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1

Computational tools and workflows in metabolomics: An international survey highlights the opportunity for harmonisation through Galaxy

Weber, Ralf J. M., Lawson, Thomas N., Salek, Reza M., Ebbels, Timothy M. D., Glen, Robert C., Goodacre, Royston, Griffin, Julian L., Haug, Kenneth, Koulman, Albert, Moreno, Pablo, Ralser, Markus, Stei

Journal:

Year:

2017

Language:

english

File:

PDF, 462 KB

english, 2017

2

Sulfate radicals enable a non-enzymatic Krebs cycle precursor

Keller, Markus A., Kampjut, Domen, Harrison, Stuart A., Ralser, Markus

Journal:

Nature Ecology & Evolution

Year:

2017

Language:

english

File:

PDF, 765 KB

english, 2017

3

Freeing Yeast from Alcohol Addiction (Just) to Make (It) Fat Instead

Patil, Kiran R., Ralser, Markus

Journal:

Year:

2018

Language:

english

File:

PDF, 434 KB

english, 2018

4

Machine Learning Predicts the Yeast Metabolome from the Quantitative Proteome of Kinase Knockouts

Zelezniak, Aleksej, Vowinckel, Jakob, Capuano, Floriana, Messner, Christoph B., Demichev, Vadim, Polowsky, Nicole, Mülleder, Michael, Kamrad, Stephan, Klaus, Bernd, Keller, Markus A., Ralser, Markus

Journal:

Year:

2018

Language:

english

File:

PDF, 5.55 MB

english, 2018

5

An efficient and economic enhancer mix for PCR

Markus Ralser, Robert Querfurth, Hans-Jörg Warnatz, Hans Lehrach, Marie-Laure Yaspo, Sylvia Krobitsch

Journal:

Biochemical and Biophysical Research Communications

Year:

2006

Language:

english

File:

PDF, 426 KB

english, 2006

6

A prototrophic deletion mutant collection for yeast metabolomics and systems biology

Mülleder, Michael, Capuano, Floriana, Pir, Pınar, Christen, Stefan, Sauer, Uwe, Oliver, Stephen G, Ralser, Markus

Journal:

Nature Biotechnology

Year:

2012

Language:

english

File:

PDF, 612 KB

english, 2012

7

Methionine metabolism alters oxidative stress resistance via the pentose phosphate pathway

Campbell, Kate, Vowinckel, Jakob, Keller, Markus A., Ralser, Markus

Journal:

Antioxidants & Redox Signaling

Year:

2015

Language:

english

File:

PDF, 375 KB

english, 2015

8

An unbiased metabolomic investigation of the Alzheimer’s disease brain points to a dysregulation of the mitochondrial aspartate metabolism

Paglia, Giuseppe, Stocchero, Matteo, Cacciatore, Stefano, Lai, Steven, Angel, Peggi M, Alam, Mohammad T, Keller, Markus, Ralser, Markus, Astarita, Giuseppe

Journal:

Journal of Proteome Research

Year:

2015

Language:

english

File:

PDF, 1.75 MB

english, 2015

9

Functional Metabolomics Describes the Yeast Biosynthetic Regulome

Mülleder, Michael, Calvani, Enrica, Alam, Mohammad Tauqeer, Wang, Richard Kangda, Eckerstorfer, Florian, Zelezniak, Aleksej, Ralser, Markus

Journal:

Year:

2016

Language:

english

File:

PDF, 3.70 MB

english, 2016

10

Nonenzymatic gluconeogenesis-like formation of fructose 1,6-bisphosphate in ice

Messner, Christoph B., Driscoll, Paul C., Piedrafita, Gabriel, De Volder, Michael F. L., Ralser, Markus

Journal:

Proceedings of the National Academy of Sciences

Year:

2017

Language:

english

File:

PDF, 741 KB

english, 2017

11

Cost-effective generation of precise label-free quantitative proteomes in high-throughput by microLC and data-independent acquisition

Vowinckel, Jakob, Zelezniak, Aleksej, Bruderer, Roland, Mülleder, Michael, Reiter, Lukas, Ralser, Markus

Journal:

Scientific Reports

Year:

2018

Language:

english

File:

PDF, 2.75 MB

english, 2018

12

The next decade of metabolism

Bäckhed, Fredrik, Bugianesi, Elisabetta, Christofk, Heather, Dikic, Ivan, Gupta, Rana, Mair, William B., O’Neill, Luke A. J., Ralser, Markus, Sabatini, David M., Tschöp, Matthias

Journal:

Nature Metabolism

Year:

2019

Language:

english

File:

PDF, 547 KB

english, 2019

13

Sequencing and genotypic analysis of the triosephosphate isomerase (TPI1) locus in a large sample of long-lived Germans

