free logistic regression model
- (2013) Liguo Wang et al. NUCLEIC ACIDS RESEARCH
- Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts
- (2013) Liang Sun et al. NUCLEIC ACIDS RESEARCH
- Conserved Regulation of Cardiac Calcium Uptake by Peptides Encoded in Small Open Reading Frames
- (2013) E. G. Magny et al. SCIENCE
- Characterization of a transcriptome from a non-model organism, Cladonia rangiferina, the grey reindeer lichen, using high-throughput next generation sequencing and EST sequence data
- (2012) Sini Junttila et al. BMC GENOMICS
- Peptidomic discovery of short open reading frame–encoded peptides in human cells
- (2012) Sarah A Slavoff et al. Nature Chemical Biology
- Prediction of Protein-Protein Interaction Sites by Random Forest Algorithm with mRMR and IFS
- (2012) Bi-Qing Li et al. PLoS One
- Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution
- (2012) S. Lee et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- LIBSVM
- (2012) Chih-Chung Chang et al. ACM Transactions on Intelligent Systems and Technology
- PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions
- (2011) M. F. Lin et al. BIOINFORMATICS
- Conserved Function of lincRNAs in Vertebrate Embryonic Development despite Rapid Sequence Evolution
- (2011) Igor Ulitsky et al. CELL
- Ribosome Profiling of Mouse Embryonic Stem Cells Reveals the Complexity and Dynamics of Mammalian Proteomes
- (2011) Nicholas T. Ingolia et al. CELL
- Small Open Reading Frames: Current Prediction Techniques and Future Prospect
- (2011) Haoyu Cheng et al. CURRENT PROTEIN & PEPTIDE SCIENCE
- Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
- (2011) M. N. Cabili et al. GENES & DEVELOPMENT
- Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis
- (2011) A. Pauli et al. GENOME RESEARCH
- Predict and analyze S-nitrosylation modification sites with the mRMR and IFS approaches
- (2011) Bi-Qing Li et al. Journal of Proteomics
- Long noncoding RNA in genome regulation
- (2011) Tiffany Hung et al. RNA Biology
- Long noncoding RNAs and human disease
- (2011) Orly Wapinski et al. TRENDS IN CELL BIOLOGY
- Predicting Drug-Target Interaction Networks Based on Functional Groups and Biological Features
- (2010) Zhisong He et al. PLoS One
- Small Peptides Switch the Transcriptional Activity of Shavenbaby During Drosophila Embryogenesis
- (2010) T. Kondo et al. SCIENCE
- sORF finder: a program package to identify small open reading frames with high coding potential
- (2009) Kousuke Hanada et al. BIOINFORMATICS
- Reconstruction of Arabidopsis thaliana fully integrated small RNA pathway
- (2009) Sadegh Azimzadeh Jamalkandi et al. FUNCTIONAL & INTEGRATIVE GENOMICS
- Human Pol II promoter recognition based on primary sequences and free energy of dinucleotides
- (2008) Jian-Yi Yang et al. BMC BIOINFORMATICS
- Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis
- (2008) Ryan Lister et al. CELL
- RNA-Seq: a revolutionary tool for transcriptomics
- (2008) Zhong Wang et al. NATURE REVIEWS GENETICS
- The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing
- (2008) U. Nagalakshmi et al. SCIENCE
Create your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create NowBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started