Giulia Palermo

ResearcherID Scopus Author ID Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 52

Top Venues

Nature communications

Journal of chemical information and modeling

Science advances

The Journal of chemical physics

University of California Riverside

Istituto Italiano di Tecnologia (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

University of California Riverside Jul 01 2018

United States

Assistant Professor :: Department of Bioengineering

Ecole Polytechnique Federal de Lausanne Laboratory of Computational Chemistry and Biochemistry - Dec 31 2015

Switzerland

Post-doctoral scientist :: Institute of Chemical Science and Engineering

Education History

Istituto Italiano di Tecnologia

Italy

PHD :: Drug Discovery and Development/Computational Chemistry

Universita degli Studi di Salerno Facolta di Farmacia

Italy

MSC

Publications

Evan A Schwartz, Jack P K Bravo, Mohd Ahsan, Luis A Macias, Caitlyn L McCafferty, Tyler L Dangerfield, Jada N Walker, Jennifer S Brodbelt, Giulia Palermo, Peter C Fineran, Robert D Fagerlund, David W Taylor
RNA targeting and cleavage by the type III-Dv CRISPR effector complex. Nature communications 15 (1) (2024)
Evan A Schwartz, Jack P K Bravo, Mohd Ahsan, Luis A Macias, Caitlyn L McCafferty, Tyler L Dangerfield, Jada N Walker, Jennifer S Brodbelt, Giulia Palermo, Peter C Fineran, Robert D Fagerlund, David W Taylor
RNA targeting and cleavage by the type III-Dv CRISPR effector complex. Nature communications 15 (1) (2024)
Evan A Schwartz, Jack P K Bravo, Mohd Ahsan, Luis A Macias, Caitlyn L McCafferty, Tyler L Dangerfield, Jada N Walker, Jennifer S Brodbelt, Giulia Palermo, Peter C Fineran, Robert D Fagerlund, David W Taylor
RNA targeting and cleavage by the type III-Dv CRISPR effector complex. Nature communications 15 (1) (2024)
Aakash Saha, Mohd Ahsan, Pablo R Arantes, Michael Schmitz, Christelle Chanez, Martin Jinek, Giulia Palermo
An alpha-helical lid guides the target DNA toward catalysis in CRISPR-Cas12a. Nature communications 15 (1) (2024)
Erin Skeens, Souvik Sinha, Mohd Ahsan, Alexandra M D'Ordine, Gerwald Jogl, Giulia Palermo, George P Lisi
High-fidelity, hyper-accurate, and evolved mutants rewire atomic-level communication in CRISPR-Cas9. Science advances 10 (10) (2024)
Evan A Schwartz, Jack P K Bravo, Mohd Ahsan, Luis A Macias, Caitlyn L McCafferty, Tyler L Dangerfield, Jada N Walker, Jennifer S Brodbelt, Giulia Palermo, Peter C Fineran, Robert D Fagerlund, David W Taylor
RNA targeting and cleavage by the type III-Dv CRISPR effector complex. Nature communications 15 (1) (2024)
Evan A Schwartz, Jack P K Bravo, Mohd Ahsan, Luis A Macias, Caitlyn L McCafferty, Tyler L Dangerfield, Jada N Walker, Jennifer S Brodbelt, Giulia Palermo, Peter C Fineran, Robert D Fagerlund, David W Taylor
RNA targeting and cleavage by the type III-Dv CRISPR effector complex. Nature communications 15 (1) (2024)
Aakash Saha, Mohd Ahsan, Pablo R Arantes, Michael Schmitz, Christelle Chanez, Martin Jinek, Giulia Palermo
An alpha-helical lid guides the target DNA toward catalysis in CRISPR-Cas12a. Nature communications 15 (1) (2024)
Erin Skeens, Souvik Sinha, Mohd Ahsan, Alexandra M D'Ordine, Gerwald Jogl, Giulia Palermo, George P Lisi
High-fidelity, hyper-accurate, and evolved mutants rewire atomic-level communication in CRISPR-Cas9. Science advances 10 (10) (2024)
Aakash Saha, Mohd Ahsan, Pablo R Arantes, Michael Schmitz, Christelle Chanez, Martin Jinek, Giulia Palermo
