@article{Prusa31122025,author={Prusa, Jerome and Gorelik, Mark G. and Blake, Kevin S. and Dantas, Gautam},title={State of omics-based microbial diagnostics of CRC},journal={Gut Microbes},volume={17},number={1},pages={2526132},year={2025},publisher={Taylor \& Francis},doi={10.1080/19490976.2025.2526132},note={*Co-first authorship. Preprint},url={https://doi.org/10.1080/19490976.2025.2526132},eprint={https://doi.org/10.1080/19490976.2025.2526132}}
2024
J. Bacteriol.
Multitier regulation of the E. coli extreme acid stress response by CsrA
Mark G. Gorelik, Helen Yakhnin, Archana Pannuri, and 5 more authors
@article{gorelik2024multitier,title={Multitier regulation of the E. coli extreme acid stress response by CsrA},author={Gorelik, Mark G. and Yakhnin, Helen and Pannuri, Archana and Walker, Alyssa C. and Pourciau, Christine and Czyz, Daniel M. and Babitzke, Paul and Romeo, Tony},journal={Journal of Bacteriology},year={2024},doi={10.1128/jb.00354-23},url={https://doi.org/10.1128/jb.00354-23},publisher={American Society for Microbiology},}
medRxiv
Improving Differentiation of Crohn’s Disease and Ulcerative Colitis Proteomes through Protein-Wide Association Study Feature Selection in Machine Learning
Mark G. Gorelik, Aaron J. Gorelik, Skye R. S. Fishbein, and 6 more authors
@article{gorelik2024improving,title={Improving Differentiation of Crohn's Disease and Ulcerative Colitis Proteomes through Protein-Wide Association Study Feature Selection in Machine Learning},author={Gorelik, Mark G. and Gorelik, Aaron J. and Fishbein, Skye R. S. and Fehlmann, Tara and Deepak, Parakkal and Bogdan, Ryan and Dantas, Gautam and Jain, Umang and Investigators, Sparc Ibd},journal={medRxiv},year={2024},doi={10.1101/2024.11.13.24316854},url={https://doi.org/10.1101/2024.11.13.24316854},}
Cell Chem. Biol.
A yeast-based oral therapeutic delivers immune checkpoint inhibitors to reduce intestinal tumor burden
Olivia N.* Rebeck, Miranda J.* Wallace, Jerome* Prusa, and 16 more authors
@article{rebeck2024yeast,title={A yeast-based oral therapeutic delivers immune checkpoint inhibitors to reduce intestinal tumor burden},author={Rebeck, Olivia N. and Wallace, Miranda J. and Prusa, Jerome and Ning, Jie and Evbuomwan, Esse M. and Rengarajan, Sunaina and {Habimana-Griffin}, LeMoyne and Kwak, Suryang and Zahrah, David and Tung, Jason and Liao, James and Mahmud, Bejan and Fishbein, Skye R. S. and Tovar, Erick S. Ramirez and Mehta, Rehan and Wang, Bin and Gorelik, Mark G. and Helmink, Beth A. and Dantas, Gautam},journal={Cell Chemical Biology},year={2024},doi={10.1016/j.chembiol.2024.10.013},url={https://doi.org/10.1016/j.chembiol.2024.10.013},note={*Co-first authorship},}
2023
Nat. Mental Health
Evaluating efficiency and accuracy of deep-learning-based approaches on study selection for psychiatry systematic reviews
Aaron J.* Gorelik, Mark G.* Gorelik, Kathryn K. Ridout, and 8 more authors
@article{gorelik2023evaluating,title={Evaluating efficiency and accuracy of deep-learning-based approaches on study selection for psychiatry systematic reviews},author={Gorelik, Aaron J. and Gorelik, Mark G. and Ridout, Kathryn K. and Nimarko, Akua F. and Peisch, Virginia and Kuramkote, Shamanth R. and Low, Michelle and Pan, Tracy and Singh, Simirthi and Nrusimha, Ananya and Singh, Manpreet K.},journal={Nature Mental Health},year={2023},doi={10.1038/s44220-023-00109-w},url={https://doi.org/10.1038/s44220-023-00109-w},note={*Co-first authorship},}
mBio
CsrA Coordinates the Expression of Ribosome Hibernation and Anti-σ Factor Proteins
Christine Pourciau, Helen Yakhnin, Archana Pannuri, and 4 more authors
@article{pourciau2023csra,title={CsrA Coordinates the Expression of Ribosome Hibernation and Anti-σ Factor Proteins},author={Pourciau, Christine and Yakhnin, Helen and Pannuri, Archana and Gorelik, Mark G. and Lai, Ying-Jung and Romeo, Tony and Babitzke, Paul},journal={mBio},year={2023},doi={10.1128/mbio.02585-23},url={https://doi.org/10.1128/mbio.02585-23},}
