A. Walczak

Modelling collective behavior in groups of mice housed under semi-naturalistic conditions
20252 citationsauthor #6
TULIP — a Transformer based Unsupervised Language model for Interacting Peptides and T-cell receptors that generalizes to unseen epitopes
202435 citationsauthor #4
Learning predictive signatures of HLA type from T-cell repertoires
202411 citationsauthor #5
Towards a quantitative theory of tolerance.
20235 citationsauthor #2
A quantitative theory of viral-immune coevolution is within reach
20230 citationsauthor #2
Application of VDJ recombination events probability for γδ T-cells in MRD monitoring
20230 citationsauthor #6
Inferring the T cell repertoire dynamics of healthy individuals
20239 citationsauthor #3
Variability in the local and global composition of human T-cell receptor repertoires during thymic development across cell types and individuals
20230 citationsauthor #7
A transfer-learning approach to predict antigen immunogenicity and T-cell receptor specificity
202314 citationsauthor #4
Granger causality analysis for calcium transients in neuronal networks, challenges and improvements
202314 citationsauthor #4
Quantifying changes in the T cell 1 receptor repertoire during thymic 2 development 3
20230 citationsauthor #7
Quantitative Theory of Viral-Immune Coevolution May Be within Reach
20234 citationsauthor #2
Dynamical Information Synergy in Biochemical Signaling Networks.
202310 citationsauthor #2
Probabilities of developing HIV-1 bNAb sequence features in uninfected and chronically infected individuals
202310 citationsauthor #14
Bayesian estimation of the Kullback-Leibler divergence for categorical sytems using mixtures of Dirichlet priors
20234 citationsauthor #4
Interdisciplinary approaches to predicting evolutionary biology
20231 citationsauthor #3
Quantifying changes in the T cell receptor repertoire during thymic development
202315 citationsauthor #7
Evolutionary stability of antigenically escaping viruses
202313 citationsauthor #4
Inspecting the interaction between human immunodeficiency virus and the immune system through genetic turnover
20234 citationsauthor #3
What are the current driving questions in immune repertoire research?
20220 citationsauthor #6
Probabilities of HIV-1 bNAb development in healthy and chronically infected individuals
20225 citationsauthor #14
Affinity maturation for an optimal balance between long-term immune coverage and short-term resource constraints
20220 citationsauthor #3
Learning the differences: a transfer-learning approach to predict antigen immunogenicity and T-cell receptor specificity
20223 citationsauthor #4
DRAG in situ barcoding reveals an increased number of HSPCs contributing to myelopoiesis with age
202217 citationsauthor #15
Benchmarking solutions to the T-cell receptor epitope prediction problem: IMMREP22 workshop report
202282 citationsauthor #15
Disorder and the Neural Representation of Complex Odors
202211 citationsauthor #4
Signatures of irreversibility in microscopic models of flocking.
202216 citationsauthor #7
Evolution and folding of repeat proteins
202214 citationsauthor #4
Inspecting the interaction between HIV and the immune system through genetic turnover
20221 citationsauthor #3
Population based selection shapes the T cell receptor repertoire during thymic development
20223 citationsauthor #7
Generalized Glauber Dynamics for Inference in Biology
20225 citationsauthor #5
Synthetic reconstruction of the hunchback promoter specifies the role of Bicoid, Zelda and Hunchback in the dynamics of its transcription
202212 citationsauthor #8
Neoantigen quality predicts immunoediting in survivors of pancreatic cancer
2022157 citationsauthor #29
Combining mutation and recombination statistics to infer clonal families in antibody repertoires
202212 citationsauthor #4
MINIMALIST: Mutual INformatIon Maximization for Amortized Likelihood Inference from Sampled Trajectories
20210 citationsauthor #5
Contribution of resident and circulating precursors to tumor-infiltrating CD8+ T cell populations in lung cancer
2021146 citationsauthor #13
Learning the statistics and landscape of somatic mutation-induced insertions and deletions in antibodies
202117 citationsauthor #3
Modeling and predicting the overlap of B- and T-cell receptor repertoires in healthy and SARS-CoV-2 infected individuals
202127 citationsauthor #4
Antigenic waves of virus–immune coevolution
202143 citationsauthor #3
Renormalization group approach to connect discrete- and continuous-time descriptions of Gaussian processes.
20212 citationsauthor #4
Modeling antigen presentation and immune recognition with Restricted Boltzmann Machines
20210 citationsauthor #5
NoisET: Noise Learning and Expansion Detection of T-Cell Receptors.
