Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation (Q34317619)

1 August 2017

title

Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation (English)

1 reference

(RS)-3-phosphoglyceric acid

1 August 2017

0 references

0 references

1 reference

1 reference

1 reference

1 reference

1 reference

1 reference

1 reference

1 reference

1 reference

threo-β-hydroxy-L-aspartic acid

15760

1 reference

1 reference

1 reference

15824

guanosine monophosphate

1 reference

1 reference

1 reference

15756

3-aminoisobutyric acid

1 reference

1 reference

1 reference

1 reference

48300

4-guanidinobutyric acid

1 reference

(4S,5S)-5'-methylthioadenosine

15728

1 reference

1 reference

1 reference

1 reference

1 reference

1 reference

1 reference

D-ribofuranose 5-phosphate

17368

1 reference

1 reference

1 reference

1 reference

2-amino-2-deoxy-D-gluconic acid

17141

1 reference

1 reference

1 reference

1 reference

Young-Mo Kim

5

0 references

Tom Metz

Thomas O Metz

6

0 references

Joshua N Adkins

Joshua N Adkins

12

0 references

Ernesto Nakayasu

Ernesto S Nakayasu

3

0 references

Richard D. Smith

Richard D Smith

9

0 references

Bernhard Palsson

13

Bernhard O Palsson

1 reference

Alexandra C Schrimpe-Rutledge

1 August 2017

4

Alexandra C Schrimpe-Rutledge

1 reference

1 August 2017

Scott Dryden-Peterson

10

Scott N Peterson

1 reference

1 August 2017

11

Daniel R Hyduke

1 reference

1 August 2017

Aarash Bordbar

1

1 reference

1 August 2017

Monica L Mo

2

1 reference

1 August 2017

Marcus B Jones

7

1 reference

1 August 2017

Bryan C Frank

8

1 reference

1 August 2017

publication date

26 June 2012

1 reference

Molecular Systems Biology

1 August 2017

published in

1 reference

1 August 2017

volume

8

1 reference

1 August 2017

page(s)

558

1 reference

describes a project that uses

1 August 2017

RAW 264.7

0 references

cites work

The cellular and signaling networks linking the immune system and metabolism in disease

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Macrophage-mediated inflammation in metabolic disease

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Formation of dehydroalanine from mimosine and cysteine: artifacts in gas chromatography/mass spectrometry based metabolomics

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Targeting cancer metabolism: a therapeutic window opens

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Optimal regulatory strategies for metabolic pathways in Escherichia coli depending on protein costs.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Immunometabolism: an emerging frontier

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Regulation of cancer cell metabolism

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Role of luxS in Bacillus anthracis growth and virulence factor expression

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

NCBI GEO: archive for functional genomics data sets--10 years on

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Alternative Macrophage Activation and Metabolism

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

The challenges of integrating multi-omic data sets

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Drug Off-Target Effects Predicted Using Structural Analysis in the Context of a Metabolic Network Model

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Computational reconstruction of tissue‐specific metabolic models: application to human liver metabolism

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Omics.pnl.gov: A Portal for the Distribution and Sharing of Multi-Disciplinary Pan-Omics Information

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Metabolic shifts in immunity and inflammation.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

What is flux balance analysis?

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Arginase in parasitic infections: macrophage activation, immunosuppression, and intracellular signals

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Applications of genome-scale metabolic reconstructions

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Mycobacteria exploit host hyaluronan for efficient extracellular replication

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Proteomic investigation of the time course responses of RAW 264.7 macrophages to infection with Salmonella enterica

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Exposure of the murine RAW 264.7 macrophage cell line to hydroxyapatite dispersions of various composition and morphology: assessment of cytotoxicity, activation and stress response

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

The novel immunosuppressive enzyme IL4I1 is expressed by neoplastic cells of several B-cell lymphomas and by tumor-associated macrophages

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Cell death induced by nutritional starvation in mouse macrophage-like RAW264.7 cells.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Exploring the full spectrum of macrophage activation

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

High glucose increases RAW 264.7 macrophages activation by lipoteichoic acid from Staphylococcus aureus.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Context-specific metabolic networks are consistent with experiments

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Adipose tissue macrophages, low grade inflammation and insulin resistance in human obesity.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

DAnTE: a statistical tool for quantitative analysis of -omics data.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Co-regulation of metabolic genes is better explained by flux coupling than by network distance

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Suppression of inflammatory and immune responses by the A(2A) adenosine receptor: an introduction