2022
Database
A roadmap for the functional annotation of protein families: a community perspective
Valérie Crécy-Lagard, Rocio Hegedus, Cecilia Arighi, and 56 more authors
@article{decrecy2022roadmap,title={A roadmap for the functional annotation of protein families: a community perspective},author={de Crécy-Lagard, Valérie and Amorin de Hegedus, Rocio and Arighi, Cecilia and Babor, Jill and Bateman, Alex and Blaby, Ian and Blaby-Haas, Crysten and Bridge, Alan J and Burley, Stephen K and Cleveland, Stacey and Colwell, Lucy J and Conesa, Ana and Dallago, Christian and Danchin, Antoine and de Waard, Anita and Deutschbauer, Adam and Dias, Raquel and Ding, Yousong and Fang, Gang and Friedberg, Iddo and Gerlt, John and Goldford, Joshua and Gorelik, Mark and Gyori, Benjamin M and Henry, Christopher and Hutinet, Geoffrey and Jaroch, Marshall and Karp, Peter D and Kondratova, Liudmyla and Lu, Zhiyong and Marchler-Bauer, Aron and Martin, Maria-Jesus and McWhite, Claire and Moghe, Gaurav D and Monaghan, Paul and Morgat, Anne and Mungall, Christopher J and Natale, Darren A and Nelson, William C and O'Donoghue, Sean and Orengo, Christine and O'Toole, Katherine H and Radivojac, Predrag and Reed, Colbie and Roberts, Richard J and Rodionov, Dmitri and Rodionova, Irina A and Rudolf, Jeffrey D and Saleh, Lana and Sheynkman, Gloria and Thibaud-Nissen, Francoise and Thomas, Paul D and Uetz, Peter and Vallenet, David and Carter, Erica Watson and Weigele, Peter R and Wood, Valerie and Wood-Charlson, Elisha M and Xu, Jin},journal={Database},year={2022},doi={10.1093/database/baac062},url={https://doi.org/10.1093/database/baac062},}
Transl. Psychiatry
Neural Correlates of Reward Processing Distinguish Healthy Youth at Familial Risk for Bipolar Disorder from Youth at Familial Risk for Major Depressive Disorder
Akua F. Nimarko, Aaron J. Gorelik, Kayla E. Carta, and 2 more authors
@article{nimarko2021neural,title={Neural Correlates of Reward Processing Distinguish Healthy Youth at Familial Risk for Bipolar Disorder from Youth at Familial Risk for Major Depressive Disorder},author={Nimarko, Akua F. and Gorelik, Aaron J. and Carta, Kayla E. and Gorelik, Mark G. and Singh, Manpreet K.},journal={Translational Psychiatry},year={2022},doi={10.1038/s41398-022-01800-9},url={https://doi.org/10.1038/s41398-022-01800-9},note={Published online 2021},}
2020
Front. Microbiol.
Diverse Mechanisms and Circuitry for Global Regulation by the RNA-Binding Protein CsrA
Christine Pourciau, Ying-Jung Lai, Mark Gorelik, and 2 more authors
@article{pourciau2020diverse,title={Diverse Mechanisms and Circuitry for Global Regulation by the RNA-Binding Protein CsrA},author={Pourciau, Christine and Lai, Ying-Jung and Gorelik, Mark and Babitzke, Paul and Romeo, Tony},journal={Frontiers in Microbiology},volume={11},year={2020},doi={10.3389/fmicb.2020.601352},url={https://www.frontiersin.org/articles/10.3389/fmicb.2020.601352/full},}
bioArxiv
Applying Machine Learning to Increase Efficiency and Accuracy of Meta-Analytic Review
Aaron J.* Gorelik, Mark G.* Gorelik, Kathryn K. Ridout, and 8 more authors
@article{gorelik2020applying,title={Applying Machine Learning to Increase Efficiency and Accuracy of Meta-Analytic Review},author={Gorelik, Aaron J. and Gorelik, Mark G. and Ridout, Kathryn K. and Nimarko, Akua F. and Peisch, Virginia and Kuramkote, Shamanth R. and Low, Michelle and Pan, Tracy and Singh, Simirthi and Nrusimha, Ananya and Singh, Manpreet K.},journal={bioRxiv},year={2020},doi={10.1101/2020.10.06.314245},url={https://www.biorxiv.org/content/10.1101/2020.10.06.314245v1},note={*Co-first authorship. Preprint},}