MOESM2 of Systems analysis of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

MOESM1 of Engineering of Escherichia coli for Krebs cycle-dependent production of malic acid

Debora Trichez (1565692)
Clément Auriol (3477599)
Audrey Baylac (4867204)
Romain Irague (474014)
Clémentine Dressaire (255708)
Marc Carnicer-Heras (5520059)
Stéphanie Heux (5520056)
Jean François (90133)
Thomas Walther (145066)

July 2018

Additional file 1: Table S1. Fermentation products of E. coli MG1655 mutants in mineral medium with ...

MOESM2 of Metabolic engineering of Escherichia coli for production of mixed isoprenoid alcohols and their derivatives

Bakht Zada (5555702)
Chonglong Wang (3584984)
Ji-Bin Park (5555699)
Seong-Hee Jeong (5555696)
Ju-Eon Park (3602477)
Hawaibam Singh (5555705)
Seon-Won Kim (421793)

July 2018

Additional file 2: Table S3. Primers, plasmids and bacterial strains used in this study. Figure S6. ...

MOESM2 of Coordination between TGF-β cellular signaling and epigenetic regulation during epithelial to mesenchymal transition

Congcong Lu (3393974)
Simone Sidoli (167157)
Katarzyna Kulej (1482001)
Karen Ross (3530261)
Cathy Wu (216122)
Benjamin Garcia (3406175)

February 2019

Additional file 2: Table S1. Time-course monitoring of protein abundance changes during EMT. (A) Tot...

MOESM4 of Systems analysis of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

Mareike Bongers (3450008)
Panagiotis Chrysanthopoulos (3450005)
James Behrendorff (3450002)
Mark Hodson (3449999)
Claudia Vickers (3450011)
Lars Nielsen (664146)

November 2015

Additional file 4. Additional LC-MS/MS acquisition parameters for the detection of MEP pathway-relat...

MOESM1 of Systems analysis of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

Mareike Bongers (3450008)
Panagiotis Chrysanthopoulos (3450005)
James Behrendorff (3450002)
Mark Hodson (3449999)
Claudia Vickers (3450011)
Lars Nielsen (664146)

November 2015

Additional file 1. Lycopene production and specific growth rate in response to rph repair

Systems analysis

Mareike Bongers
Panagiotis K. Chrysanthopoulos
James B. Y. H. Behrendorff
Mark P. Hodson
Claudia E. Vickers
Lars K. Nielsen

August 2016

of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress an...

MOESM2 of Comparative proteome analysis in an Escherichia coli CyDisCo strain identifies stress responses related to protein production, oxidative stress and accumulation of misfolded protein

Isabel Guerrero Montero (6276116)
Katarzyna Dolata (6276119)
Rabea SchlĂźter (6276122)
Gilles Malherbe (6276125)
Susanne Sievers (256439)
Daniela ZĂźhlke (3964634)
Thomas Sura (6276128)
Emma Dave (6276131)
Katharina Riedel (444866)
Colin Robinson (252707)

January 2019

Additional file 2: Table S2. Voronoi Treemap of log2 fold changes in protein abundance (E. coli CyDi...

Systems analysis of methylerythritol-phosphate pathway flux in E. coli: Insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

Bongers, Mareike
Chrysanthopoulos, Panagiotis K.
Behrendorff, James B.Y.H.
Hodson, Mark P.
Vickers, Claudia E.
Nielsen, Lars K.

November 2015

Background: High-throughput screening methods assume that the output measured is representative of c...

MOESM1 of Comparative proteome analysis in an Escherichia coli CyDisCo strain identifies stress responses related to protein production, oxidative stress and accumulation of misfolded protein

Isabel Guerrero Montero (6276116)
Katarzyna Dolata (6276119)
Rabea SchlĂźter (6276122)
Gilles Malherbe (6276125)
Susanne Sievers (256439)
Daniela ZĂźhlke (3964634)
Thomas Sura (6276128)
Emma Dave (6276131)
Katharina Riedel (444866)
Colin Robinson (252707)

January 2019

Additional file 1: Table S1. Average protein abundances and fold changes for proteins from cytoplasm...

MOESM1 of Lycopene overproduction and in situ extraction in organic-aqueous culture systems using a metabolically engineered Escherichia coli

Julia Gallego-Jara (3435956)
Teresa Diego (3435950)
Álvaro Real (3435944)
Ana Écija-Conesa (3435947)
Arturo Manjón (3435953)
Manuel Cánovas (171048)

September 2015

Additional file 1: Table S1. Retention times and absorption spectra characteristics of carotenoids. ...

Proteomes in 3D - Correlation Analyses - Metabolite levels vs LiP Peptides

Cappelletti, Valentina

July 2020

Analysis of metabolite levels that correlate with protein structural changes across 8 metabolic cond...

