dbPTM 2016: 10-year anniversary of a resource for post-translational modification of proteins (Q36434875)

14 August 2017

dbPTM 2016: 10-year anniversary of a resource for post-translational modification of proteins (English)

1 reference

14 August 2017

Kai-Yao Huang

1

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14 August 2017

Min-Gang Su

2

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14 August 2017

Hui-Ju Kao

3

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14 August 2017

Yun-Chung Hsieh

4

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14 August 2017

Jhih-Hua Jhong

5

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14 August 2017

Kuang-Hao Cheng

6

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14 August 2017

Hsien-Da Huang

7

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14 August 2017

Tzong-Yi Lee

8

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14 August 2017

language of work or name

English

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publication date

17 November 2015

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14 August 2017

Nucleic Acids Research

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14 August 2017

44

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14 August 2017

D1

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14 August 2017

D435-46

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Creative Commons Attribution 4.0 International

14 August 2017

start time

15 November 2016

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April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

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Characterization and identification of ubiquitin conjugation sites with E3 ligase recognition specificities

30 September 2017

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Characterization and identification of protein O-GlcNAcylation sites with substrate specificity

30 September 2017

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PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

30 September 2017

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The RCSB Protein Data Bank: views of structural biology for basic and applied research and education

30 September 2017

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OMIM.org: Online Mendelian Inheritance in Man (OMIM®), an online catalog of human genes and genetic disorders

30 September 2017

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dbSNO 2.0: a resource for exploring structural environment, functional and disease association and regulatory network of protein S-nitrosylation

30 September 2017

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STRING v10: protein-protein interaction networks, integrated over the tree of life

30 September 2017

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30 September 2017

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Reactive oxygen species-responsive protein modification and its intracellular delivery for targeted cancer therapy

30 September 2017

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An intelligent system for identifying acetylated lysine on histones and nonhistone proteins

30 September 2017

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Survey of phosphorylation near drug binding sites in the Protein Data Bank (PDB) and their effects

30 September 2017

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dbGSH: a database of S-glutathionylation

30 September 2017

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RegPhos 2.0: an updated resource to explore protein kinase-substrate phosphorylation networks in mammals

30 September 2017

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Incorporating substrate sequence motifs and spatial amino acid composition to identify kinase-specific phosphorylation sites on protein three-dimensional structures

30 September 2017

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ViralPhos: incorporating a recursively statistical method to predict phosphorylation sites on virus proteins

30 September 2017

1 reference

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topPTM: a new module of dbPTM for identifying functional post-translational modifications in transmembrane proteins

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

CPLM: a database of protein lysine modifications.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Data, information, knowledge and principle: back to metabolism in KEGG

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Mineralocorticoid receptor phosphorylation regulates ligand binding and renal response to volume depletion and hyperkalemia

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

DrugBank 4.0: shedding new light on drug metabolism

30 September 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

In silico platform for prediction of N-, O- and C-glycosites in eukaryotic protein sequences

30 September 2017

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Protein Oxidative Modifications: Beneficial Roles in Disease and Health

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

DbPTM 3.0: an informative resource for investigating substrate site specificity and functional association of protein post-translational modifications

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Accurate prediction of protein catalytic residues by side chain orientation and residue contact density

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Identifying protein phosphorylation sites with kinase substrate specificity on human viruses

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

dbSNO: a database of cysteine S-nitrosylation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Protein S-nitrosylation and cancer

30 September 2017

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PupDB: a database of pupylated proteins

30 September 2017

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E3Net: a system for exploring E3-mediated regulatory networks of cellular functions

30 September 2017

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Human Protein Reference Database and Human Proteinpedia as resources for phosphoproteome analysis.

30 September 2017

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The IntAct molecular interaction database in 2012

30 September 2017

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MINT, the molecular interaction database: 2012 update

30 September 2017

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SNOSite: exploiting maximal dependence decomposition to identify cysteine S-nitrosylation with substrate site specificity

30 September 2017

1 reference

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PlantPhos: using maximal dependence decomposition to identify plant phosphorylation sites with substrate site specificity

30 September 2017

1 reference

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Biomolecules in the computer: Jmol to the rescue

30 September 2017

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dbOGAP - an integrated bioinformatics resource for protein O-GlcNAcylation.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Phospho.ELM: a database of phosphorylation sites--update 2011

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

RegPhos: a system to explore the protein kinase-substrate phosphorylation network in humans

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Incorporating significant amino acid pairs to identify O-linked glycosylation sites on transmembrane proteins and non-transmembrane proteins

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Ubiquitylation and SUMOylation of cardiac ion channels

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

A novel approach for untargeted post-translational modification identification using integer linear optimization and tandem mass spectrometry.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Structural analysis of cysteine S-nitrosylation: a modified acid-based motif and the emerging role of trans-nitrosylation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

O-GlcNAc protein modification in cancer cells increases in response to glucose deprivation through glycogen degradation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Detection and characterization of 3D-signature phosphorylation site motifs and their contribution towards improved phosphorylation site prediction in proteins

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

SysPTM: a systematic resource for proteomic research on post-translational modifications

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Human Protein Reference Database--2009 update

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

NetworKIN: a resource for exploring cellular phosphorylation networks

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Effect of human serum albumin on drug metabolism: structural evidence of esterase activity of human serum albumin

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Chromatin modification of the trefoil factor 1 gene in human breast cancer cells by the Ras/mitogen-activated protein kinase pathway

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

dbPTM: an information repository of protein post-translational modification

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

The discovery of ubiquitin-dependent proteolysis

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

KinasePhos: a web tool for identifying protein kinase-specific phosphorylation sites

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Post-translational modifications and their biological functions: proteomic analysis and systematic approaches

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

The Database of Interacting Proteins: 2004 update

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Proteomic analysis of post-translational modifications

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

The role of nitric oxide in cancer

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

O-GLYCBASE version 4.0: a revised database of O-glycosylated proteins

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Parkin induces upregulation of 40S ribosomal protein SA and posttranslational modification of cytokeratins 8 and 18 in human cervical cancer cells

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

PhosPhAt goes kinases--searchable protein kinase target information in the plant phosphorylation site database PhosPhAt

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Natural human tumor necrosis factor beta (lymphotoxin). Variable O-glycosylation at Thr7, proteolytic processing, and allelic variation

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Decoding the s-nitrosoproteomic atlas in individualized human colorectal cancer tissues using a label-free quantitation strategy.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

N-Ace: using solvent accessibility and physicochemical properties to identify protein N-acetylation sites.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Incorporating structural characteristics for identification of protein methylation sites

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

UbiProt: a database of ubiquitylated proteins

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Conformational constraints of tyrosine in protein tyrosine kinase substrates: Information about preferred bioactive side-chain orientation.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Cytoscape: Software for Visualization and Analysis of Biological Networks

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4702878

Crystallization and chemical modification of disulfide bond of calf chymosin

21 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26578568

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Incorporating hidden Markov models for identifying protein kinase-specific phosphorylation sites

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26578568

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKV1240

1 reference

journals/nar/HuangSKHJCHL16

14 August 2017

1 reference

DBLP Dataset 2021-01-02

release_3kdd2oerdzdkdlvg6og3o7sy5q

28 January 2021

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/3kdd2oerdzdkdlvg6og3o7sy5q

mapped directly with Wikidata item

24 November 2022

based on heuristic

1 reference

14 August 2017

PubMed publication ID

26578568

1 reference