Natural Science

Natural Science

ISSN Print: 2150-4091
ISSN Online: 2150-4105
www.scirp.org/journal/ns
E-mail: ns@scirp.org
"Wenxiang: a web-server for drawing wenxiang diagrams"
written by Kuo-Chen Chou, Wei-Zhong Lin, Xuan Xiao,
published by Natural Science, Vol.3 No.10, 2011
has been cited by the following article(s):
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[1] Controlling oncogenic KRAS signaling pathways with a Palladium-responsive peptide
Aymamí, P Martin-Malpartida… - Communications …, 2022
[2] Wenxiang 3.0: Evolutionary Visualization of α, π, and 3/10 Helices
Evolutionary Bioinformatics, 2022
[3] The significant and profound impacts of Gordon life science institute
2021
[4] Recent progresses for computationally identifying N6-methyladenosine sites in Saccharomyces cerevisiae
2020
[5] Helixvis: Visualize α-Helical Peptides in Python
2020
[6] Using Chou's 5-steps rule to predict O-linked serine glycosylation sites by blending position relative features and statistical moment
… ACM transactions on …, 2020
[7] Use Chou's 5-steps rule with different word embedding types to boost performance of electron transport protein prediction model
Quang, V Dinh-Phan… - … /ACM Transactions on …, 2020
[8] RETRACTED ARTICLE: An insightful 20-year recollection since the birth of pseudo amino acid components
2020
[9] Some illuminating remarks on molecular genetics and genomics as well as drug development
2020
[10] The Development of Gordon Life Science Institute: Its Driving Force and Accomplishments
2020
[11] Use Chou's 5-steps rule to predict remote homology proteins by merging grey incidence analysis and domain similarity analysis
2020
[12] Noah's Ark and Internet Institutes: When and Why?
2020
[13] Gordon Life Science Institute and Its Impacts on Computational Biology and Drug Development
2020
[14] The Implication of “I Am the Alpha and the Omega” to Internet Institutes
2020
[15] The Pandemic Pestilences and Internet Institutes
2020
[16] The speed of FtsZ treadmilling is tightly regulated by membrane binding
2020
[17] cACP: Classifying anticancer peptides using discriminative intelligent model via Chou's 5-step rules and general pseudo components
2019
[18] Advances in predicting subcellular localization of multi-label proteins and its implication for developing multi-target drugs
2019
[19] An Insightful 10-year Recollection Since the Emergence of the 5-steps Rule.
2019
[20] An alignment-free measure based on physicochemical properties of amino acids for protein sequence comparison
2019
[21] VGSC2: Second generation vector graph toolkit of genome synteny and collinearity
2019
[22] Advance in Predicting Subcellular Localization of Multi-label Proteins and its Implication for Developing Multi-target Drugs
2019
[23] iRSpot-SPI: Deep learning-based recombination spots prediction by incorporating secondary sequence information coupled with physio-chemical properties via …
2019
[24] Identification and characterization of WD40 superfamily genes in peach
2019
[25] Bioimage-based Prediction of Protein Subcellular Location in Human Tissue with Ensemble Features and Deep Networks
2019
[26] Studying Calcium Ion-Dependent Effect on the Inter-subunit Interaction Between the cTnC N-terminal Domain and cTnI C-terminal Switch Peptide of Human Cardiac …
2019
[27] Established and In-trial GPCR Families in Clinical Trials: A Review for Target Selection
2019
[28] iHyd-PseAAC (EPSV): Identifying Hydroxylation Sites in Proteins by Extracting Enhanced Position and Sequence Variant Feature via Chou's 5-Step Rule and General …
2019
[29] Progresses in predicting post-translational modification
2019
[30] iHyd-PseAAC (EPSV): Identifying Hydroxylation Sites in Proteins by Extracting Enhanced Position and Sequence Variant Feature via Chou's 5-Step Rule and …
2019
[31] A two-level computation model based on deep learning algorithm for identification of piRNA and their functions via Chou's 5-steps rule
2019
[32] Glioma stages prediction based on machine learning algorithm combined with protein-protein interaction networks
2019
[33] Proposing Pseudo Amino Acid Components is an Important Milestone for Proteome and Genome Analyses
2019
[34] Identifying DNase I hypersensitive sites using multi-features fusion and F-score features selection via Chou's 5-steps rule
2019
