Identifying RNA 5-methylcytosine sites via pseudo nucleotide compositions

Protein Folds Prediction with Hierarchical Structured SVM

(2016) Dapeng Li et al.   Current Proteomics

Identifying 2′-O-methylationation sites by integrating nucleotide chemical properties and nucleotide compositions

(2016) Wei Chen et al.   GENOMICS

Identification of immunoglobulins using Chou's pseudo amino acid composition with feature selection technique

(2016) Hua Tang et al.   Molecular BioSystems

iRNA-Methyl: Identifying N6-methyladenosine sites using pseudo nucleotide composition

(2015) Wei Chen et al.   ANALYTICAL BIOCHEMISTRY

Prediction of β-lactamase and its class by Chou’s pseudo-amino acid composition and support vector machine

(2015) Ravindra Kumar et al.   JOURNAL OF THEORETICAL BIOLOGY

Pseudo nucleotide composition or PseKNC: an effective formulation for analyzing genomic sequences

(2015) Wei Chen et al.   Molecular BioSystems

Improving tRNAscan-SE Annotation Results via Ensemble Classifiers

(2015) Quan Zou et al.   Molecular Informatics

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

RMBase: a resource for decoding the landscape of RNA modifications from high-throughput sequencing data

(2015) Wen-Ju Sun et al.   NUCLEIC ACIDS RESEARCH

Predicting cancerlectins by the optimal g-gap dipeptides

(2015) Hao Lin et al.   Scientific Reports

Identification of Real MicroRNA Precursors with a Pseudo Structure Status Composition Approach

(2015) Bin Liu et al.   PLoS One

iTIS-PseTNC: A sequence-based predictor for identifying translation initiation site in human genes using pseudo trinucleotide composition

(2014) Wei Chen et al.   ANALYTICAL BIOCHEMISTRY

repDNA: a Python package to generate various modes of feature vectors for DNA sequences by incorporating user-defined physicochemical properties and sequence-order effects

(2014) Bin Liu et al.   BIOINFORMATICS

PseKNC-General: a cross-platform package for generating various modes of pseudo nucleotide compositions

(2014) Wei Chen et al.   BIOINFORMATICS

iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition

(2014) Shou-Hui Guo et al.   BIOINFORMATICS

Prediction of CpG island methylation status by integrating DNA physicochemical properties

(2014) Pengmian Feng et al.   GENOMICS

iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition

(2014) Hao Lin et al.   NUCLEIC ACIDS RESEARCH

iHSP-PseRAAAC: Identifying the heat shock protein families using pseudo reduced amino acid alphabet composition

(2013) Peng-Mian Feng et al.   ANALYTICAL BIOCHEMISTRY

Identification of direct targets and modified bases of RNA cytosine methyltransferases

(2013) Vahid Khoddami et al.   NATURE BIOTECHNOLOGY

iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide composition

(2013) Wei Chen et al.   NUCLEIC ACIDS RESEARCH

NSun2-Mediated Cytosine-5 Methylation of Vault Noncoding RNA Determines Its Processing into Regulatory Small RNAs

(2013) Shobbir Hussain et al.   Cell Reports

Transcriptome-Wide Mapping of 5-methylcytidine RNA Modifications in Bacteria, Archaea, and Yeast Reveals m5C within Archaeal mRNAs

(2013) Sarit Edelheit et al.   PLoS Genetics

Characterizing 5-methylcytosine in the mammalian epitranscriptome

(2013) Shobbir Hussain et al.   GENOME BIOLOGY

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Prediction of replication origins by calculating DNA structural properties

(2012) Wei Chen et al.   FEBS LETTERS

Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA

(2012) Jeffrey E. Squires et al.   NUCLEIC ACIDS RESEARCH

MODOMICS: a database of RNA modification pathways—2013 update

(2012) Magdalena A. Machnicka et al.   NUCLEIC ACIDS RESEARCH

ANALYZING MODULAR RNA STRUCTURE REVEALS LOW GLOBAL STRUCTURAL ENTROPY IN MICRORNA SEQUENCE

(2011) TIMOTHY I. SHAW et al.   Journal of Bioinformatics and Computational Biology

tRNA Stabilization by Modified Nucleotides

(2010) Yuri Motorin et al.   BIOCHEMISTRY

Some remarks on protein attribute prediction and pseudo amino acid composition

(2010) Kuo-Chen Chou   JOURNAL OF THEORETICAL BIOLOGY

Enthalpy-Driven RNA Folding: Single-Molecule Thermodynamics of Tetraloop−Receptor Tertiary Interaction†

(2009) Julie L. Fiore et al.   BIOCHEMISTRY

Bringing order to translation: the contributions of transfer RNA anticodon-domain modifications

(2008) Paul F Agris   EMBO REPORTS