iSNO-AAPair: incorporating amino acid pairwise coupling into PseAAC for predicting cysteine S-nitrosylation sites in proteins (Q28675957)

1

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Xiao-Jian Shao

2

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Ling-Yun Wu

3

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Nai-Yang Deng

iSNO-PseAAC: predict cysteine S-nitrosylation sites in proteins by incorporating position specific amino acid propensity into pseudo amino acid composition

4

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language of work or name

English

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publication date

2013

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1 reference

1

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page(s)

e171

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cites work

1 reference

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17 March 2017

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Predicting Anatomical Therapeutic Chemical (ATC) classification of drugs by integrating chemical-chemical interactions and similarities

17 March 2017

1 reference

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iLoc-Euk: a multi-label classifier for predicting the subcellular localization of singleplex and multiplex eukaryotic proteins

17 March 2017

1 reference

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Recent progress in protein subcellular location prediction

17 March 2017

1 reference

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Regulation of beta-adrenergic receptor signaling by S-nitrosylation of G-protein-coupled receptor kinase 2

17 March 2017

1 reference

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S-nitrosylated protein-disulphide isomerase links protein misfolding to neurodegeneration

17 March 2017

1 reference

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Solution structure of the CIDE-N domain of CIDE-B and a model for CIDE-N/CIDE-N interactions in the DNA fragmentation pathway of apoptosis

17 March 2017

1 reference

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S-nitrosylation of Drp1 mediates beta-amyloid-related mitochondrial fission and neuronal injury

17 March 2017

1 reference

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Protein S-nitrosylation: a physiological signal for neuronal nitric oxide

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Proteomic analysis of post-translational modifications

7 April 2017

1 reference

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Some remarks on predicting multi-label attributes in molecular biosystems

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

propy: a tool to generate various modes of Chou's PseAAC.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

GOASVM: a subcellular location predictor by incorporating term-frequency gene ontology into the general form of Chou's pseudo-amino acid composition.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide composition

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Predicting membrane protein types by incorporating protein topology, domains, signal peptides, and physicochemical properties into the general form of Chou's pseudo amino acid composition

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Prediction of allergenic proteins by means of the concept of Chou's pseudo amino acid composition and a machine learning approach

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Predicting antibacterial peptides by the concept of Chou's pseudo-amino acid composition and machine learning methods

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Predicting plant protein subcellular multi-localization by Chou's PseAAC formulation based multi-label homolog knowledge transfer learning

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

PseAAC-Builder: a cross-platform stand-alone program for generating various special Chou's pseudo-amino acid compositions

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Predicting protein fold types by the general form of Chou's pseudo amino acid composition: approached from optimal feature extractions.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Prediction of GABAA receptor proteins using the concept of Chou's pseudo-amino acid composition and support vector machine

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Some remarks on protein attribute prediction and pseudo amino acid composition

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

S-alkylating labeling strategy for site-specific identification of the s-nitrosoproteome

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

GPS-SNO: computational prediction of protein S-nitrosylation sites with a modified GPS algorithm

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Kinase mutations in human disease: interpreting genotype-phenotype relationships

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Using the concept of Chou's pseudo amino acid composition for risk type prediction of human papillomaviruses

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Proteomic analysis of S-nitrosylation and denitrosylation by resin-assisted capture

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Incorporating support vector machine for identifying protein tyrosine sulfation sites.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

S-nitrosylation of XIAP compromises neuronal survival in Parkinson's disease

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Using Chou's pseudo amino acid composition to predict protein quaternary structure: a sequence-segmented PseAAC approach

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

HIVcleave: a web-server for predicting human immunodeficiency virus protease cleavage sites in proteins

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Using the concept of Chou's pseudo amino acid composition to predict protein subcellular localization: an approach by incorporating evolutionary information and von Neumann entropies

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Using Chou's amphiphilic pseudo-amino acid composition and support vector machine for prediction of enzyme subfamily classes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

KinasePhos 2.0: a web server for identifying protein kinase-specific phosphorylation sites based on sequences and coupling patterns

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Regulation of HIF-1alpha stability through S-nitrosylation

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Inhibitor design for SARS coronavirus main protease based on "distorted key theory".

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Post-translational modifications in the context of therapeutic proteins

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Identification of S-nitrosylation motifs by site-specific mapping of the S-nitrosocysteine proteome in human vascular smooth muscle cells

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Synthesis and activity of an octapeptide inhibitor designed for SARS coronavirus main proteinase

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Molecular modeling and chemical modification for finding peptide inhibitor against severe acute respiratory syndrome coronavirus main proteinase

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Nitrosative stress linked to sporadic Parkinson's disease: S-nitrosylation of parkin regulates its E3 ubiquitin ligase activity

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Prediction of protein cellular attributes using pseudo-amino acid composition

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Prediction of human immunodeficiency virus protease cleavage sites in proteins

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

A vectorized sequence-coupling model for predicting HIV protease cleavage sites in proteins.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

A sequence-coupled vector-projection model for predicting the specificity of GalNAc-transferase

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

Prediction of Protein Structural Classes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3792191

A model for structure-dependent binding of Congo red to Alzheimer beta-amyloid fibrils.

3 June 2018

1 reference

Prediction of protein signal sequences and their cleavage sites.

21 January 2018

1 reference

Prediction of signal peptides using scaled window

21 January 2018

1 reference

Using subsite coupling to predict signal peptides

21 January 2018

1 reference

iLoc-Hum: using the accumulation-label scale to predict subcellular locations of human proteins with both single and multiple sites.

21 January 2018

1 reference

Predict mycobacterial proteins subcellular locations by incorporating pseudo-average chemical shift into the general form of Chou's pseudo amino acid composition

21 January 2018

1 reference

Prediction of phosphorylation sites using SVMs

21 January 2018

1 reference

Predict and analyze S-nitrosylation modification sites with the mRMR and IFS approaches.

21 January 2018

1 reference

An efficient support vector machine approach for identifying protein S-nitrosylation sites

21 January 2018

1 reference

iAMP-2L: a two-level multi-label classifier for identifying antimicrobial peptides and their functional types.

21 January 2018

1 reference

SecretP: Identifying bacterial secreted proteins by fusing new features into Chou’s pseudo-amino acid composition

21 January 2018

1 reference

Protein classification using texture descriptors extracted from the protein backbone image

21 January 2018

1 reference

Unbiased identification of cysteine S-nitrosylation sites on proteins

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24109555

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.7717/PEERJ.171

1 reference

1 reference

1 reference

PubMed publication ID

24109555

1 reference