[35] MsDBP: Exploring DNA-Binding Proteins by Integrating Multiscale Sequence Information via Chou's Five-Step Rule
2019
[36] Advances in Electrochemistry for Monitoring Cellular Chemical Flux
2019
[37] Physicochemical n‐Grams Tool: A tool for protein physicochemical descriptor generation via Chou's 5‐steps rule
2019
[38] Prediction of lysine formylation sites using the composition of k-spaced amino acid pairs via Chou's 5-steps rule and general pseudo components
2019
[39] Identifying FL11 subtype by characterizing tumor immune microenvironment in prostate adenocarcinoma via Chou's 5-steps rule
2019
[40] 19F-NMR in Target-based Drug Discovery
2019
[41] MsDBP: Exploring DNA-binding Proteins by Integrating Multi-scale Sequence Information via Chou's 5-steps Rule
Journal of Proteome Research, 2019
[42] Impacts of pseudo amino acid components and 5-steps rule to proteomics and proteome analysis
2019
[43] Artificial intelligence (AI) tools constructed via the 5-steps rule for predicting post-translational modifications
2019
[44] A Study for Therapeutic Treatment against Parkinson's Disease via Chou's 5-steps Rule
2019
[45] Using Chou's general pseudo amino acid composition to classify laccases from bacterial and fungal sources via Chou's five-step rule
2019
[46] An insightful 20-year recollection since the birth of pseudo amino acid components
2019
[47] Calcium Pattern Assessment in Patients with Severe Aortic Stenosis Via the Chou's 5-Steps Rule
2019
[48] iMethylK-PseAAC: Improving Accuracy of Lysine Methylation Sites Identification by Incorporating Statistical Moments and Position Relative Features into General …
2019
[49] iSulfoTyr-PseAAC: Identify Tyrosine Sulfation Sites by Incorporating Statistical Moments via Chou's 5-steps Rule and Pseudo Components
2019
[50] Biological Production of (S)-acetoin: A State-of-the-Art Review
2019
[51] Using Chou's general PseAAC to analyze the evolutionary relationship of receptor associated proteins (RAP) with various folding patterns of protein domains
Journal of Theoretical Biology, 2018
[52] iRNA (m6A)-PseDNC: identifying N6-methyladenosine sites using pseudo dinucleotide composition
Analytical Biochemistry, 2018
[53] In silico identification of lipid-binding α helices of uncoupling protein 1
2018
[54] Large-scale frequent stem pattern mining in RNA families
Journal of Theoretical Biology, 2018
[55] iRSpot-DTS: Predict recombination spots by incorporating the dinucleotide-based spare-cross covariance information into Chou's pseudo components
2018
[56] Prediction of therapeutic peptides by incorporating q-Wiener index into Chou's general PseAAC
2017
[57] iRNA-PseColl: Identifying the Occurrence Sites of Different RNA Modifications by Incorporating Collective Effects of Nucleotides into PseKNC
Molecular Therapy - Nucleic Acids, 2017
[58] A novel alignment-free method to classify protein folding types by combining spectral graph clustering with Chou's pseudo amino acid composition
Journal of Theoretical Biology, 2017
[59] Gene expression and in silico analysis of snakehead murrel interleukin 8 and antimicrobial activity of C-terminal derived peptide WS12
Veterinary Immunology and Immunopathology, 2017
[60] Sequence-based discrimination of protein-RNA interacting residues using a probabilistic approach
Journal of Theoretical Biology, 2017
[61] iRNAm5C-PseDNC: identifying RNA 5-methylcytosine sites by incorporating physical-chemical properties into pseudo dinucleotide composition
Oncotarget, 2017
[62] Metaheuristic Optimization for Parameter Estimation in Kinetic Models of Biological Systems-Recent Development and Future Direction
Current Bioinformatics, 2017
[63] HIV-1 Nucleotide Sequence Comprehensive Analysis: A Computational Approach
Current Bioinformatics, 2017
[64] iPreny-PseAAC: identify C-terminal cysteine prenylation sites in proteins by incorporating two tiers of sequence couplings into PseAAC
Medicinal Chemistry, 2017
[65] An unprecedented revolution in medicinal chemistry driven by the progress of biological science
Current Topics in Medicinal Chemistry, 2017
[66] Role of dopamine signaling in drug addiction
Current Topics in Medicinal Chemistry, 2017
[67] iKCR-PseENs: Identify lysine crotonylation sites in histone proteins with pseudo components and ensemble classifier
Genomics, 2017
[68] Microbial routes to (2R, 3R)-2, 3-butanediol: recent advances and future prospects
