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2022

Identifying cellular cancer mechanisms through pathway-driven data integration

Identifying cellular cancer mechanisms through pathway-driven data integration

S. F. L. Windels, N. Malod-Dognin, and N. Pržulj
Big Data to Knowledge Analytics Reveals the Zika Virus Epidemic as Only One of Multiple Factors Contributing to a Year-Over-Year 28-Fold Increase in Microcephaly Incidence

Big Data to Knowledge Analytics Reveals the Zika Virus Epidemic as Only One of Multiple Factors Contributing to a Year-Over-Year 28-Fold Increase in Microcephaly Incidence

M. PatriciaCifuentes, C. Mercedes Suarez, R. Cifuentes, N. Malod-Dognin, S. Windels, J. Fernando Valderrama, P. D. Juarez, B. R. Valdez, C. Colen, C. Phillips, A. Ramesh, W. Im, M. Lichtveld, C. Mouton, N. Pržulj, and D. B. Hood
Four algorithms to solve symmetric multi-type non-negative matrix tri-factorization problem

Four algorithms to solve symmetric multi-type non-negative matrix tri-factorization problem

R. Hribar, T. Hrga, G. Papa, G. Petelin, J. Povh, N. Pržulj, and V. Vukašinović
A Low Overhead Tasking Model for OpenMP

European Conference on Parallel Processing

C. Yu, S. Royuela, and E. Quiñones
Signatures of TOP1 transcription-associated mutagenesis in cancer and germlineAbstract

Nature

M. A. M. Reijns, D. A. Parry, T. C. Williams, F. Nadeu, R. L. Hindshaw, D. O. Rios Szwed, M. D. Nicholson, P. Carroll, S. Boyle, R. Royo, A. J. Cornish, H. Xiang, K. Ridout, J. C. Ambrose, P. Arumugam, R. Bevers, M. Bleda, F. Boardman-Pretty, C. R. Boustred, H. Brittain, M. J. Caulfield, G. C. Chan, G. Elgar, T. Fowler, A. Giess, A. Hamblin, S. Henderson, T. J. P. Hubbard, R. Jackson, L. J. Jones, D. Kasperaviciute, M. Kayikci, A. Kousathanas, L. Lahnstein, S. E. A. Leigh, I. U. S. Leong, J. F. Lopez, F. Maleady-Crowe, M. McEntagart, F. Minneci, L. Moutsianas, M. Mueller, N. Murugaesu, A. C. Need, P. O’Donovan, C. A. Odhams, C. Patch, M. Buongermin Pereira, D. Perez-Gil, J. Pullinger, T. Rahim, A. Rendon, T. Rogers, K. Savage, K. Sawant, R. H. Scott, A. Siddiq, A. Sieghart, S. C. Smith, A. Sosinsky, A. Stuckey, M. Tanguy, A. Lisa Taylo Tavares, E. R. A. Thomas, S. R. Thompson, A. Tucci, M. J. Welland, E. Williams, K. Witkowska, S. M. Wood, D. Chubb, A. Cornish, B. Kinnersley, R. Houlston, D. Wedge, A. Gruber, A. Frangou, W. Cross, T. Graham, A. Sottoriva, G. Caravagna, N. López-Bigas, C. Arnedo-Pac, D. Church, R. Culliford, S. Thorn, P. Quirke, H. Wood, I. Tomlinson, B. Noyvert, A. Schuh, K. Aden, C. Palles, E. Campo, T. Stankovic, M. S. Taylor, and A. P. Jackson
Detection of early seeding of Richter transformation in chronic lymphocytic leukemia

Nature Medicine

F. Nadeu, R. Royo, R. Massoni-Badosa, H. Playa-Albinyana, B. Garcia-Torre, M. Duran-Ferrer, K. J. Dawson, M. Kulis, A. Diaz-Navarro, N. Villamor, J. L. Melero, V. Chapaprieta, A. Dueso-Barroso, J. Delgado, R. Moia, S. Ruiz-Gil, D. Marchese, A. Giró, N. Verdaguer-Dot, M. Romo, G. Clot, M. Rozman, G. Frigola, A. Rivas-Delgado, T. Baumann, M. Alcoceba, M. González, F. Climent, P. Abrisqueta, J. Castellví, F. Bosch, M. Aymerich, A. Enjuanes, S. Ruiz-Gaspà, A. López-Guillermo, P. Jares, S. Beà, S. Capella-Gutierrez, J. Ll. Gelpi, N. López-Bigas, D. Torrents, P. J. Campbell, I. Gut, D. Rossi, G. Gaidano, X. S. Puente, P. M. Garcia-Roves, D. Colomer, H. Heyn, F. Maura, J. I. Martin-Subero, and E. Campo
Methods in Molecular BiologyVariant CallingAnnotating Cancer-Related Variants at Protein–Protein Interface with Structure-PPi

M. Vazquez, and T. Pons
Small molecule interactions with the SARS-CoV-2 main protease: In silico all-atom microsecond MD simulations, PELE Monte Carlo simulations, and determination of in vitro activity inhibition

Journal of Molecular Graphics and Modelling

J. Liang, E. Pitsillou, K. Ververis, V. Guallar, A. Hung, and T. C. Karagiannis
Structural Elucidation and Engineering of a Bacterial Carbohydrate Oxidase

Biochemistry

A. Boverio, W. S. Widodo, L. L. Santema, H. J. Rozeboom, R. Xiang, V. Guallar, A. Mattevi, and M. W. Fraaije
Investigation of small molecule inhibitors of the SARS-CoV-2 papain-like protease by all-atom microsecond modelling, PELE Monte Carlo simulations, and in vitro activity inhibition

Chemical Physics Letters

J. J. Liang, E. Pitsillou, K. Ververis, V. Guallar, A. Hung, and T. C. Karagiannis

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