An alpha-helical lid guides the target DNA toward catalysis in CRISPR-Cas12a. Nature communications 15 (1) (2024)
Erin Skeens, Souvik Sinha, Mohd Ahsan, Alexandra M D'Ordine, Gerwald Jogl, Giulia Palermo, George P Lisi
High-fidelity, hyper-accurate, and evolved mutants rewire atomic-level communication in CRISPR-Cas9. Science advances 10 (10) (2024)
Aakash Saha, Mohd Ahsan, Pablo R Arantes, Michael Schmitz, Christelle Chanez, Martin Jinek, Giulia Palermo
An alpha-helical lid guides the target DNA toward catalysis in CRISPR-Cas12a. Nature communications 15 (1) (2024)
Evan A Schwartz, Jack P K Bravo, Mohd Ahsan, Luis A Macias, Caitlyn L McCafferty, Tyler L Dangerfield, Jada N Walker, Jennifer S Brodbelt, Giulia Palermo, Peter C Fineran, Robert D Fagerlund, David W Taylor
RNA targeting and cleavage by the type III-Dv CRISPR effector complex. Nature communications 15 (1) (2024)
Aakash Saha, Mohd Ahsan, Pablo R Arantes, Michael Schmitz, Christelle Chanez, Martin Jinek, Giulia Palermo
An alpha-helical lid guides the target DNA toward catalysis in CRISPR-Cas12a. Nature communications 15 (1) (2024)
Amun Patel, Souvik Sinha, Pablo Ricardo Arantes, Giulia Palermo
Unveiling Cas8 Dynamics and Regulation within a transposon-encoded Cascade-TniQ Complex. bioRxiv : the preprint server for biology (2024)
Erin Skeens, Souvik Sinha, Mohd Ahsan, Alexandra M D'Ordine, Gerwald Jogl, Giulia Palermo, George P Lisi
High-fidelity, hyper-accurate, and evolved mutants rewire atomic-level communication in CRISPR-Cas9. Science advances 10 (10) (2024)
Souvik Sinha, Mohd Ahsan, Giulia Palermo
Establishing the fundamental rules for genetic code expansion. Nature chemistry (2023)
Adrian M Molina Vargas, Raven M Osborn, Souvik Sinha, Pablo Ricardo Arantes, Amun Patel, Stephen Dewhurst, Giulia Palermo, Mitchell R O'Connell
New design strategies for ultra-specific CRISPR-Cas13a-based RNA-diagnostic tools with single-nucleotide mismatch sensitivity. bioRxiv : the preprint server for biology (2023)
Giulia Palermo, Thereza A Soares
Editorial: Editing DNA and RNA through Computations. Journal of chemical information and modeling 63 (24) (2023)
Souvik Sinha, Chinmai Pindi, Mohd Ahsan, Pablo R Arantes, Giulia Palermo
Machines on Genes through the Computational Microscope. Journal of chemical theory and computation (2023)
Giulia Palermo, Thereza A Soares
Editorial: Editing DNA and RNA through Computations. Journal of chemical information and modeling 63 (24) (2023)
Souvik Sinha, Adrian M Molina Vargas, Pablo R Arantes, Amun Patel, Mitchell R O'Connell, Giulia Palermo
Unveiling the RNA-mediated allosteric activation discloses functional hotspots in CRISPR-Cas13a. Nucleic acids research (2023)
Souvik Sinha, Adrian M Molina Vargas, Pablo R Arantes, Amun Patel, Mitchell R O'Connell, Giulia Palermo
RNA-mediated Allosteric Activation in CRISPR-Cas13a. bioRxiv : the preprint server for biology (2023)
Anshuman Kumar, Pablo R Arantes, Aakash Saha, Giulia Palermo, Bryan M Wong
GPU-Enhanced DFTB Metadynamics for Efficiently Predicting Free Energies of Biochemical Systems. Molecules (Basel, Switzerland) 28 (3) (2023)
Anshuman Kumar, Pablo R Arantes, Aakash Saha, Giulia Palermo, Bryan M Wong
GPU-Enhanced DFTB Metadynamics for Efficiently Predicting Free Energies of Biochemical Systems. Molecules (Basel, Switzerland) 28 (3) (2023)
Anshuman Kumar, Pablo R Arantes, Aakash Saha, Giulia Palermo, Bryan M Wong