202111 citationsauthor #5
The Connection between Discrete- and Continuous-Time Descriptions of Gaussian Continuous Processes
20210 citationsauthor #4
Synthetic deconstruction of hunchback regulation by Bicoid
20210 citationsauthor #8
Response in Immune Repertoires
20210 citationsauthor #1
Binding affinity landscapes constrain the evolution of broadly neutralizing anti-influenza antibodies
202154 citationsauthor #9
Affinity maturation for an optimal balance between long-term immune coverage and short-term resource constraints
202123 citationsauthor #3
Population variability in the generation and thymic selection of T-cell repertoires
202019 citationsauthor #5
Population variability in the generation and selection of T-cell repertoires
202045 citationsauthor #5
Contribution of resident and circulating precursors to tumor-infiltrating CD8+ T cell populations in non-small cell lung cancer patients
20200 citationsauthor #13
Deep generative selection models of T and B cell receptor repertoires with soNNia
202067 citationsauthor #2
Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T-cell memory formation after mild COVID-19 infection
2020124 citationsauthor #11
A mechanism for hunchback promoters to readout morphogenetic positional information in less than a minute
202032 citationsauthor #3
Author response: Primary and secondary anti-viral response captured by the dynamics and phenotype of individual T cell clones
20201 citationsauthor #12
Learning the heterogeneous hypermutation landscape of immunoglobulins from high-throughput repertoire data
202037 citationsauthor #2
Author response: Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T-cell memory formation after mild COVID-19 infection
20200 citationsauthor #11
Generative models of T-cell receptor sequences.
20206 citationsauthor #5
Immune fingerprinting through repertoire similarity
202015 citationsauthor #6
Exploiting B Cell Receptor Analyses to Inform on HIV-1 Vaccination Strategies
202020 citationsauthor #4
Predicting the future from the past in visual object motion: optimal representations of mixed stochastic/deterministic trajectories
20200 citationsauthor #2
Single molecule microscopy reveals key physical features of repair foci in living cells
202066 citationsauthor #6
SOS: online probability estimation and generation of T-and B-cell receptors
20204 citationsauthor #4
Optimal prediction with resource constraints using the information bottleneck
202019 citationsauthor #3
Probing T-cell response by sequence-based probabilistic modeling
202015 citationsauthor #4
Flexible machine learning prediction of antigen presentation for rare and common HLA-I alleles
20203 citationsauthor #6
RBM-MHC: A Semi-Supervised Machine-Learning Method for Sample-Specific Prediction of Antigen Presentation by HLA-I Alleles
202034 citationsauthor #6
Constraints and limitations on the transcriptional response downstream of the Bicoid morphogen gradient.
20204 citationsauthor #2
Primary and secondary anti-viral response captured by the dynamics and phenotype of individual T cell clones
202048 citationsauthor #12
Quantitative Immunology for Physicists
201949 citationsauthor #3
Building General Langevin Models from Discrete Datasets
201941 citationsauthor #4
How many different clonotypes do immune repertoires contain?
201957 citationsauthor #2
hunchback Promoters Can Readout Morphogenetic Positional Information in Less Than a Minute
20194 citationsauthor #3
Constraints and limitations on decoding positional information: the Bicoid case-study
20191 citationsauthor #2
On generative models of T-cell receptor sequences
20193 citationsauthor #5
Dissipation in Non-Steady State Regulatory Circuits
20194 citationsauthor #4
Multi-Lineage Evolution in Viral Populations Driven by Host Immune Systems
201916 citationsauthor #4
Cost and benefits of clustered regularly interspaced short palindromic repeats spacer acquisition
201913 citationsauthor #3
Inferring the immune response from repertoire sequencing
201927 citationsauthor #2
Author response: A mechanism for hunchback promoters to readout morphogenetic positional information in less than a minute
20191 citationsauthor #3
Comprehensive analysis of antiviral adaptive immunity formation and reactivation down to single-cell level
20192 citationsauthor #12
Size and structure of the sequence space of repeat proteins
201917 citationsauthor #5
How a well-adapting immune system remembers
201849 citationsauthor #3
What Can Immunologists Learn from Systems Approaches?
20184 citationsauthor #6
Evidence for Shaping of Light Chain Repertoire by Structural Selection
20186 citationsauthor #4
LiveFly: A Toolbox for the Analysis of Transcription Dynamics in Live Drosophila Embryos.
20185 citationsauthor #7
Precise tracking of vaccine-responding T cell clones reveals convergent and personalized response in identical twins
2018113 citationsauthor #13
3 minutes to precisely measure morphogen concentration
201841 citationsauthor #7
Progress and open problems in evolutionary dynamics.
20185 citationsauthor #2
Clonal competition in B-cell repertoires during chronic HIV-1 infection
201824 citationsauthor #5
Genesis of the αβ T-cell receptor
201876 citationsauthor #3
Live Imaging of mRNA Transcription in Drosophila Embryos.
20186 citationsauthor #4
Repertoire-based approach to identifying sequence motifs specific to an effective vaccine
20180 citationsauthor #8
Signal Percolation within a Bacterial Community.
201886 citationsauthor #8
Active degradation of a regulator controls coordination of downstream genes
20180 citationsauthor #3
Active degradation of MarA controls coordination of its downstream targets
201810 citationsauthor #3
Origin of Public Memory B Cell Clones in Fish After Antiviral Vaccination
201817 citationsauthor #9
Predicting the spectrum of TCR repertoire sharing with a data‐driven model of recombination
2018113 citationsauthor #5
Cost and benefits of CRISPR spacer acquisition
20181 citationsauthor #3
Physical constraints in biological collective behaviour
201811 citationsauthor #4
OLGA: fast computation of generation probabilities of B- and T-cell receptor amino acid sequences and motifs
2018191 citationsauthor #4

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