Publications

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2024

A contact‐based analysis of local energetic frustration dynamics identifies key residues enabling

Protein Science

J. González‐Higueras, M. Inés Freiberger, P. Galaz‐Davison, G. R. Parra, and C. A. Ramírez‐Sarmiento
Multi-omic and single-cell profiling of chromothriptic medulloblastoma reveals genomic and transcriptomic consequences of genome instabilityAbstract

Nature Communications

P. Smirnov, M. J. Przybilla, M. Simovic-Lorenz, G. R. Parra, H. Susak, M. Ratnaparkhe, J. K. L. Wong, V. Körber, J-P. Mallm, G. Philippos, M. Sill, T. Kolb, R. Kumar, N. Casiraghi, K. Okonechnikov, D. R. Ghasemi, K. Korinna Maaß, K. W. Pajtler, A. Jauch, A. Korshunov, T. Höfer, M. Zapatka, S. M. Pfister, W. Huber, O. Stegle, and A. Ernst
A contact‐based analysis of local energetic frustration dynamics identifies key residues enabling Abstract

Protein Science

J. González‐Higueras, M. Inés Freiberger, P. Galaz‐Davison, G. R. Parra, and C. A. Ramírez‐Sarmiento
Frustraevo: a web server to localize and quantify the conservation of local energetic frustration in protein familiesAbstract

Nucleic Acids Research

G. R. Parra, M. I. Freiberger, M. Poley-Gil, M. Fernandez-Martin, L. G. Radusky, V. Ruiz-Serra, P. G. Wolynes, D. U. Ferreiro, and A. Valencia

2023

Local energetic frustration conservation in protein families and superfamilies

Nature Communications

M. I. Freiberger, V. Ruiz-Serra, C. Pontes, M. Romero-Durana, P. Galaz-Davison, C. A. Ramírez-Sarmiento, C. D. Schuster, M. A. Marti, P. G. Wolynes, D. U. Ferreiro, G. R. Parra, and A. Valencia

2022

Resolving the fine structure in the energy landscapes of repeat proteinsAbstract

QRB Discovery

M. N. Sanches, G. R. Parra, R. G. Viegas, A. B. Oliveira, P. G. Wolynes, D. U. Ferreiro, and V. B. P. Leite

2021

FrustratometeR: an R-package to compute local frustration in protein structures, point mutants and MD simulationsAbstractSummaryAvailability and implementationSupplementary information

Bioinformatics

A. O. Rausch, M. I. Freiberger, C. O. Leonetti, D. M. Luna, L. G. Radusky, P. G. Wolynes, D. U. Ferreiro, and G. R. Parra

2019

Reconstructing complex lineage trees from scRNA-seq data using MERLoTAbstract

Nucleic Acids Research

G. R. Parra, N. Papadopoulos, L. Ahumada-Arranz, J. El Kholtei, N. Mottelson, Y. Horokhovsky, B. Treutlein, and J. Soeding
Local frustration around enzyme active sitesSignificance

Proceedings of the National Academy of Sciences

M. I. Freiberger, B. A. Guzovsky, P. G. Wolynes, G. R. Parra, and D. U. Ferreiro

2017

Inferring repeat-protein energetics from evolutionary information

PLOS Computational Biology

R. Espada, G. R. Parra, T. Mora, A. M. Walczak, and D. U. Ferreiro

Pages