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authIdHal_s : walczak-aleksandra
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RBM-MHC: A Semi-Supervised Machine-Learning Method for Sample-Specific Prediction of Antigen Presentation by HLA-I Alleles

Barbara Bravi , Jérôme Tubiana , Simona Cocco , Rémi Monasson , Thierry Mora et al.
Cell Systems, 2021, 12 (2), pp.195-202.e9. ⟨10.1016/j.cels.2020.11.005⟩
Journal articles hal-03153691v1

A mechanism for hunchback promoters to readout morphogenetic positional information in less than a minute

Jonathan Desponds , Massimo Vergassola , Aleksandra Walczak
Journal articles hal-03277598v1
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Evidence for Shaping of Light Chain Repertoire by Structural Selection

Adar Toledano , Yuval Elhanati , Jennifer I C Benichou , Aleksandra M Walczak , Thierry Mora et al.
Frontiers in Immunology, 2018, 9, pp.1307. ⟨10.3389/fimmu.2018.01307⟩
Journal articles hal-01833908v1
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Learning the heterogeneous hypermutation landscape of immunoglobulins from high-throughput repertoire data

Natanael Spisak , Aleksandra Walczak , Thierry Mora
Nucleic Acids Research, 2020, 48, pp.10702 - 10712. ⟨10.1093/nar/gkaa825⟩
Journal articles hal-02988489v1
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Contribution of resident and circulating precursors to tumor-infiltrating CD8 + T cell populations in non-small cell lung cancer patients

Paul Gueguen , Christina Metoikidou , Thomas Dupic , Myriam Lawand , Christel Goudot et al.
2020
Preprints, Working Papers, ... hal-02988498v1

Evolution and folding of repeat proteins

Ezequiel Galpern , Jacopo Marchi , Thierry Mora , Aleksandra Walczak , Diego Ferreiro et al.
Proceedings of the National Academy of Sciences of the United States of America, 2022, 119 (31), ⟨10.1073/pnas.2204131119⟩
Journal articles hal-03854601v1
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Synthetic reconstruction of the hunchback promoter specifies the role of Bicoid, Zelda and Hunchback in the dynamics of its transcription

Gonçalo Fernandes , Huy Tran , Maxime Andrieu , Youssoupha Diaw , Carmina Perez Romero et al.
eLife, 2022, 11, ⟨10.7554/elife.74509⟩
Journal articles hal-03666554v1
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Genesis of the αβ T-cell receptor

Thomas Dupic , Quentin Marcou , Aleksandra M. Walczak , Thierry Mora
PLoS Computational Biology, 2019, 15 (3), pp.e1006874. ⟨10.1371/journal.pcbi.1006874⟩
Journal articles hal-02120964v1
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Capturing coevolutionary signals in repeat proteins

Rocío Espada , Gonzalo R. Parra , Thierry Mora , Aleksandra M Walczak , Diego U. Ferreiro et al.
BMC Bioinformatics, 2015, pp.207. ⟨10.1186/s12859-015-0648-3⟩
Journal articles hal-01211646v1
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Active degradation of MarA controls coordination of its downstream targets

Nicholas A Rossi , Thierry Mora , Aleksandra M Walczak , Mary J Dunlop
PLoS Computational Biology, 2018, 14 (12), pp.e1006634. ⟨10.1371/journal.pcbi.1006634⟩
Journal articles hal-01983208v1
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Constraints and limitations on decoding positional information: the Bicoid case-study

Huy Tran , Aleksandra M. Walczak , Nathalie Dostatni
2019
Preprints, Working Papers, ... hal-02421278v1

How a well-adapting immune system remembers

Andreas Mayer , Vijay Balasubramanian , Aleksandra M. Walczak , Thierry Mora
Proceedings of the National Academy of Sciences of the United States of America, 2019, 116 (18), pp.8815-8823. ⟨10.1073/pnas.1812810116⟩
Journal articles hal-02360266v1

Contribution of resident and circulating precursors to tumor-infiltrating CD8 + T cell populations in lung cancer

Paul Gueguen , Christina Metoikidou , Thomas Dupic , Myriam Lawand , Christel Goudot et al.
Science Immunology, 2021, 6 (55), ⟨10.1126/sciimmunol.abd5778⟩
Journal articles hal-03877456v1
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Dissipation in Non-Steady State Regulatory Circuits

Paulina Szymańska-Rożek , Dario Villamaina , Jacek Miȩkisz , Aleksandra Walczak
Entropy, 2019, 21 (12), pp.1212. ⟨10.3390/e21121212⟩
Journal articles hal-02988501v1
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A mechanism for hunchback promoters to readout morphogenetic positional information in less than a minute

Jonathan Desponds , Massimo Vergassola , Aleksandra Walczak
Journal articles hal-02988492v1
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Single molecule microscopy reveals key physical features of repair foci in living cells