Current Topics in Medicinal Chemistry, 2017
[69] Computational prediction of therapeutic peptides based on graph index
Journal of Biomedical Informatics, 2017
[70] Effects of ADAMTS14 genetic polymorphism and cigarette smoking on the clinicopathologic development of hepatocellular carcinoma
PLOS ONE, 2017
[71] 2L-piRNA: A Two-Layer Ensemble Classifier for Identifying Piwi-Interacting RNAs and Their Function
Molecular Therapy - Nucleic Acids, 2017
[72] iROS-gPseKNC: predicting replication origin sites in DNA by incorporating dinucleotide position-specific propensity into general pseudo nucleotide …
Oncotarget, 2016
[73] Classify vertebrate hemoglobin proteins by incorporating the evolutionary information into the general PseAAC with the hybrid approach
Journal of Theoretical Biology, 2016
[74] iACP: a sequence-based tool for identifying anticancer peptides
Oncotarget, 2016
[75] iCar-PseCp: identify carbonylation sites in proteins by Monte Carlo sampling and incorporating sequence coupled effects into general PseAAC
Oncotarget, 2016
[76] iOri-Human: identify human origin of replication by incorporating dinucleotide physicochemical properties into pseudo nucleotide composition.
Oncotarget, 2016
[77] iPhos-PseEn: identifying phosphorylation sites in proteins by fusing different pseudo components into an ensemble classifier
Oncotarget, 2016
[78] iRNA-PseU: Identifying RNA pseudouridine sites
Molecular Therapy - Nucleic Acids, 2016
[79] An In Silico Approach to Investigation of the Source of Controversial Interpretations about Phenotypic Results of Human AhR-gene G1661A Polymorphism
Journal of theoretical biology, 2016
[80] tRNAfeature: An Algorithm for tRNA Features to Identify tRNA Genes in DNA Sequences
Journal of Theoretical Biology, 2016
[81] Integration of multiple biological features yields high confidence human protein interactome
Journal of theoretical biology, 2016
[82] gDNA-Prot: Predict DNA-binding proteins by employing support vector machine and a novel numerical characterization of protein sequence
Journal of Theoretical Biology, 2016
[83] Protein sequence analysis by incorporating modified chaos game and physicochemical properties into Chou's general pseudo amino acid composition
Journal of Theoretical Biology, 2016
[84] Predicting protein structural classes based on complex networks and recurrence analysis
Journal of Theoretical Biology, 2016
[85] Characterization of BioPlex network by topological properties
Journal of Theoretical Biology, 2016
[86] Interplay between Catalysts and Substrates for Activity of Class Ib Aminoacyl-tRNA Synthetases and Implications for Pharmacology
Current topics in medicinal chemistry, 2016
[87] Modulation of cytokine network in the comorbidity of schizophrenia and tuberculosis
Current topics in medicinal chemistry, 2016
[88] Recent Progresses in Studying Helix-Helix Interactions in Proteins by Incorporating the Wenxiang Diagram into the NMR Spectroscopy
Current topics in medicinal chemistry, 2016
[89] pSuc-Lys: Predict lysine succinylation sites in proteins with PseAAC and ensemble random forest approach
Journal of Theoretical Biology, 2016
[90] pRNAm-PC: Predicting N6-methyladenosine sites in RNA sequences via physical–chemical properties
Analytical Biochemistry, 2016
[91] iSuc-PseOpt: identifying lysine succinylation sites in proteins by incorporating sequence-coupling effects into pseudo components and optimizing imbalanced training …
Analytical Biochemistry, 2016
[92] iOri-Human: identify human origin of replication by incorporating dinucleotide physicochemical properties into pseudo nucleotide composition
Oncotarget, 2016
[93] Current progress in structural bioinformatics of protein-biomolecule interactions
2015
[94] pRNAm-PC: Predicting N 6-methyladenosine sites in RNA sequences via physical–chemical properties
Analytical biochemistry, 2015
[95] iSuc-PseOpt: Identifying lysine succinylation sites in proteins by incorporating sequence-coupling effects into pseudo components and optimizing imbalanced training dataset
Analytical biochemistry, 2015
[96] fabp4 is central to eight obesity associated genes: A functional gene network-based polymorphic study
Journal of theoretical biology, 2015
[97] Identification of Real MicroRNA Precursors with a Pseudo Structure Status Composition Approach.