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Investigating the metabolic capabilities of Mycobacterium tuberculosis H37Rv using the in silico strain iNJ661 and proposing alternative drug targets

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

VIPER: an advanced software package to support high-throughput LC-MS peptide identification

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Global reconstruction of the human metabolic network based on genomic and bibliomic data

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Macrophages require distinct arginine catabolism and transport systems for proliferation and for activation

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Macrophage nutriprive antimicrobial mechanisms

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Cellular metabolism as a basis for immune privilege

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Elevated levels of the 64-kDa cleavage stimulatory factor (CstF-64) in lipopolysaccharide-stimulated macrophages influence gene expression and induce alternative poly(A) site selection

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Ketone bodies affect the enzymatic activity of macrophage migration inhibitory factor

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Uncovering transcriptional regulation of metabolism by using metabolic network topology

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Autophagy is a defense mechanism inhibiting BCG and Mycobacterium tuberculosis survival in infected macrophages

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

IDO expression by dendritic cells: tolerance and tryptophan catabolism

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

3-Hydroxyanthranilic acid, one of metabolites of tryptophan via indoleamine 2,3-dioxygenase pathway, suppresses inducible nitric oxide synthase expression by enhancing heme oxygenase-1 expression

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Adenosine: an endogenous regulator of innate immunity

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Tryptophan and the immune response

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

The many faces of macrophage activation

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Identification and immune regulation of 25-hydroxyvitamin D-1-alpha-hydroxylase in murine macrophages

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

The annexin protein lipocortin 1 regulates the MAPK/ERK pathway

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Urea induces macrophage proliferation by inhibition of inducible nitric oxide synthesis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Macrophage-dependent induction of the Salmonella pathogenicity island 2 type III secretion system and its role in intracellular survival

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Importance of glutamine metabolism in murine macrophages and human monocytes to L-arginine biosynthesis and rates of nitrite or urea production

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Urea inhibits inducible nitric oxide synthase in macrophage cell line

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Growth and viability of macrophages continuously stimulated to produce nitric oxide

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

The importance of fuel metabolism to macrophage function

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Synergistic induction of tumor necrosis factor alpha by bacterial lipopolysaccharide and lipoteichoic acid in combination with polytetrafluoroethylene particles in a murine macrophage cell line RAW 264.7.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Method to correlate tandem mass spectra of modified peptides to amino acid sequences in the protein database

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Inducible nitric oxide synthase from a rat alveolar macrophage cell line is inhibited by nitric oxide.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Metabolism of glucose, glutamine, long-chain fatty acids and ketone bodies by murine macrophages

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Metabolism of pyruvate by isolated rat mesenteric lymphocytes, lymphocyte mitochondria and isolated mouse macrophages

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Induction of cystine transport activity in mouse peritoneal macrophages

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Functional macrophage cell lines transformed by abelson leukemia virus

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3397418

Branched-chain amino acid supplementation and the immune response of long-distance athletes.

6 July 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

Arginine uptake and metabolism in cultured murine macrophages.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

Robustness analysis of the Escherichia coli metabolic network

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

Macrophages are essential contributors to kidney injury in murine cryoglobulinemic membranoproliferative glomerulonephritis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

1alpha,25-Dihydroxyvitamin D3 is a potent suppressor of interferon gamma-mediated macrophage activation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

The ketogenic diet increases mitochondrial glutathione levels.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

Messy biology and the origins of evolutionary innovations

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

Macrophage-induced neurotoxicity is mediated by glutamate and attenuated by glutaminase inhibitors and gap junction inhibitors

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

Phagocyte-derived catecholamines enhance acute inflammatory injury

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FMSB.2012.21

Substrate fate in activated macrophages: a comparison between innate, classic, and alternative activation

21 January 2018

1 reference

12 December 2020

Glutamine metabolism by lymphocytes, macrophages, and neutrophils: its importance in health and disease

1 reference

12 December 2020

On getting there from here

1 reference

12 December 2020

Cancer: Macrophages limit chemotherapy

1 reference

12 December 2020

Network-based prediction of human tissue-specific metabolism

1 reference

12 December 2020

Neutral amino acid transport in mouse peritoneal macrophages

1 reference

12 December 2020

Identifiers

DOI

10.1038/MSB.2012.21

1 reference

release_3ocdhklecjcnzaxxemrtzu45le

1 August 2017

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/3ocdhklecjcnzaxxemrtzu45le

24 November 2022

mapped directly with Wikidata item

PMC publication ID

3397418

1 reference

1 August 2017

1 reference