Judith Miné-Hattab , Mathias Heltberg , Marie Villemeur , Chloé Guedj , Thierry Mora et al.
2020
Preprints, Working Papers, ... hal-02988483v1
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Optimal prediction with resource constraints using the information bottleneck

Vedant Sachdeva , Thierry Mora , Aleksandra Walczak , Stephanie Palmer
2020
Preprints, Working Papers, ... hal-02988475v1
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Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T-cell memory formation after mild COVID-19 infection

Anastasia Minervina , Ekaterina Komech , Aleksei Titov , Meriem Bensouda Koraichi , Elisa Rosati et al.
eLife, 2021, 10, ⟨10.7554/eLife.63502⟩
Journal articles hal-03367842v1
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Persisting fetal clonotypes influence the structure and overlap of adult human T cell receptor repertoires

Mikhail V. Pogorelyy , Yuval Elhanati , Quentin Marcou , Anastasiia L. Sycheva , Ekaterina A. Komech et al.
PLoS Computational Biology, 2017, 13 (7), pp.e1005572. ⟨10.1371/journal.pcbi.1005572⟩
Journal articles hal-01579464v1
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Multi-Lineage Evolution in Viral Populations Driven by Host Immune Systems

Jacopo Marchi , Michael Lässig , Thierry Mora , Aleksandra M. Walczak
Pathogens, 2019, 8 (3), pp.115. ⟨10.3390/pathogens8030115⟩
Journal articles hal-02360335v1
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Immune Fingerprinting through Repertoire Similarity

Thomas Dupic , Meriem Bensouda Koraichi , Anastasia Minervina , Mikhail Pogorelyy , Thierry Mora et al.
2020
Preprints, Working Papers, ... hal-02988485v1
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Binding affinity landscapes constrain the evolution of broadly neutralizing anti-influenza antibodies

Angela Phillips , Katherine Lawrence , Alief Moulana , Thomas Dupic , Jeffrey Chang et al.
eLife, 2021, 10, ⟨10.7554/eLife.71393⟩
Journal articles hal-03367741v1
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Size and structure of the sequence space of repeat proteins

Jacopo Marchi , Ezequiel A Galpern , Rocío Espada , Diego U Ferreiro , Aleksandra M. Walczak et al.
PLoS Computational Biology, 2019, 15 (8), pp.e1007282. ⟨10.1371/journal.pcbi.1007282⟩
Journal articles hal-02345012v1
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OLGA: fast computation of generation probabilities of B- and T-cell receptor amino acid sequences and motifs

Zachary Sethna , Yuval Elhanati , Curtis G Callan , Aleksandra M. Walczak , Thierry Mora et al.
Bioinformatics, 2019, 35 (17), pp.2974-2981. ⟨10.1093/bioinformatics/btz035⟩
Journal articles hal-02344638v1

hunchback Promoters Can Readout Morphogenetic Positional Information in Less Than a Minute

Jonathan Desponds , Massimo Vergassola , Aleksandra M. Walczak
2019
Preprints, Working Papers, ... hal-02421264v1
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Precise tracking of vaccine-responding T-cell clones reveals convergent and personalized response in identical twins

Mikhail V Pogorelyy , Anastasia A Minervina , Maximilian Puelma Touzel , Anastasiia L Sycheva , Ekaterina A Komech et al.
Proceedings of the National Academy of Sciences of the United States of America, 2018, 115 (50), pp.12704-12709. ⟨10.1073/pnas.1809642115⟩
Journal articles hal-01974035v1

Fierce Selection and Interference in B-Cell Repertoire Response to Chronic HIV-1

Armita Nourmohammad , Jakub Otwinowski , Marta Łuksza , Thierry Mora , Aleksandra M Walczak et al.
Molecular Biology and Evolution, 2019, 36 (10), pp.2184-2194. ⟨10.1093/molbev/msz143⟩
Journal articles hal-02364221v1
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Exploiting B Cell Receptor Analyses to Inform on HIV-1 Vaccination Strategies

Christoph Kreer , Henning Gruell , Thierry Mora , Aleksandra Walczak , Florian Klein et al.
Vaccines, 2020, 8 (1), pp.13. ⟨10.3390/vaccines8010013⟩
Journal articles hal-02496965v1
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Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T cell memory formation after mild COVID-19 infection

Anastasia Minervina , Ekaterina Komech , Aleksei Titov , Meriem Bensouda Koraichi , Elisa Rosati et al.
2020
Preprints, Working Papers, ... hal-02988479v1
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Probing T-cell response by sequence-based probabilistic modeling

Barbara Bravi , Vinod P Balachandran , Benjamin D Greenbaum , Aleksandra M Walczak , Thierry Mora et al.
PLoS Computational Biology, 2021, 17 (9), pp.e1009297. ⟨10.1371/journal.pcbi.1009297⟩
Journal articles hal-03351495v1