(Q33399030)

26 July 2017

title

In silico analysis of phosphoproteome data suggests a rich-get-richer process of phosphosite accumulation over evolution (English)

1 reference

26 July 2017

1 reference

Nozomu Yachie

1

1 reference

26 July 2017

Rintaro Saito

2

1 reference

26 July 2017

Junichi Sugahara

3

1 reference

26 July 2017

Masaru Tomita

4

1 reference

26 July 2017

Yasushi Ishihama

5

1 reference

26 July 2017

publication date

9 January 2009

1 reference

Molecular & Cellular Proteomics

26 July 2017

published in

1 reference

26 July 2017

volume

8

1 reference

26 July 2017

issue

5

1 reference

26 July 2017

page(s)

1061-1071

1 reference

Large-scale phosphorylation mapping reveals the extent of tyrosine phosphorylation in Arabidopsis.

26 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

The annotation of both human and mouse kinomes in UniProtKB/Swiss-Prot: one small step in manual annotation, one giant leap for full comprehension of genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

The impact of horizontal gene transfer in shaping operons and protein interaction networks--direct evidence of preferential attachment

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Automated phosphoproteome analysis for cultured cancer cells by two-dimensional nanoLC-MS using a calcined titania/C18 biphasic column.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

The universal protein resource (UniProt)

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

NetworKIN: a resource for exploring cellular phosphorylation networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

PhosphoPep--a phosphoproteome resource for systems biology research in Drosophila Kc167 cells

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Systematic Discovery of In Vivo Phosphorylation Networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

NFBD1/MDC1 associates with p53 and regulates its function at the crossroad between cell survival and death in response to DNA damage

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

A curated compendium of phosphorylation motifs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

A mechanism for cell-cycle regulation of MAP kinase signaling in a yeast differentiation pathway

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Large-scale phosphorylation analysis of mouse liver

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Global, in vivo, and site-specific phosphorylation dynamics in signaling networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

A simple physical model for scaling in protein-protein interaction networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Human protein reference database--2006 update

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Preferential attachment in the evolution of metabolic networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

An iterative statistical approach to the identification of protein phosphorylation motifs from large-scale data sets

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Revisiting "scale-free" networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Identification of novel phosphorylation sites on postsynaptic density proteins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Large-scale characterization of HeLa cell nuclear phosphoproteins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

The International Protein Index: an integrated database for proteomics experiments

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Computational comparative analyses of alternative splicing regulation using full-length cDNA of various eukaryotes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Universality and flexibility in gene expression from bacteria to human

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

SURFACE: a database of protein surface regions for functional annotation

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Scansite 2.0: Proteome-wide prediction of cell signaling interactions using short sequence motifs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

The protein kinase complement of the human genome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

The structure of the protein universe and genome evolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Phosphorylation of the carboxyl terminus of inner centromere protein (INCENP) by the Aurora B Kinase stimulates Aurora B kinase activity

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Tumor suppressor p53 binding protein 1 (53BP1) is involved in DNA damage-signaling pathways

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

The regulation of protein function by multisite phosphorylation--a 25 year update

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Protein-protein interactions define specificity in signal transduction

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Signaling--2000 and beyond

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Emergence of Scaling in Random Networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Sequence logos: a new way to display consensus sequences

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2689765

Phosphoproteome analysis of Drosophila melanogaster embryos

21 June 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Phosphoproteome analysis of E. coli reveals evolutionary conservation of bacterial Ser/Thr/Tyr phosphorylation

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Stable isotope labeling of Arabidopsis thaliana cells and quantitative proteomics by mass spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Phospho.ELM: a database of phosphorylation sites--update 2008.

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Power laws, Pareto distributions and Zipf's law

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Trypsin cleaves exclusively C-terminal to arginine and lysine residues

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Successive and selective release of phosphorylated peptides captured by hydroxy acid-modified metal oxide chromatography

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

The in vivo phosphorylation sites in multiple isoforms of amphiphysin I from rat brain nerve terminals

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Quantitative Phosphoproteomics of Early Elicitor Signaling inArabidopsis

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Phosphoproteome Analysis of Fission Yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

The Serine/Threonine/Tyrosine Phosphoproteome of the Model BacteriumBacillus subtilis

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Large-scale Analysis ofin VivoPhosphorylated Membrane Proteins by Immobilized Metal Ion Affinity Chromatography and Mass Spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.M800466-MCP200

Preferential Attachment in the Protein Network Evolution

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19136663

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Phosphopeptide enrichment by aliphatic hydroxy acid-modified metal oxide chromatography for nano-LC-MS/MS in proteomics applications

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19136663

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1074/MCP.M800466-MCP200

1 reference

26 July 2017

1 reference

26 July 2017

1 reference