Aleksandra M. Walczak

27 papers Journal 27

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	Paraplume: A fast and accurate antibody paratope prediction method provides insights into repertoire-scale binding dynamics. PLoS Comput. Biol. Gabriel Athènes, Adam Woolfe, Thierry Mora, Aleksandra M. Walczak
2025	J	`jnl`	Learning predictive signatures of HLA type from T-cell repertoires. PLoS Comput. Biol. María Ruiz Ortega, Mikhail V. Pogorelyy, Anastasia A. Minervina, Paul G. Thomas, Thierry Mora, Aleksandra M. Walczak
2023	J	`jnl`	Bayesian estimation of the Kullback-Leibler divergence for categorical sytems using mixtures of Dirichlet priors. CoRR Francesco Camaglia, Ilya Nemenman, Thierry Mora, Aleksandra M. Walczak
2022	J	`jnl`	Disorder and the Neural Representation of Complex Odors. Frontiers Comput. Neurosci. Kamesh Krishnamurthy, Ann M. Hermundstad, Thierry Mora, Aleksandra M. Walczak, Vijay Balasubramanian
2022	J	`jnl`	Learning the statistics and landscape of somatic mutation-induced insertions and deletions in antibodies. PLoS Comput. Biol. Cosimo Lupo, Natanael Spisak, Aleksandra M. Walczak, Thierry Mora
2021	J	`jnl`	MINIMALIST: Mutual INformatIon Maximization for Amortized Likelihood Inference from Sampled Trajectories. CoRR Giulio Isacchini, Natanael Spisak, Armita Nourmohammad, Thierry Mora, Aleksandra M. Walczak
2021	J	`jnl`	Optimal prediction with resource constraints using the information bottleneck. PLoS Comput. Biol. Vedant Sachdeva, Thierry Mora, Aleksandra M. Walczak, Stephanie E. Palmer
2021	J	`jnl`	Probing T-cell response by sequence-based probabilistic modeling. PLoS Comput. Biol. Barbara Bravi, Vinod P. Balachandran, Benjamin D. Greenbaum, Aleksandra M. Walczak, Thierry Mora, Rémi Monasson, Simona Cocco
2021	J	`jnl`	The Connection between Discrete- and Continuous-Time Descriptions of Gaussian Continuous Processes. CoRR Federica Ferretti, Victor Chardès, Thierry Mora, Aleksandra M. Walczak, Irene Giardina
2020	J	`jnl`	Inferring the immune response from repertoire sequencing. PLoS Comput. Biol. Maximilian Puelma Touzel, Aleksandra M. Walczak, Thierry Mora
2020	J	`jnl`	Population variability in the generation and selection of T-cell repertoires. PLoS Comput. Biol. Zachary Sethna, Giulio Isacchini, Thomas Dupic, Thierry Mora, Aleksandra M. Walczak, Yuval Elhanati
2020	J	`jnl`	SOS: online probability estimation and generation of T-and B-cell receptors. Bioinform. Giulio Isacchini, Carlos Olivares, Armita Nourmohammad, Aleksandra M. Walczak, Thierry Mora
2019	J	`jnl`	Dissipation in Non-Steady State Regulatory Circuits. Entropy Paulina Szymanska-Rozek, Dario Villamaina, Jacek Miekisz, Aleksandra M. Walczak
2019	J	`jnl`	Genesis of the αβ T-cell receptor. PLoS Comput. Biol. Thomas Dupic, Quentin Marcou, Aleksandra M. Walczak, Thierry Mora
2019	J	`jnl`	OLGA: fast computation of generation probabilities of B- and T-cell receptor amino acid sequences and motifs. Bioinform. Zachary Sethna, Yuval Elhanati, Curtis G. Callan Jr., Aleksandra M. Walczak, Thierry Mora
2019	J	`jnl`	Size and structure of the sequence space of repeat proteins. PLoS Comput. Biol. Jacopo Marchi, Ezequiel A. Galpern, Rocío Espada, Diego U. Ferreiro, Aleksandra M. Walczak, Thierry Mora
2018	J	`jnl`	Active degradation of MarA controls coordination of its downstream targets. PLoS Comput. Biol. Nicholas A. Rossi, Thierry Mora, Aleksandra M. Walczak, Mary J. Dunlop
2018	J	`jnl`	Precision in a rush: Trade-offs between reproducibility and steepness of the hunchback expression pattern. PLoS Comput. Biol. Huy Tran, Jonathan Desponds, Carmina Perez Romero, Mathieu Coppey, Cecile Fradin, Nathalie Dostatni, Aleksandra M. Walczak
2017	J	`jnl`	Inferring repeat-protein energetics from evolutionary information. PLoS Comput. Biol. Rocío Espada, R. Gonzalo Parra, Thierry Mora, Aleksandra M. Walczak, Diego U. Ferreiro
2017	J	`jnl`	Persisting fetal clonotypes influence the structure and overlap of adult human T cell receptor repertoires. PLoS Comput. Biol. Mikhail V. Pogorelyy, Yuval Elhanati, Quentin Marcou, Anastasiia L. Sycheva, Ekaterina Komech, Vadim I. Nazarov, Olga V. Britanova, Dmitry M. Chudakov, Ilgar Z. Mamedov, Yuri B. Lebedev, Thierry Mora, Aleksandra M. Walczak
2017	J	`jnl`	Variable habitat conditions drive species covariation in the human microbiota. PLoS Comput. Biol. Charles K. Fisher, Thierry Mora, Aleksandra M. Walczak
2016	J	`jnl`	Noise Expands the Response Range of the PLoS Comput. Biol. Andrew Mugler, Mark Kittisopikul, Luke Hayden, Jintao Liu, Chris H. Wiggins, Gürol M. Süel, Aleksandra M. Walczak
2016	J	`jnl`	Precision of Readout at the hunchback Gene: Analyzing Short Transcription Time Traces in Living Fly Embryos. PLoS Comput. Biol. Jonathan Desponds, Huy Tran, Teresa Ferraro, Tanguy Lucas, Carmina Perez Romero, Aurelien Guillou, Cecile Fradin, Mathieu Coppey, Nathalie Dostatni, Aleksandra M. Walczak
2016	J	`jnl`	repgenHMM: a dynamic programming tool to infer the rules of immune receptor generation from sequence data. Bioinform. Yuval Elhanati, Quentin Marcou, Thierry Mora, Aleksandra M. Walczak
2015	J	`jnl`	Capturing coevolutionary signals inrepeat proteins. BMC Bioinform. Rocío Espada, R. Gonzalo Parra, Thierry Mora, Aleksandra M. Walczak, Diego U. Ferreiro
2014	J	`jnl`	Flocking and turning: a new model for self-organized collective motion. CoRR Andrea Cavagna, Lorenzo Del Castello, Irene Giardina, Tomas Grigera, Asja Jelic, Stefania Melillo, Thierry Mora, Leonardo Parisi, Edmondo Silvestri, Massimiliano Viale, Aleksandra M. Walczak
2008	J	`jnl`	The Energy Landscapes of Repeat-Containing Proteins: Topology, Cooperativity, and the Folding Funnels of One-Dimensional Architectures. PLoS Comput. Biol. Diego U. Ferreiro, Aleksandra M. Walczak, Elizabeth A. Komives, Peter G. Wolynes