MOESM1 of Proteomic and metabolomic analysis of the cellular biomarkers related to inhibitors tolerance in Zymomonas mobilis ZM4

Dongdong Chang (5863634)
Zhisheng Yu (5863637)
Zia Ul Islam (5863640)
W. French (5863646)
Yiming Zhang (444592)
Hongxun Zhang (610018)

October 2018

Additional file 1: Text S1. Distribution of gene ontology categories and KEGG pathways of the differ...

MOESM1 of Quantitative proteomic analysis of the influence of lignin on biofuel production by Clostridium acetobutylicum ATCC 824

Mahendra Raut (3569423)
Narciso Couto (1520674)
Trong Pham (1847812)
Caroline Evans (2288140)
Josselin Noirel (87373)
Phillip Wright (3569426)

May 2016

Additional file 1. Metabolites data. The detailed metabolites information included cellobiose consum...

MOESM1 of A two-step strategy for identification of plasma protein biomarkers for endometrial and ovarian cancer

Stefan Enroth (189126)
Malin Berggrund (6035387)
Maria Lycke (6035390)
Martin Lundberg (584387)
Erika Assarsson (58597)
Matts Olovsson (3225774)
Karin StĂĽlberg (6035393)
Karin Sundfeldt (754806)
Ulf Gyllensten (13773)

December 2018

Additional file 1: TableÂ 1. P-values of individual proteins in the discovery step

MOESM1 of Ulcerative colitis: functional analysis of the in-depth proteome

Armin Schniers (6275957)
Rasmus Goll (62501)
Yvonne Pasing (6275960)
Sveinung SĂ¸rbye (6275963)
Jon Florholmen (62504)
Terkel Hansen (2231788)

January 2019

Additional file 1. Detailed method descriptions, additional figures and tables, mapping of metabolic...

MOESM1 of Engineering of Escherichia coli for Krebs cycle-dependent production of malic acid

Debora Trichez (1565692)
Clément Auriol (3477599)
Audrey Baylac (4867204)
Romain Irague (474014)
Clémentine Dressaire (255708)
Marc Carnicer-Heras (5520059)
Stéphanie Heux (5520056)
Jean François (90133)
Thomas Walther (145066)

July 2018

Additional file 1: Table S1. Fermentation products of E. coli MG1655 mutants in mineral medium with ...

MOESM2 of Metabolic engineering of Escherichia coli for production of mixed isoprenoid alcohols and their derivatives

Bakht Zada (5555702)
Chonglong Wang (3584984)
Ji-Bin Park (5555699)
Seong-Hee Jeong (5555696)
Ju-Eon Park (3602477)
Hawaibam Singh (5555705)
Seon-Won Kim (421793)

July 2018

Additional file 2: Table S3. Primers, plasmids and bacterial strains used in this study. Figure S6. ...

MOESM2 of Coordination between TGF-β cellular signaling and epigenetic regulation during epithelial to mesenchymal transition

Congcong Lu (3393974)
Simone Sidoli (167157)
Katarzyna Kulej (1482001)
Karen Ross (3530261)
Cathy Wu (216122)
Benjamin Garcia (3406175)

February 2019

Additional file 2: Table S1. Time-course monitoring of protein abundance changes during EMT. (A) Tot...

MOESM4 of Systems analysis of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

Mareike Bongers (3450008)
Panagiotis Chrysanthopoulos (3450005)
James Behrendorff (3450002)
Mark Hodson (3449999)
Claudia Vickers (3450011)
Lars Nielsen (664146)

November 2015

Additional file 4. Additional LC-MS/MS acquisition parameters for the detection of MEP pathway-relat...

MOESM1 of Systems analysis of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

Mareike Bongers (3450008)
Panagiotis Chrysanthopoulos (3450005)
James Behrendorff (3450002)
Mark Hodson (3449999)
Claudia Vickers (3450011)
Lars Nielsen (664146)

November 2015

Additional file 1. Lycopene production and specific growth rate in response to rph repair

Systems analysis

Mareike Bongers
Panagiotis K. Chrysanthopoulos
James B. Y. H. Behrendorff
Mark P. Hodson
Claudia E. Vickers
Lars K. Nielsen

August 2016

of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress an...

MOESM2 of Comparative proteome analysis in an Escherichia coli CyDisCo strain identifies stress responses related to protein production, oxidative stress and accumulation of misfolded protein

Isabel Guerrero Montero (6276116)
Katarzyna Dolata (6276119)
Rabea SchlĂźter (6276122)
Gilles Malherbe (6276125)
Susanne Sievers (256439)
Daniela ZĂźhlke (3964634)
Thomas Sura (6276128)
Emma Dave (6276131)
Katharina Riedel (444866)
Colin Robinson (252707)

January 2019

Additional file 2: Table S2. Voronoi Treemap of log2 fold changes in protein abundance (E. coli CyDi...

Systems analysis of methylerythritol-phosphate pathway flux in E. coli: Insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

Bongers, Mareike
Chrysanthopoulos, Panagiotis K.
Behrendorff, James B.Y.H.
Hodson, Mark P.
Vickers, Claudia E.
Nielsen, Lars K.

