(Q30985759)

11 August 2017

Knowledge-Based Analysis for Detecting Key Signaling Events from Time-Series Phosphoproteomics Data (English)

1 reference

11 August 2017

Pengyi Yang

1

0 references

author name string

Xiaofeng Zheng

2

1 reference

11 August 2017

Vivek Jayaswal

3

1 reference

11 August 2017

Guang Hu

4

1 reference

11 August 2017

Jean Yee Hwa Yang

5

1 reference

11 August 2017

Raja Jothi

6

1 reference

11 August 2017

7 August 2015

1 reference

PLOS Computational Biology

11 August 2017

1 reference

11 August 2017

11

1 reference

11 August 2017

8

1 reference

11 August 2017

e1004403

1 reference

Creative Commons CC0 License

11 August 2017

start time

7 August 2015

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted, dedicated to the public domain by copyright holder

0 references

describes a project that uses

limma

object named as

limma R package

2 references

22 June 2022

https://europepmc.org/article/PMC/4529189

based on heuristic

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

Ultradeep human phosphoproteome reveals a distinct regulatory nature of Tyr and Ser/Thr-based signaling

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PKIS: computational identification of protein kinases for experimentally discovered protein phosphorylation sites

21 June 2018

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Systems-level overview of host protein phosphorylation during Shigella flexneri infection revealed by phosphoproteomics.

21 June 2018

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21 June 2018

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Dynamic adipocyte phosphoproteome reveals that Akt directly regulates mTORC2.

21 June 2018

1 reference

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Phosphoproteomic analysis implicates the mTORC2-FoxO1 axis in VEGF signaling and feedback activation of receptor tyrosine kinases

21 June 2018

1 reference

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Systematic analysis of protein phosphorylation networks from phosphoproteomic data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Quantitative phosphoproteomics to characterize signaling networks

21 June 2018

1 reference

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Time-resolved quantitative phosphoproteomics: new insights into Angiotensin-(1-7) signaling networks in human endothelial cells.

21 June 2018

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ERK1 and ERK2 regulate embryonic stem cell self-renewal through phosphorylation of Klf4.

21 June 2018

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The promise of induced pluripotent stem cells in research and therapy

21 June 2018

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Mass spectrometry-based proteomics for systems biology

21 June 2018

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PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse

21 June 2018

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The Ras-ERK and PI3K-mTOR pathways: cross-talk and compensation

21 June 2018

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System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation

21 June 2018

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Defining an informativeness metric for clustering gene expression data

21 June 2018

1 reference

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The role of FGF/Erk signaling in pluripotent cells

21 June 2018

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Mass spectrometry–based proteomics in cell biology

21 June 2018

1 reference

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mTOR-mediated activation of p70 S6K induces differentiation of pluripotent human embryonic stem cells

21 June 2018

1 reference

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Post-translational modifications in signal integration

21 June 2018

1 reference

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Decoding signalling networks by mass spectrometry-based proteomics

21 June 2018

1 reference

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The nuts and bolts of AGC protein kinases

21 June 2018

1 reference

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Quantitative phosphoproteomics by mass spectrometry: past, present, and future

21 June 2018

1 reference

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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

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21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Global survey of phosphotyrosine signaling identifies oncogenic kinases in lung cancer

21 June 2018

1 reference

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NetworKIN: a resource for exploring cellular phosphorylation networks

21 June 2018

1 reference

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Quantitative time-resolved phosphoproteomic analysis of mast cell signaling

21 June 2018

1 reference

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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=4529189

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=4529189

Methods for evaluating clustering algorithms for gene expression data using a reference set of functional classes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Ras, PI(3)K and mTOR signalling controls tumour cell growth

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Global analysis of protein phosphorylation in yeast

21 June 2018

1 reference

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Noise-robust soft clustering of gene expression time-course data

21 June 2018

1 reference

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Computational cluster validation in post-genomic data analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Identification of phosphorylation sites in protein kinase A substrates using artificial neural networks and mass spectrometry

21 June 2018

1 reference

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Pinning down cell signaling, cancer and Alzheimer's disease

21 June 2018

1 reference

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

21 June 2018

1 reference

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Cell-death signaling and human disease

21 June 2018

1 reference

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Comparisons and validation of statistical clustering techniques for microarray gene expression data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Signalling, cell cycle and pluripotency in embryonic stem 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=4529189

Insulin and TNF alpha induce expression of the forkhead transcription factor gene Foxc2 in 3T3-L1 adipocytes via PI3K and ERK 1/2-dependent pathways

21 June 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

21 June 2018

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Validating clustering for gene expression data.

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Protein kinases and phosphatases: the yin and yang of protein phosphorylation and signaling

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

21 June 2018

Protein Phosphorylation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4529189

Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle

21 June 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1004403

Kinase-substrate enrichment analysis provides insights into the heterogeneity of signaling pathway activation in leukemia cells.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1004403

In vivo SILAC-based proteomics reveals phosphoproteome changes during mouse skin carcinogenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1004403

An efficient k-means clustering algorithm: analysis and implementation

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1004403

Well-Separated Clusters and Optimal Fuzzy Partitions

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1004403

A cell-signaling network temporally resolves specific versus promiscuous phosphorylation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PCBI.1004403

Highly specific prediction of phosphorylation sites in proteins

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26252020

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PCBI.1004403

1 reference

journals/ploscb/YangZJHYJ15

11 August 2017

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

11 August 2017

PubMed publication ID

26252020

1 reference