Markus Ralser, Almut Nebel, Rabea Kleindorp, Sylvia Krobitsch, Hans Lehrach, Stefan Schreiber, Richard Reinhardt, Bernd Timmermann

Journal:

Year:

2008

Language:

english

File:

PDF, 570 KB

english, 2008

14

Dynamic rerouting of the carbohydrate flux is key to counteracting oxidative stress

Markus Ralser, Mirjam M Wamelink, Axel Kowald, Birgit Gerisch, Gino Heeren, Eduard A Struys, Edda Klipp, Cornelis Jakobs, Michael Breitenbach, Hans Lehrach, Sylvia Krobitsch

Journal:

Journal of Biology

Year:

2007

Language:

english

File:

PDF, 1.07 MB

english, 2007

15

Human Induced Pluripotent Stem Cells Harbor Homoplasmic and Heteroplasmic Mitochondrial DNA Mutations While Maintaining Human Embryonic Stem Cell–like Metabolic Reprogramming

Alessandro Prigione, Björn Lichtner, Heiner Kuhl, Eduard A. Struys, Mirjam Wamelink, Hans Lehrach, Markus Ralser, Bernd Timmermann, James Adjaye

Journal:

Year:

2011

Language:

english

File:

PDF, 650 KB

english, 2011

16

The difference between rare and exceptionally rare: molecular characterization of ribose 5-phosphate isomerase deficiency

Mirjam M. C. Wamelink, Nana-Maria Grüning, Erwin E. W. Jansen, Katharina Bluemlein, Hans Lehrach, Cornelis Jakobs, Markus Ralser

Journal:

Journal of Molecular Medicine

Year:

2010

Language:

english

File:

PDF, 394 KB

english, 2010

17

Metabolic reconfiguration precedes transcriptional regulation in the antioxidant response

Ralser, Markus, Wamelink, Mirjam M C, Latkolik, Simone, Jansen, Erwin E W, Lehrach, Hans, Jakobs, Cornelis

Journal:

Nature Biotechnology

Year:

2009

Language:

english

File:

PDF, 241 KB

english, 2009

18

Monitoring protein expression in whole-cell extracts by targeted label- and standard-free LC-MS/MS

Bluemlein, Katharina, Ralser, Markus

Journal:

Nature Protocols

Year:

2011

Language:

english

File:

PDF, 625 KB

english, 2011

19

Regulatory crosstalk of the metabolic network

Nana-Maria Grüning, Hans Lehrach, Markus Ralser

Journal:

Trends in Biochemical Sciences

Year:

2010

Language:

english

File:

PDF, 494 KB

english, 2010

20

Reductive stress on life span extension inC. elegans

Markus Ralser, Ivor J Benjamin

Journal:

BMC Research Notes

Year:

2008

Language:

english

File:

PDF, 187 KB

english, 2008

21

Pyruvate Kinase Triggers a Metabolic Feedback Loop that Controls Redox Metabolism in Respiring Cells

Nana-Maria Grüning, Mark Rinnerthaler, Katharina Bluemlein, Michael Mülleder, Mirjam M.C. Wamelink, Hans Lehrach, Cornelis Jakobs, Michael Breitenbach, Markus Ralser

Journal:

Cell Metabolism

Year:

2011

Language:

english

File:

PDF, 1.82 MB

english, 2011

22

An Integrative Approach to Gain Insights into the Cellular Function of Human Ataxin-2

Markus Ralser, Mario Albrecht, Ute Nonhoff, Thomas Lengauer, Hans Lehrach, Sylvia Krobitsch

Journal:

Journal of Molecular Biology

Year:

2005

Language:

english

File:

PDF, 474 KB

english, 2005

23

Histaminylation of glutamine residues is a novel posttranslational modification implicated in G-protein signaling

Jakob Vowinckel, Silke Stahlberg, Nils Paulmann, Katharina Bluemlein, Maik Grohmann, Markus Ralser, Diego J. Walther

Journal:

Year:

2012

Language:

english

File:

PDF, 705 KB

english, 2012

24

Genomanalyse von Modellorganismen:Saccharomyces cerevisiae

Ralser, Markus, Timmermann, Bernd

Journal:

Year:

2012

Language:

german

File:

PDF, 377 KB

german, 2012

25

Cancer: Sacrifice for survival

Grüning, Nana-Maria, Ralser, Markus

Journal:

Year:

2011

Language:

english

File:

PDF, 563 KB

english, 2011

26

HIF1α Modulates Cell Fate Reprogramming Through Early Glycolytic Shift and Upregulation of PDK1-3 and PKM2

Prigione, Alessandro, Rohwer, Nadine, Hoffmann, Sheila, Mlody, Barbara, Drews, Katharina, Bukowiecki, Raul, Blümlein, Katharina, Wanker, Erich E., Ralser, Markus, Cramer, Thorsten, Adjaye, James