GPU-Enhanced DFTB Metadynamics for Efficiently Predicting Free Energies of Biochemical Systems. Molecules (Basel, Switzerland) 28 (3) (2023)
Giulia Palermo
Celebrating the Next Generation of Women in Computational Chemistry to Increase Diversity, Equity, Inclusion, and Respect. Journal of chemical information and modeling 62 (17) (2022)
Helen B Belato, Carmelissa Norbrun, Jinping Luo, Chinmai Pindi, Souvik Sinha, Alexandra M D'Ordine, Gerwald Jogl, Giulia Palermo, George P Lisi
Disruption of electrostatic contacts in the HNH nuclease from a thermophilic Cas9 rewires allosteric motions and enhances high-temperature DNA cleavage. The Journal of chemical physics 157 (22) (2022)
Helen B Belato, Carmelissa Norbrun, Jinping Luo, Chinmai Pindi, Souvik Sinha, Alexandra M D'Ordine, Gerwald Jogl, Giulia Palermo, George P Lisi
Disruption of electrostatic contacts in the HNH nuclease from a thermophilic Cas9 rewires allosteric motions and enhances high-temperature DNA cleavage. The Journal of chemical physics 157 (22) (2022)
Jimin Wang, Erin Skeens, Pablo Ricardo Arantes, Federica Maschietto, Brandon Allen, Gregory W Kyro, George P Lisi, Giulia Palermo, Victor S Batista
Structural Basis for Reduced Dynamics of Three Engineered HNH Endonuclease Lys-to-Ala Mutants for the Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR)-Associated 9 (CRISPR/Cas9) Enzyme. Biochemistry 61 (9) (2022)
Marianna Rossetti, Rosa Merlo, Neda Bagheri, Danila Moscone, Anna Valenti, Aakash Saha, Pablo R Arantes, Rudy Ippodrino, Francesco Ricci, Ida Treglia, Elisabetta Delibato, John van der Oost, Giulia Palermo, Giuseppe Perugino, Alessandro Porchetta
Enhancement of CRISPR/Cas12a trans-cleavage activity using hairpin DNA reporters. Nucleic acids research 50 (14) (2022)
Giulia Palermo
Celebrating Women of Color in Computational Chemistry. Journal of chemical information and modeling 62 (13) (2022)
Helen B Belato, Carmelissa Norbrun, Jinping Luo, Chinmai Pindi, Souvik Sinha, Alexandra M D'Ordine, Gerwald Jogl, Giulia Palermo, George P Lisi
Disruption of electrostatic contacts in the HNH nuclease from a thermophilic Cas9 rewires allosteric motions and enhances high-temperature DNA cleavage. The Journal of chemical physics 157 (22) (2022)
Jinan Wang, Pablo R Arantes, Apurba Bhattarai, Rohaine V Hsu, Shristi Pawnikar, Yu-Ming M Huang, Giulia Palermo, Yinglong Miao
Gaussian accelerated molecular dynamics (GaMD): principles and applications. Wiley interdisciplinary reviews. Computational molecular science 11 (5) (2021)
Giulia Palermo, Yuji Sugita, Willy Wriggers, Rommie Elizabeth Amaro
Faces of Contemporary CryoEM Information and Modeling. Journal of chemical information and modeling 60 (5) (2021)
Nada Farag, Rosanna Mattossovich, Rosa Merlo, Łukasz Nierzwicki, Giulia Palermo, Alessandro Porchetta, Giuseppe Perugino, Francesco Ricci
Folding-upon-Repair DNA Nanoswitches for Monitoring the Activity of DNA Repair Enzymes. Angewandte Chemie (International ed. in English) 60 (13) (2021)
Lukasz Nierzwicki, Kyle W East, Uriel N Morzan, Pablo R Arantes, Victor S Batista, George P Lisi, Giulia Palermo
Enhanced specificity mutations perturb allosteric signaling in CRISPR-Cas9. eLife 10 (2021)
Kyle W East, Jocelyn C Newton, Uriel N Morzan, Yogesh B Narkhede, Atanu Acharya, Erin Skeens, Gerwald Jogl, Victor S Batista, Giulia Palermo, George P Lisi
Allosteric Motions of the CRISPR-Cas9 HNH Nuclease Probed by NMR and Molecular Dynamics. Journal of the American Chemical Society 142 (3) (2020)
