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Full list of published articles

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A D-2-hydroxyglutarate dehydrogenase mutant reveals a critical role for ketone body metabolism in Caenorhabditis elegans development
A D-2-hydroxyglutarate dehydrogenase mutant reveals a critical role for ketone body metabolism in Caenorhabditis elegans development
Olga Ponomarova, Hefei Zhang, Xuhang Li, Shivani Nanda, Thomas B Leland, ..., Alyxandra N Starbard, Gabrielle E Giese, Frank C Schroeder, L Safak Yilmaz, Albertha J M Walhout
PLoS biology   ·   12 Apr 2023   ·   pmc:PMC10096224

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2023

A D-2-hydroxyglutarate dehydrogenase mutant reveals a critical role for ketone body metabolism in Caenorhabditis elegans development
A D-2-hydroxyglutarate dehydrogenase mutant reveals a critical role for ketone body metabolism in Caenorhabditis elegans development
Olga Ponomarova, Hefei Zhang, Xuhang Li, Shivani Nanda, Thomas B. Leland, ..., Alyxandra N. Starbard, Gabrielle E. Giese, Frank C. Schroeder, L. Safak Yilmaz, Albertha J. M. Walhout
PLOS Biology   ·   12 Apr 2023   ·   doi:10.1371/journal.pbio.3002057
A D-2-hydroxyglutarate dehydrogenase mutant reveals a critical role for ketone body metabolism in Caenorhabditis elegans development
A D-2-hydroxyglutarate dehydrogenase mutant reveals a critical role for ketone body metabolism in Caenorhabditis elegans development
Olga Ponomarova, Hefei Zhang, Xuhang Li, Shivani Nanda, Thomas B Leland, ..., Alyxandra N Starbard, Gabrielle E Giese, Frank C Schroeder, L Safak Yilmaz, Albertha J M Walhout
PLoS biology   ·   12 Apr 2023   ·   pmc:PMC10096224
Evolved bacterial resistance to the chemotherapy gemcitabine modulates its efficacy in co-cultured cancer cells
Evolved bacterial resistance to the chemotherapy gemcitabine modulates its efficacy in co-cultured cancer cells
Serkan Sayin, Brittany Rosener, Carmen G Li, Bao Ho, Olga Ponomarova, Doyle V Ward, Albertha JM Walhout, Amir Mitchell
eLife   ·   03 Feb 2023   ·   doi:10.7554/eLife.83140

2022

Bacterial diet modulates tamoxifen-induced death via host fatty acid metabolism
Bacterial diet modulates tamoxifen-induced death via host fatty acid metabolism
Cédric Diot, Aurian P. García-González, Andre F. Vieira, Melissa Walker, Megan Honeywell, ..., Huimin Na, Hefei Zhang, Michael Lee, Carissa P. Olsen, Albertha J. M. Walhout
Nature Communications   ·   23 Sep 2022   ·   doi:10.1038/s41467-022-33299-5
Teaming up to make kombucha
Teaming up to make kombucha
Olga Ponomarova
eLife   ·   11 Aug 2022   ·   doi:10.7554/eLife.81670
C. elegans as a model for inter-individual variation in metabolism
C. elegans as a model for inter-individual variation in metabolism
Bennett W. Fox, Olga Ponomarova, Yong-Uk Lee, Gaotian Zhang, Gabrielle E. Giese, ..., Stefan Zdraljevic, L. Safak Yilmaz, Erik C. Andersen, Frank C. Schroeder, Albertha J. M. Walhout
Nature   ·   06 Jul 2022   ·   doi:10.1038/s41586-022-04951-3

2021

WormPaths: Caenorhabditis elegans metabolic pathway annotation and visualization
WormPaths: Caenorhabditis elegans metabolic pathway annotation and visualization
Melissa D Walker, Gabrielle E Giese, Amy D Holdorf, Sushila Bhattacharya, Cédric Diot, ..., Olga Ponomarova, Hefei Zhang, Jingyan Zhang, L Safak Yilmaz, Albertha J M Walhout
Genetics   ·   26 Aug 2021   ·   pmc:PMC8864737
WormPaths: <i>Caenorhabditis elegans</i> metabolic pathway annotation and visualization
WormPaths: Caenorhabditis elegans metabolic pathway annotation and visualization
Melissa D Walker, Gabrielle E Giese, Amy D Holdorf, Sushila Bhattacharya, Cédric Diot, ..., Olga Ponomarova, Hefei Zhang, Jingyan Zhang, L Safak Yilmaz, Albertha J M Walhout
Genetics   ·   12 Jun 2021   ·   doi:10.1093/genetics/iyab089

2020

Open collaborative writing with Manubot
Open collaborative writing with Manubot
Daniel S. Himmelstein, Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene, Anthony Gitter
PLOS Computational Biology   ·   04 Dec 2020   ·   doi:10.1371/journal.pcbi.1007128
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<i>Caenorhabditis elegans</i> methionine/S-adenosylmethionine cycle activity is sensed and adjusted by a nuclear hormone receptor
Caenorhabditis elegans methionine/S-adenosylmethionine cycle activity is sensed and adjusted by a nuclear hormone receptor
Gabrielle E Giese, Melissa D Walker, Olga Ponomarova, Hefei Zhang, Xuhang Li, Gregory Minevich, Albertha Jm Walhout
eLife   ·   05 Oct 2020   ·   pmc:PMC7561351
Caenorhabditis elegans methionine/S-adenosylmethionine cycle activity is sensed and adjusted by a nuclear hormone receptor
Caenorhabditis elegans methionine/S-adenosylmethionine cycle activity is sensed and adjusted by a nuclear hormone receptor
Gabrielle E Giese, Melissa D Walker, Olga Ponomarova, Hefei Zhang, Xuhang Li, Gregory Minevich, Albertha JM Walhout
eLife   ·   05 Oct 2020   ·   doi:10.7554/elife.60259
Constructing knowledge graphs and their biomedical applications
Constructing knowledge graphs and their biomedical applications
David N. Nicholson, Casey S. Greene
Computational and Structural Biotechnology Journal   ·   01 Jan 2020   ·   doi:10.1016/j.csbj.2020.05.017