Journal:

Year:

2014

Language:

english

File:

PDF, 826 KB

english, 2014

27

Mitochondria in ageing: there is metabolism beyond the ROS

Breitenbach, Michael, Rinnerthaler, Mark, Hartl, Johannes, Stincone, Anna, Vowinckel, Jakob, Breitenbach-Koller, Hannelore, Ralser, Markus

Journal:

FEMS Yeast Research

Year:

2014

Language:

english

File:

PDF, 575 KB

english, 2014

28

Cytosine DNA Methylation Is Found in Drosophila melanogaster but Absent in Saccharomyces cerevisiae, Schizosaccharomyces pombe , and Other Yeast Species

Capuano, Floriana, Mülleder, Michael, Kok, Robert, Blom, Henk J, Ralser, Markus

Journal:

Analytical Chemistry

Year:

2014

Language:

english

File:

PDF, 857 KB

english, 2014

29

Hyperpolarized [U- 2 H, U- 13 C]Glucose reports on glycolytic and pentose phosphate pathway activity in EL4 tumors and glycolytic activity in yeast cells

Timm, Kerstin N., Hartl, Johannes, Keller, Markus A., Hu, De-En, Kettunen, Mikko I., Rodrigues, Tiago B., Ralser, Markus, Brindle, Kevin M.

Journal:

Magnetic Resonance in Medicine

Year:

2014

Language:

english

File:

PDF, 483 KB

english, 2014

30

A gatekeeper helix determines the substrate specificity of Sjögren–Larsson Syndrome enzyme fatty aldehyde dehydrogenase

Keller, Markus A., Zander, Ulrich, Fuchs, Julian E., Kreutz, Christoph, Watschinger, Katrin, Mueller, Thomas, Golderer, Georg, Liedl, Klaus R., Ralser, Markus, Kräutler, Bernhard, Werner, Ernst R., Ma

Journal:

Nature Communications

Year:

2014

Language:

english

File:

PDF, 1.81 MB

english, 2014

31

A haploproficient interaction of the transaldolase paralogue NQM1 with the transcription factor VHR1 affects stationary phase survival and oxidative stress resistance

Michel, Steve, Keller, Markus A, Wamelink, Mirjam, Ralser, Markus

Journal:

Year:

2015

Language:

english

File:

PDF, 2.08 MB

english, 2015

32

Warburg effect and translocation-induced genomic instability: two yeast models for cancer cells

Tosato, Valentina, Grüning, Nana-Maria, Breitenbach, Michael, Arnak, Remigiusz, Ralser, Markus, Bruschi, Carlo V.

Journal:

Frontiers in Oncology

Year:

2013

Language:

english

File:

PDF, 966 KB

english, 2013

33

Remaining Mysteries of Molecular Biology: The Role of Polyamines in the Cell

Miller-Fleming, Leonor, Olin-Sandoval, Viridiana, Campbell, Kate, Ralser, Markus

Journal:

Journal of Molecular Biology

Year:

2015

Language:

english

File:

PDF, 1.19 MB

english, 2015

34

MitoLoc: A method for the simultaneous quantification mitochondrial network morphology and membrane potential in single cells

Vowinckel, Jakob, Hartl, Johannes, Butler, Richard, Ralser, Markus

Journal:

Year:

2015

Language:

english

File:

PDF, 1.03 MB

english, 2015

35

Regulation of ribosomal DNA amplification by the TOR pathway

Jack, Carmen V., Cruz, Cristina, Hull, Ryan M., Keller, Markus A., Ralser, Markus, Houseley, Jonathan

Journal:

Proceedings of the National Academy of Sciences

Year:

2015

Language:

english

File:

PDF, 1.17 MB

english, 2015

36

Metabolic Remodeling in Times of Stress: Who Shoots Faster than His Shadow?

Dick, Tobias P., Ralser, Markus

Journal:

Year:

2015

Language:

english

File:

PDF, 304 KB

english, 2015

37

Analysis of the Drosophila melanogaster proteome dynamics during the embryo early development by a combination of label-free proteomics approaches

Fabre, Bertrand, Korona, Dagmara, Groen, Arnoud, Vowinckel, Jakob, Gatto, Laurent, Deery, Mike J, Ralser, Markus, Russell, Steven, Lilley, Kathryn S

Journal:

Year:

2016

Language:

english

File:

PDF, 2.41 MB

english, 2016

38

Cell-to-cell heterogeneity emerges as consequence of metabolic cooperation in a synthetic yeast community

Campbell, Kate, Vowinckel, Jakob, Ralser, Markus

Journal:

Biotechnology Journal

Year:

2016

Language:

english

File:

PDF, 352 KB

english, 2016

39

The RNA world and the origin of metabolic enzymes: Figure 1

Journal:

Biochemical Society Transactions

Year:

2014

Language:

english

File:

PDF, 156 KB

english, 2014

40

THADA Regulates the Organismal Balance between Energy Storage and Heat Production

Moraru, Alexandra, Cakan-Akdogan, Gulcin, Strassburger, Katrin, Males, Matilda, Mueller, Sandra, Jabs, Markus, Muelleder, Michael, Frejno, Martin, Braeckman, Bart P., Ralser, Markus, Teleman, Aurelio

Journal:

Developmental Cell

Year:

2017

Language:

english

File:

PDF, 3.09 MB

english, 2017

41

THADA Regulates the Organismal Balance between Energy Storage and Heat Production

Moraru, Alexandra, Cakan-Akdogan, Gulcin, Strassburger, Katrin, Males, Matilda, Mueller, Sandra, Jabs, Markus, Muelleder, Michael, Frejno, Martin, Braeckman, Bart P., Ralser, Markus, Teleman, Aurelio

Journal:

Developmental Cell

Year:

2017

Language:

english

File:

PDF, 632 KB

english, 2017

42

Metabolic Adaptation to Oxidative Stress

Journal:

Free Radical Biology and Medicine

Year:

2017

Language:

english

File:

PDF, 51 KB

english, 2017

43

Tpo1-mediated spermine and spermidine export controls cell cycle delay and times antioxidant protein expression during the oxidative stress response

Krüger, Antje, Vowinckel, Jakob, Mülleder, Michael, Grote, Phillip, Capuano, Floriana, Bluemlein, Katharina, Ralser, Markus

Journal:

Year:

2013

Language:

english

File:

PDF, 638 KB

english, 2013

44

Designing and interpreting ‘multi-omic’ experiments that may change our understanding of biology

Haas, Robert, Zelezniak, Aleksej, Iacovacci, Jacopo, Karmad, Sephan, Townsend, StJohn, Ralser, Markus

Journal:

Current Opinion in Systems Biology

Year:

2017

Language:

english

File:

PDF, 865 KB

english, 2017

45

A High-Throughput Method for the Quantitative Determination of Free Amino Acids in Saccharomyces cerevisiae by Hydrophilic Interaction Chromatography–Tandem Mass Spectrometry

Mülleder, Michael, Bluemlein, Katharina, Ralser, Markus

Journal:

Cold Spring Harbor Protocols

Year:

2017

Language:

english

File:

PDF, 375 KB

english, 2017

46

Metabolomics in Yeast

Caudy, Amy A., Mülleder, Michael, Ralser, Markus

Journal:

Cold Spring Harbor Protocols

Year:

2017

Language:

english

File:

PDF, 209 KB

english, 2017

47

Yeast Creates a Niche for Symbiotic Lactic Acid Bacteria through Nitrogen Overflow

Ponomarova, Olga, Gabrielli, Natalia, Sévin, Daniel C., Mülleder, Michael, Zirngibl, Katharina, Bulyha, Katsiaryna, Andrejev, Sergej, Kafkia, Eleni, Typas, Athanasios, Sauer, Uwe, Ralser, Markus, Pati

Journal:

Year:

2017

Language:

english

File:

PDF, 2.42 MB

english, 2017

48

Partitioning of One-Carbon Units in Folate and Methionine Metabolism Is Essential for Neural Tube Closure

Leung, Kit-Yi, Pai, Yun Jin, Chen, Qiuying, Santos, Chloe, Calvani, Enrica, Sudiwala, Sonia, Savery, Dawn, Ralser, Markus, Gross, Steven S., Copp, Andrew J., Greene, Nicholas D.E.

Journal:

Year:

2017

Language:

english

File:

PDF, 3.97 MB

english, 2017

49

Biochemical principles enabling metabolic cooperativity and phenotypic heterogeneity at the single cell level

Campbell, Kate, Herrera-Dominguez, Lucia, Correia-Melo, Clara, Zelezniak, Aleksej, Ralser, Markus

Journal:

Current Opinion in Systems Biology

Year:

2017

Language:

english

File:

PDF, 1.95 MB

english, 2017

50

Variable repeats in the eukaryotic polyubiquitin gene ubi4 modulate proteostasis and stress survival

Gemayel, Rita, Yang, Yudi, Dzialo, Maria C., Kominek, Jacek, Vowinckel, Jakob, Saels, Veerle, Van Huffel, Leen, van der Zande, Elisa, Ralser, Markus, Steensels, Jan, Voordeckers, Karin, Verstrepen, Ke

Journal:

Nature Communications

Year:

2017

Language:

english

File:

PDF, 871 KB

english, 2017