PloS one, 2015
[98] Novel 3D Bio-Macromolecular Bilinear Descriptors for Protein Science: Predicting Protein Structural Classes
Journal of theoretical biology, 2015
[99] Editorial (Thematic Issue: Current Progress in Structural Bioinformatics of Protein-Biomolecule Interactions)
Medicinal Chemistry, 2015
[100] Impacts of bioinformatics to medicinal chemistry
Medicinal Chemistry, 2015
[101] iPPI-Esml: An ensemble classifier for identifying the interactions of proteins by incorporating their physicochemical properties and wavelet transforms into PseAAC
Journal of theoretical biology, 2015
[102] Some Remarks on Prediction of Protein-Protein Interaction with Machine Learning
Medicinal Chemistry, 2015
[103] Editorial: current progress in structural bioinformatics of protein-biomolecule interactions.
Medicinal chemistry (Shāriqah (United Arab Emirates)), 2015
[104] A Novel Cylindrical Representation for Characterizing Intrinsic Properties of Protein Sequences
Journal of chemical information and modeling, 2015
[105] Advances in Protein Contact Map Prediction Based on Machine Learning
Medicinal Chemistry, 2015
[106] Recent Development of Peptide Drugs and Advance on Theory and Methodology of Peptide Inhibitor Design
Medicinal Chemistry, 2015
[107] Identification of real microRNA precursors with a pseudo structure status composition approach
PLOS ONE, 2015
[108] current progress in structural bioinformatics of protein-biomolecule interactions.
Medicinal chemistry (Shariqah (United Arab Emirates)), 2015
[109] Helical Assemblies: Structure Determinants
Journal of Theoretical Biology, 2015
[110] A novel k-word relative measure for sequence comparison
Computational biology and chemistry, 2014
[111] Apolipoprotein E Gene Variants of Alzheimer's Disease and Vascular Dementia Patients in a Community Population of Nanking
Medicinal Chemistry, 2014
[112] Research/Review: Insights into the Mutation-Induced Dysfunction of Arachidonic Acid Metabolism from Modeling of Human CYP2J2
Current drug metabolism, 2014
[113] Research/Review: Structure and Linkage Disequilibrium Analysis of Adamantane Resistant Mutations in Influenza Virus M2 Proton Channel
Current drug metabolism, 2014
[114] Trichoplaxin—A new membrane-active antimicrobial peptide from placozoan cDNA
Biochimica et Biophysica Acta (BBA)-Biomembranes, 2014
[115] Similar Structures to the E-to-H Helix Unit in the Globin-Like Fold are Found in Other Helical Folds
Biomolecules, 2014
[116] Prediction of Vanillin and Glutamate Productions in Yeast Using a Hybrid of Continuous Bees Algorithm and Flux Balance Analysis (CBAFBA)
Current Bioinformatics, 2014
[117] An effective haplotype assembly algorithm based on hypergraph partitioning
Journal of Theoretical Biology, 2014
[118] The similarity/dissimilarity analysis of protein sequence based on nucleotide triplet codon.