2019

Genome-wide prediction of synthetic rescue mediators of resistance to targeted and immunotherapy
Genome-wide prediction of synthetic rescue mediators of resistance to targeted and immunotherapy
Avinash Das Sahu, Joo S Lee, Zhiyong Wang, Gao Zhang, Ramiro Iglesias-Bartolome, ..., Cyril Benes, Keith Flaherty, Ji Luo, J Silvio Gutkind, Eytan Ruppin
Molecular systems biology   ·   11 Mar 2019   ·   pmc:PMC6413886
Genome‐wide prediction of synthetic rescue mediators of resistance to targeted and immunotherapy
Genome‐wide prediction of synthetic rescue mediators of resistance to targeted and immunotherapy
Avinash Das Sahu, Joo S Lee, Zhiyong Wang, Gao Zhang, Ramiro Iglesias‐Bartolome, ..., Cyril Benes, Keith Flaherty, Ji Luo, J Silvio Gutkind, Eytan Ruppin
Molecular Systems Biology   ·   01 Mar 2019   ·   doi:10.15252/msb.20188323

2018

C. elegans MRP-5 Exports Vitamin B12 from Mother to Offspring to Support Embryonic Development
C. elegans MRP-5 Exports Vitamin B12 from Mother to Offspring to Support Embryonic Development
Huimin Na, Olga Ponomarova, Gabrielle E Giese, Albertha J M Walhout
Cell reports   ·   20 Mar 2018   ·   pmc:PMC5896776
Sci-Hub provides access to nearly all scholarly literature
Sci-Hub provides access to nearly all scholarly literature
Daniel S Himmelstein, Ariel Rodriguez Romero, Jacob G Levernier, Thomas Anthony Munro, Stephen Reid McLaughlin, Bastian Greshake Tzovaras, Casey S Greene
eLife   ·   01 Mar 2018   ·   doi:10.7554/eLife.32822
C. elegans MRP-5 Exports Vitamin B12 from Mother to Offspring to Support Embryonic Development
C. elegans MRP-5 Exports Vitamin B12 from Mother to Offspring to Support Embryonic Development
Huimin Na, Olga Ponomarova, Gabrielle E. Giese, Albertha J.M. Walhout
Cell Reports   ·   01 Mar 2018   ·   doi:10.1016/j.celrep.2018.02.100

2017

Yeast Creates a Niche for Symbiotic Lactic Acid Bacteria through Nitrogen Overflow
Yeast Creates a Niche for Symbiotic Lactic Acid Bacteria through Nitrogen Overflow
Olga Ponomarova, Natalia Gabrielli, Daniel C Sévin, Michael Mülleder, Katharina Zirngibl, ..., Eleni Kafkia, Athanasios Typas, Uwe Sauer, Markus Ralser, Kiran Raosaheb Patil
Cell systems   ·   25 Oct 2017   ·   pmc:PMC5660601
Yeast Creates a Niche for Symbiotic Lactic Acid Bacteria through Nitrogen Overflow
Yeast Creates a Niche for Symbiotic Lactic Acid Bacteria through Nitrogen Overflow
Olga Ponomarova, Natalia Gabrielli, Daniel C. Sévin, Michael Mülleder, Katharina Zirngibl, ..., Eleni Kafkia, Athanasios Typas, Uwe Sauer, Markus Ralser, Kiran Raosaheb Patil
Cell Systems   ·   01 Oct 2017   ·   doi:10.1016/j.cels.2017.09.002

2016

Saccharomyces cerevisiae metabolism in ecological context
Saccharomyces cerevisiae metabolism in ecological context
Paula Jouhten, Olga Ponomarova, Ramon Gonzalez, Kiran R Patil
FEMS yeast research   ·   01 Nov 2016   ·   pmc:PMC5050001
<i>Saccharomyces cerevisiae</i>metabolism in ecological context
Saccharomyces cerevisiaemetabolism in ecological context
Paula Jouhten, Olga Ponomarova, Ramon Gonzalez, Kiran R. Patil
FEMS Yeast Research   ·   14 Sep 2016   ·   doi:10.1093/femsyr/fow080

2015

Metabolic interactions in microbial communities: untangling the Gordian knot
Metabolic interactions in microbial communities: untangling the Gordian knot
Olga Ponomarova, Kiran Raosaheb Patil
Current Opinion in Microbiology   ·   01 Oct 2015   ·   doi:10.1016/j.mib.2015.06.014
Metabolic dependencies drive species co-occurrence in diverse microbial communities
Metabolic dependencies drive species co-occurrence in diverse microbial communities
Aleksej Zelezniak, Sergej Andrejev, Olga Ponomarova, Daniel R Mende, Peer Bork, Kiran Raosaheb Patil
Proceedings of the National Academy of Sciences of the United States of America   ·   19 May 2015   ·   pmc:PMC4443341
Metabolic dependencies drive species co-occurrence in diverse microbial communities
Metabolic dependencies drive species co-occurrence in diverse microbial communities
Aleksej Zelezniak, Sergej Andrejev, Olga Ponomarova, Daniel R. Mende, Peer Bork, Kiran Raosaheb Patil
Proceedings of the National Academy of Sciences   ·   04 May 2015   ·   doi:10.1073/pnas.1421834112

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