Jennifer Y Cui, Fuming Zhang, Lukasz Nierzwicki, Giulia Palermo, Robert J Linhardt, George P Lisi
Mapping the Structural and Dynamic Determinants of pH-Sensitive Heparin Binding to Granulocyte Macrophage Colony Stimulating Factor. Biochemistry 59 (38) (2020)
Łukasz Nierzwicki, Pablo Ricardo Arantes, Aakash Saha, Giulia Palermo
Establishing the allosteric mechanism in CRISPR-Cas9. Wiley interdisciplinary reviews. Computational molecular science 11 (3) (2020)
Aakash Saha, Pablo Ricardo Arantes, Rohaine V Hsu, Yogesh B Narkhede, Martin Jinek, Giulia Palermo
Molecular Dynamics Reveals a DNA-Induced Dynamic Switch Triggering Activation of CRISPR-Cas12a. Journal of chemical information and modeling 60 (12) (2020)
Lorenzo Casalino, Łukasz Nierzwicki, Martin Jinek, Giulia Palermo
Catalytic Mechanism of Non-Target DNA Cleavage in CRISPR-Cas9 Revealed by Ab Initio Molecular Dynamics. ACS catalysis 10 (22) (2020)
Giulia Palermo, Yuji Sugita, Willy Wriggers, Rommie Elizabeth Amaro
Frontiers in CryoEM Modeling. Journal of chemical information and modeling 59 (7) (2019)
Kyle W East, Erin Skeens, Jennifer Y Cui, Helen B Belato, Brandon Mitchell, Rohaine Hsu, Victor S Batista, Giulia Palermo, George P Lisi
NMR and computational methods for molecular resolution of allosteric pathways in enzyme complexes. Biophysical reviews 12 (1) (2019)
Giulia Palermo, Kira A Armacost, Maria C Nagan
Women Make COMP: Mentoring the Next Generation of Women in Computational Chemistry. Journal of chemical information and modeling 59 (10) (2019)
Stefano Vanni, Laura Riccardi, Giulia Palermo, Marco De Vivo
Structure and Dynamics of the Acyl Chains in the Membrane Trafficking and Enzymatic Processing of Lipids. Accounts of chemical research 52 (11) (2019)
Giulia Palermo
Structure and Dynamics of the CRISPR-Cas9 Catalytic Complex. Journal of chemical information and modeling 59 (5) (2019)
Lorenzo Casalino, Giulia Palermo, Angelo Spinello, Ursula Rothlisberger, Alessandra Magistrato
All-atom simulations disentangle the functional dynamics underlying gene maturation in the intron lariat spliceosome. Proceedings of the National Academy of Sciences of the United States of America 115 (26) (2018)
Giulia Palermo, Yinglong Miao, Ross C Walker, Martin Jinek, J Andrew McCammon
CRISPR-Cas9 conformational activation as elucidated from enhanced molecular simulations. Proceedings of the National Academy of Sciences of the United States of America 114 (28) (2017)
Giulia Palermo, Clarisse G Ricci, Amendra Fernando, Rajshekhar Basak, Martin Jinek, Ivan Rivalta, Victor S Batista, J Andrew McCammon
Protospacer Adjacent Motif-Induced Allostery Activates CRISPR-Cas9. Journal of the American Chemical Society 139 (45) (2017)
Lorenzo Casalino, Giulia Palermo, Nodira Abdurakhmonova, Ursula Rothlisberger, Alessandra Magistrato
Development of Site-Specific Mg(2+)-RNA Force Field Parameters: A Dream or Reality? Guidelines from Combined Molecular Dynamics and Quantum Mechanics Simulations. Journal of chemical theory and computation 13 (1) (2016)
Zhujun Ma, Giulia Palermo, Zenita Adhireksan, Benjamin S Murray, Thibaud von Erlach, Paul J Dyson, Ursula Röthlisberger, Curtis A Davey
An Organometallic Compound which Exhibits a DNA Topology-Dependent One-Stranded Intercalation Mode. Angewandte Chemie (International ed. in English) 55 (26) (2016)

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Publication Activity (10 Years)

Top Topics

Top Venues

Giulia Palermo