James Zou

发表

Quantifying the unobserved protein-coding variants in human populations provides a roadmap for large-scale sequencing projects

James Zou, Gregory Valiant, Paul Valiant, 2015, bioRxiv.

Analysis of protein-coding genetic variation in 60,706 humans

Andrew J. Hill, Ami Levy Moonshine, J. Danesh, 2015, bioRxiv.

Large dataset enables prediction of repair after CRISPR–Cas9 editing in primary T cells

A. May, N. Krogan, David Tse, 2019, Nature Biotechnology.

A primer on deep learning in genomics

M. Huss, A. Telenti, A. Torkamani, 2018, Nature Genetics.

BABEL enables cross-modality translation between multiomic profiles at single-cell resolution

Howard Y. Chang, James Zou, Kevin E. Wu, 2020, Proceedings of the National Academy of Sciences.

A benchmark of algorithms for the analysis of pooled CRISPR screens

Lei S. Qi, James Zou, Sunil Bodapati, 2020, Genome Biology.

Feedback GAN (FBGAN) for DNA: a Novel Feedback-Loop Architecture for Optimizing Protein Functions pdf

James Zou, Anvita Gupta, James Zou, 2018, ArXiv.

RNA-GPS predicts high-resolution RNA subcellular localization and highlights the role of splicing

Howard Y. Chang, James Zou, F. Fazal, 2020, RNA.

RNA-GPS Predicts SARS-CoV-2 RNA Localization to Host Mitochondria and Nucleolus

Howard Y. Chang, James Zou, Kevin E. Wu, 2020, bioRxiv.

Modeling Spatial Correlation of Transcripts with Application to Developing Pancreas

Robert C. Jones, S. Quake, Ruishan Liu, 2018, Scientific Reports.

Protein structure generation via folding diffusion

Rianne van den Berg, Alex X. Lu, James Zou, 2022, Nature communications.

Algorithms and Models for Genome Biology

James Zou, James Zou, 2014 .

Polygenic enrichment distinguishes disease associations of individual cells in single-cell RNA-seq data

Martin Jinye Zhang, A. Price, S. Raychaudhuri, 2021, bioRxiv.

Deep profiling of protease substrate specificity enabled by dual random and scanned human proteome substrate phage libraries

J. Derisi, James Zou, Jie Zhou, 2020, Proceedings of the National Academy of Sciences.

Molecular hallmarks of heterochronic parabiosis at single-cell resolution

James T. Webber, Martin Jinye Zhang, Robert C. Jones, 2020, Nature.

A single-cell transcriptomic atlas characterizes ageing tissues in the mouse

Irving L. Weissman, Róbert Pálovics, Michael F. Clarke, 2020, Nature.

Aging hallmarks exhibit organ-specific temporal signatures

James T. Webber, Martin Jinye Zhang, Robert C. Jones, 2020, Nature.

Exome Aggregation Consortium

Adam Kiezun, Sergio Islas-Andrade, Pierre Fontanillas, 2016 .

RNA-GPS Predicts SARS-CoV-2 RNA Residency to Host Mitochondria and Nucleolus

Howard Y. Chang, James Zou, F. Fazal, 2020, Cell Systems.

Ageing hallmarks exhibit organ-specific temporal signatures

James T. Webber, Martin Jinye Zhang, Robert C. Jones, 2020, Nature.

Integrative proteomics and bioinformatic prediction enable a high-confidence apicoplast proteome in malaria parasites

Joshua E Elias, Joshua E. Elias, Avantika Lal, 2018, bioRxiv.

Ageing hallmarks exhibit organ-specific temporal signatures

James T. Webber, Martin Jinye Zhang, Robert C. Jones, 2021, Yearbook of Paediatric Endocrinology.

The proteome of the malaria plastid organelle, a key anti-parasitic target

S. Ralph, James Zou, J. Elias, 2018 .

Feedback GAN for DNA optimizes protein functions

James Zou, Anvita Gupta, James Zou, 2019, Nature Machine Intelligence.

TCR-BERT: learning the grammar of T-cell receptors for flexible antigen-xbinding analyses

Howard Y. Chang, Ansuman T. Satpathy, James Zou, 2021, bioRxiv.

A benchmark of algorithms for the analysis of pooled CRISPR screens

Lei S. Qi, James Zou, Sunil Bodapati, 2020, Genome Biology.

Systematic characterization of genome editing in primary T cells reveals proximal genomic insertions and enables machine learning prediction of CRISPR-Cas9 DNA repair outcomes

David Tse, Ryan T. Leenay, Amirali Aghazadeh, 2018, bioRxiv.

Large dataset enables prediction of repair after CRISPR–Cas9 editing in primary T cells

A. May, N. Krogan, David Tse, 2019, Nature Biotechnology.

Subcellular omics: a new frontier pushing the limits of resolution, complexity and throughput

M. Bucan, Junhyong Kim, James Zou, 2023, Nature Methods.

Feedback GAN for DNA optimizes protein functions

James Zou, Anvita Gupta, 2019, Nature Machine Intelligence.

A large CRISPR-induced bystander mutation causes immune dysregulation

Mark S. Anderson, Daniel S. Rokhsar, James Zou, 2019, Communications Biology.

Principled and interpretable alignability testing and integration of single-cell data

D. Donoho, James Zou, Eric D. Sun, 2023, bioRxiv.

Classification and clustering of RNA crosslink-ligation data reveal complex structures and homodimers

Irena T. Hwang, T. Weissman, James Zou, 2021, bioRxiv.

Cross-linked RNA Secondary Structure Analysis using Network Techniques

James Zou, Irena Fischer-Hwang, Tsachy Weissman, 2019, bioRxiv.

The proteome of the malaria plastid organelle, a key anti-parasitic target

Joshua E. Elias, S. Ralph, James Zou, 2018 .

A primer on deep learning in genomics

M. Huss, A. Telenti, A. Torkamani, 2018, Nature Genetics.

Molecular hallmarks of heterochronic parabiosis at single-cell resolution

James T. Webber, Martin Jinye Zhang, Robert C. Jones, 2022, Nature.

Quantifying the unobserved protein-coding variants in human populations provides a roadmap for large-scale sequencing projects

M. Daly, D. MacArthur, G. Valiant, 2015, bioRxiv.