Publications by authors named "Jennifer Listgarten"

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Write and Read: Harnessing Synthetic DNA Modifications for Nanopore Sequencing.
Uri Bertocchi, Assaf Grunwald, Gal Goldner, Eliran Eitan, Sigal Avraham, Jennifer Listgarten

ACS Nano· November 2025

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Learning antibody sequence constraints from allelic inclusion.
Milind Jagota, Chloe Hsu, Thomas Mazumder, Kevin Sung, William S DeWitt, Jennifer Listgarten

Cell Syst· September 2025

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Write and Read: Harnessing Synthetic DNA Modifications for Nanopore Sequencing.
Uri Bertocchi, Assaf Grunwald, Gal Goldner, Eliran Eitan, Sigal Avraham, Jennifer Listgarten

bioRxiv· September 2025

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Learning antibody sequence constraints from allelic inclusion.
Milind Jagota, Chloe Hsu, Thomas Mazumder, Kevin Sung, William S DeWitt, Jennifer Listgarten

bioRxiv· October 2024

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GENTANGLE: integrated computational design of gene entanglements.
Jose Manuel Martí, Chloe Hsu, Charlotte Rochereau, Chenling Xu, Tomasz Blazejewski, Jennifer Listgarten

Bioinformatics· July 2024

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Effective training of nanopore callers for epigenetic marks with limited labelled data.
Brian Yao, Chloe Hsu, Gal Goldner, Yael Michaeli, Yuval Ebenstein, Jennifer Listgarten

Open Biol· June 2024

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Computationally guided AAV engineering for enhanced gene delivery.
Jingxuan Guo, Li F Lin, Sydney V Oraskovich, Julio A Rivera de Jesús, Jennifer Listgarten

Trends Biochem Sci· May 2024

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The perpetual motion machine of AI-generated data and the distraction of ChatGPT as a 'scientist'.
Jennifer Listgarten

Nat Biotechnol· March 2024

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Is Novelty Predictable?
Clara Fannjiang, Jennifer Listgarten

Cold Spring Harb Perspect Biol· February 2024

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Generative models for protein structures and sequences.
Chloe Hsu, Clara Fannjiang, Jennifer Listgarten

Nat Biotechnol· February 2024

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Optimal trade-off control in machine learning-based library design, with application to adeno-associated virus (AAV) for gene therapy.
Danqing Zhu, David H Brookes, Akosua Busia, Ana Carneiro, Clara Fannjiang, Jennifer Listgarten

Sci Adv· January 2024

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Coherent Blending of Biophysics-Based Knowledge with Bayesian Neural Networks for Robust Protein Property Prediction.
Hunter Nisonoff, Yixin Wang, Jennifer Listgarten

ACS Synth Biol· November 2023

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MBE: model-based enrichment estimation and prediction for differential sequencing data.
Akosua Busia, Jennifer Listgarten

Genome Biol· October 2023

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Conformal prediction under feedback covariate shift for biomolecular design.
Clara Fannjiang, Stephen Bates, Anastasios N Angelopoulos, Jennifer Listgarten, Michael I Jordan

Proc Natl Acad Sci U S A· October 2022

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Learning protein fitness models from evolutionary and assay-labeled data.
Chloe Hsu, Hunter Nisonoff, Clara Fannjiang, Jennifer Listgarten

Nat Biotechnol· July 2022

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On the sparsity of fitness functions and implications for learning.
David H Brookes, Amirali Aghazadeh, Jennifer Listgarten

Proc Natl Acad Sci U S A· January 2022

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Epistatic Net allows the sparse spectral regularization of deep neural networks for inferring fitness functions.
Amirali Aghazadeh, Hunter Nisonoff, Orhan Ocal, David H Brookes, Yijie Huang, Jennifer Listgarten

Nat Commun· September 2021

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Rethinking drug design in the artificial intelligence era.
Petra Schneider, W Patrick Walters, Alleyn T Plowright, Norman Sieroka, Jennifer Listgarten

Nat Rev Drug Discov· May 2020

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Orthologous CRISPR-Cas9 enzymes for combinatorial genetic screens.
Fadi J Najm, Christine Strand, Katherine F Donovan, Mudra Hegde, Kendall R Sanson, Jennifer Listgarten

Nat Biotechnol· February 2018

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Prediction of off-target activities for the end-to-end design of CRISPR guide RNAs.
Jennifer Listgarten, Michael Weinstein, Benjamin P Kleinstiver, Alexander A Sousa, J Keith Joung

Nat Biomed Eng· January 2018

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Flexible Modeling of Genetic Effects on Function-Valued Traits.
Nicolo Fusi, Jennifer Listgarten

J Comput Biol· June 2017

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Personalized medicine: from genotypes, molecular phenotypes and the quantified self, towards improved medicine.
Joel T Dudley, Jennifer Listgarten, Oliver Stegle, Steven E Brenner, Leopold Parts

Pac Symp Biocomput· April 2016

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Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9.
John G Doench, Nicolo Fusi, Meagan Sullender, Mudra Hegde, Emma W Vaimberg, Jennifer Listgarten

Nat Biotechnol· February 2016

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Greater power and computational efficiency for kernel-based association testing of sets of genetic variants.
Christoph Lippert, Jing Xiang, Danilo Horta, Christian Widmer, Carl Kadie, Jennifer Listgarten

Bioinformatics· November 2014

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Further improvements to linear mixed models for genome-wide association studies.
Christian Widmer, Christoph Lippert, Omer Weissbrod, Nicolo Fusi, Carl Kadie, Jennifer Listgarten

Sci Rep· November 2014

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