Journal of Chemical and Pharmaceutical Research, 2014
[119] Characterization of a DNA exit gate in the human cohesin ring
Science, 2014
[120] Review and Research Analysis of Computational Target Methods Using BioRuby and In silico Screening of Herbal Lead Compounds Against Pancreatic Cancer Using R Programming
Current drug metabolism, 2014
[121] Molecular dynamics studies on the NMR and X-ray structures of rabbit prion proteins
Journal of theoretical biology, 2014
[122] A QSPR-like model for multilocus genotype networks of< i> Fasciola hepatica in Northwest Spain
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[123] iSS-PseDNC: Identifying Splicing Sites Using Pseudo Dinucleotide Composition
BioMed Research International, 2014
[124] Combining evolutionary information extracted from frequency profiles with sequence-based kernels for protein remote homology detection
Bioinformatics, 2014
[125] < i> k-Partite cliques of protein interactions: A novel subgraph topology for functional coherence analysis on PPI networks
Journal of theoretical biology, 2014
[126] Graphic mapping of protein-coding DNA sequence in four-dimensional space and its application
Journal of Computational and Theoretical Nanoscience, 2014
[127] A QSPR-like model for multilocus genotype networks of Fasciola hepatica in Northwest Spain
Journal of Theoretical Biology, 2014
[128] k-Partite cliques of protein interactions: A novel subgraph topology for functional coherence analysis on PPI networks
Journal of Theoretical Biology, 2014
[129] Review and research analysis of computational target methods using BioRuby and in silico screening of herbal lead compounds against pancreatic cancer using R …
Current Drug Metabolism, 2014
[130] The similarity/dissimilarity analysis of protein sequence based on nucleotide triplet codon
Journal of Chemical and Pharmaceutical Research, 2014
[131] A simple k-word interval method for phylogenetic analysis of DNA sequences
Journal of Theoretical Biology, 2013
[132] Linear regression model of short k-word: a similarity distance suitable for biological sequences with various lengths
Journal of Theoretical Biology, 2013
[133] Peptide Design by Nature‐Inspired Algorithms
De novo Molecular Design, 2013
[134] Feature identification and reduction for improved generalization accuracy in secondary-structure prediction
2013
[135] Grappling the high altitude for safe edible bamboo shoots with rich nutritional attributes and escaping cyanogenic toxicity
BioMed research international, 2013
[136] Linear regression model of short< i> k-word: a similarity distance suitable for biological sequences with various lengths
Journal of theoretical biology, 2013
[137] A graph spectrum based geometric biclustering algorithm
Journal of theoretical biology, 2013
[138] A hybrid computational model for the effects of maspin on cancer cell dynamics
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[139] Peptide Design by Nature-Inspired Algorithms
De novo Molecular Design, 2013
[140] Editorial (hot topic: using cheminformatics for drug and target discovery in medicinal chemistry).
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[141] The pH-triggered conversion of the PrPC to PrPSc
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[142] iAMP-2L: a two-level multi-label classifier for identifying antimicrobial peptides and their functional types
Analytical biochemistry, 2013
[143] Signal propagation in protein interaction network during colorectal cancer progression
BioMed research international , 2013
[144] Sequence and structure space model of protein divergence driven by point mutations
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[145] Characterizing the Functional Similarity of Enzymes with High Co-Citation in Interaction Networks
Protein and peptide letters, 2013
[146] A simple< i> k-word interval method for phylogenetic analysis of DNA sequences
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[147] The protein–protein interaction network of the human Sirtuin family
Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics, 1834, 2013
[148] Nearly reversible conformational change of amyloid fibrils as revealed by pH-jump experiments
Biochemistry, 2013
[149] Automatic seizure detection based on star graph topological indices
Journal of neuroscience methods, 2012
[150] Identification of colorectal cancer related genes with mRMR and shortest path in protein-protein interaction network
PloS one, 2012
[151] iNuc-PhysChem: a sequence-based predictor for identifying nucleosomes via physicochemical properties
PLoS One, 2012
[152] Predicting anatomical therapeutic chemical (ATC) classification of drugs by integrating chemical-chemical interactions and similarities
PloS one, 2012
[153] Na?ve Bayes QSDR classification based on spiral-graph Shannon entropies for protein biomarkers in human colon cancer
Molecular BioSystems, 2012
[154] Predicting protein solubility by the general form of Chou's pseudo amino acid composition: approached from chaos game representation and fractal dimension
Protein and peptide letters, 2012
[155] Prediction of human genes' regulatory functions based on proteinprotein interaction network
Protein and peptide letters, 2012
[156] Protein-Protein Networks Construction and Their Relevance Measurement Based on Multi-Epitope-Ligand-Kartographie and Gene Ontology Data of T-Cell Surface Proteins for Polymyositis
Protein and peptide letters, 2012
[157] Naïve Bayes QSDR classification based on spiral-graph Shannon entropies for protein biomarkers in human colon cancer
Molecular BioSystems, 2012
[158] Protein-Protein Networks Construction and Their Relevance Measurement Based on Multi-Epitope-Ligand-Kartographie and Gene Ontology Data of T-Cell Surface …
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