November 2015

Background: High-throughput screening methods assume that the output measured is representative of c...

MOESM1 of Comparative proteome analysis in an Escherichia coli CyDisCo strain identifies stress responses related to protein production, oxidative stress and accumulation of misfolded protein

Isabel Guerrero Montero (6276116)
Katarzyna Dolata (6276119)
Rabea SchlĂźter (6276122)
Gilles Malherbe (6276125)
Susanne Sievers (256439)
Daniela ZĂźhlke (3964634)
Thomas Sura (6276128)
Emma Dave (6276131)
Katharina Riedel (444866)
Colin Robinson (252707)

January 2019

Additional file 1: Table S1. Average protein abundances and fold changes for proteins from cytoplasm...

MOESM1 of Lycopene overproduction and in situ extraction in organic-aqueous culture systems using a metabolically engineered Escherichia coli

Julia Gallego-Jara (3435956)
Teresa Diego (3435950)
Álvaro Real (3435944)
Ana Écija-Conesa (3435947)
Arturo Manjón (3435953)
Manuel Cánovas (171048)

September 2015

Additional file 1: Table S1. Retention times and absorption spectra characteristics of carotenoids. ...

Proteomes in 3D - Correlation Analyses - Metabolite levels vs LiP Peptides

Cappelletti, Valentina

July 2020

Analysis of metabolite levels that correlate with protein structural changes across 8 metabolic cond...

MOESM1 of Proteomic and metabolomic analysis of the cellular biomarkers related to inhibitors tolerance in Zymomonas mobilis ZM4

Dongdong Chang (5863634)
Zhisheng Yu (5863637)
Zia Ul Islam (5863640)
W. French (5863646)
Yiming Zhang (444592)
Hongxun Zhang (610018)

October 2018

Additional file 1: Text S1. Distribution of gene ontology categories and KEGG pathways of the differ...

MOESM1 of Quantitative proteomic analysis of the influence of lignin on biofuel production by Clostridium acetobutylicum ATCC 824

Mahendra Raut (3569423)
Narciso Couto (1520674)
Trong Pham (1847812)
Caroline Evans (2288140)
Josselin Noirel (87373)
Phillip Wright (3569426)

May 2016

Additional file 1. Metabolites data. The detailed metabolites information included cellobiose consum...

MOESM1 of A two-step strategy for identification of plasma protein biomarkers for endometrial and ovarian cancer

Stefan Enroth (189126)
Malin Berggrund (6035387)
Maria Lycke (6035390)
Martin Lundberg (584387)
Erika Assarsson (58597)
Matts Olovsson (3225774)
Karin StĂĽlberg (6035393)
Karin Sundfeldt (754806)
Ulf Gyllensten (13773)

December 2018

Additional file 1: TableÂ 1. P-values of individual proteins in the discovery step

MOESM1 of Ulcerative colitis: functional analysis of the in-depth proteome

Armin Schniers (6275957)
Rasmus Goll (62501)
Yvonne Pasing (6275960)
Sveinung SĂ¸rbye (6275963)
Jon Florholmen (62504)
Terkel Hansen (2231788)

January 2019

Additional file 1. Detailed method descriptions, additional figures and tables, mapping of metabolic...

MOESM1 of Engineering of Escherichia coli for Krebs cycle-dependent production of malic acid

Debora Trichez (1565692)
Clément Auriol (3477599)
Audrey Baylac (4867204)
Romain Irague (474014)
Clémentine Dressaire (255708)
Marc Carnicer-Heras (5520059)
Stéphanie Heux (5520056)
Jean François (90133)
Thomas Walther (145066)

July 2018

Additional file 1: Table S1. Fermentation products of E. coli MG1655 mutants in mineral medium with ...

MOESM2 of Metabolic engineering of Escherichia coli for production of mixed isoprenoid alcohols and their derivatives

Bakht Zada (5555702)
Chonglong Wang (3584984)
Ji-Bin Park (5555699)
Seong-Hee Jeong (5555696)
Ju-Eon Park (3602477)
Hawaibam Singh (5555705)
Seon-Won Kim (421793)

July 2018

Additional file 2: Table S3. Primers, plasmids and bacterial strains used in this study. Figure S6. ...

MOESM2 of Coordination between TGF-β cellular signaling and epigenetic regulation during epithelial to mesenchymal transition

Congcong Lu (3393974)
Simone Sidoli (167157)
Katarzyna Kulej (1482001)
Karen Ross (3530261)
Cathy Wu (216122)
Benjamin Garcia (3406175)

February 2019

Additional file 2: Table S1. Time-course monitoring of protein abundance changes during EMT. (A) Tot...

MOESM2 of Systems analysis of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

Abstract

Extracted data

MOESM2 of Systems analysis of methylerythritol-phosphate pathway flux in E. coli: insights into the role of oxidative stress and the validity of lycopene as an isoprenoid reporter metabolite

Abstract

Extracted data

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