Author

Y. Elhanati

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Immunology· 5 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 5 Research Focus:differential expression· 4 Research Focus:gene regulatory network inference· 4 Organism:human· 4 Approach:statistical model· 4 Assay:CITE-seq· 3 Research Focus:clustering· 3 Approach:deep learning· 3

Frequent Co-Authors

T. Mora· 5 shared Z. Sethna· 4 shared A. M. Walczak· 3 shared A. Walczak· 2 shared C. G. Callan· 2 shared G. Isacchini· 2 shared A. Balan· 1 shared A. Boire· 1 shared

Activity by Year

2016-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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5 shared papersImmunology

T. Mora

Mutual co-authors in cluster

Author profile →

6 papers

Recent·Most cited

A generative reference grammar of healthy TCR repertoires reveals cancer-associated immune remodeling

A. Balan, Y. Elhanati, K. E. Meza Landeros, M. De Almeida Mendes, J. Lai, S. S. A. Zaidi, M. Unal, B. Y. S. Kim, C.-H. G. Lucas, E. Runco, V. K. Puduvalli, J. Gantchev, C. A. Whittaker, P. Sharma, V. Tabar, , R. Karchin

CRAFT, a transformer model, learns a generative grammar of healthy TCR repertoires to detect cancer-associated immune remodeling through structured deviations in sequence space.

bioRxiv · Jun 20, 2026 · PreprintCancer Biology

DRAG in situ barcoding reveals an increased number of HSPCs contributing to myelopoiesis with age

J. Urbanus, J. Cosgrove, J. Beltman, Y. Elhanati, R. De Andrade Moral, C. Conrad, J. Van Heijst, E. Tubeuf, A. Velds, L. Kok, C. Merle, J. P. Magnusson, J. Frisen, S. Fre, A. Walczak, , L. Perie

This study uses an in situ lineage tracing method to show that aging increases the number of HSPCs contributing to myelopoiesis, not their individual output.

bioRxiv · Dec 6, 2022 · PreprintImmunology

On generative models of T-cell receptor sequences

G. Isacchini, Z. Sethna, Y. Elhanati, A. Nourmohammad, A. M. Walczak, T. Mora

This study compares two models for predicting TCR sequence probabilities, finding that a knowledge-guided approach outperforms a deep learning model in accuracy, interpretability, and efficiency.

bioRxiv · Mar 14, 2020Immunology

Population variability in the generation and thymic selection of T-cell repertoires

Z. Sethna, G. Isacchini, T. Dupic, T. Mora, A. M. Walczak, Y. Elhanati

The paper introduces SONIA, a tool to analyze TCR repertoire variability, finding that most variability stems from VDJ generation and that inter-individual variance is small compared to intra-individual variance.

bioRxiv · Jan 8, 2020Immunology

Predicting the spectrum of TCR repertoire sharing with a data-driven model of recombination

Y. Elhanati, Z. Sethna, C. G. Callan, T. Mora, A. M. Walczak

The paper develops a model to predict TCR repertoire sharing by accounting for recombination biases and thymic selection, introducing a classifier that performs well across cohort sizes.

bioRxiv · Mar 2, 2018Immunology

Mouse T cell repertoires as statistical ensembles: overall characterization and age dependence

Z. Sethna, Y. Elhanati, C. S. Dudgeon, C. G. Callan, A. Levine, T. Mora, A. Walczak

The paper analyzes T cell repertoires in mice to show age-related increases in VDJ recombination diversity and similar selection effects in thymus and blood.

bioRxiv · Nov 10, 2016Immunology