JW
Jonathan S. Weissman
Protein Biosynthesiscell biologyProtein FoldinghumanCRISPREpistasis, Geneticsystems biologyCRISPR-Cas SystemsgenomicsSaccharomyces cerevisiae Proteins
On Valency
published · living versionsW_r98kgkse·v1 · currentpublished
Learning developmental dynamics from lineage context
with Gokul Gowri, Nic Fishman, William N. Colgan, Minming Wang +8
1 version
Preprints & journals
340 papers in the corpus · 1991–2026Promoter of lncRNA Gene PVT1 Is a Tumor-Suppressor DNA Boundary Element.42906539 · Cho, Seung Woo, Xu, Jin, Sun, Ruping et al.2026 · 0 citationsCell. 2026
Mapping the functional dark proteome in cancer.42850324 · Prensner, John R, Freed-Pastor, William A, Abelin, Jennifer G et al.2026 · 1 citationNature reviews. Cancer. 2026
A genome-scale ORF screen for resilience factors that protect the RPE and restore vision in aged mice.42856529 · Lu, Yuancheng Ryan, Shen, Han, Kajderowicz, Kathrin et al.2026 · 0 citationsbioRxiv : the preprint server for biology. 2026
Failure to release from the ER translocon induces 60S ribosome degradation.42856200 · Levine, Zebulon G, Khandwala, Stuti, Zhang, Christina J et al.2026 · 0 citationsbioRxiv : the preprint server for biology. 2026
Folate deficiency disrupts key metabolic transitions within the developing neural ectoderm.42818105 · Dias, Nicolas, Lewinsohn, Daniel P, Colgan, William N et al.2026 · 0 citationsbioRxiv : the preprint server for biology. 2026
The diverse functions of viral microproteins.42818555 · Chen-Neumann, Yi Hua, Grauvogel, Louisa, Zhang, Adam S et al.2026 · 1 citationbioRxiv : the preprint server for biology. 2026
Reply to: Artefacts in single-cell mtDNA analyses misinform phylogenies.42618757 · Weng, Chen, Weissman, Jonathan S, Sankaran, Vijay G2026 · 1 citationNature. 2026;656(8128):E32-E38
Atlas of lysosomal aging reveals a metabolite signature shared with lysosomal storage disorders.42531412 · Puszynska, Anna M, Nguyen, Thao P, Cangelosi, Andrew L et al.2026 · 4 citationsScience (New York, N.Y.). 2026;393(6810):eady0832
Predictive single cell foundation model for gene regulation and aging with privacy-preserving tabular learning2607.19400v1 · Jiayuan Ding, Jianhui Lin, Ziyang Miao et al.2026 · 0 citationsarXiv
Global cell-state and gene-program representations reveal conserved and context-specific perturbation responses of cells10.64898/2026.05.16.725005v1 · Pan, X., Saunders, R., Replogle, J. M. et al.2026 · 2 citationsbioRxiv
Comprehensive Lineage Tracing Maps the Landscape of Cell Fate Decisions in Mouse Embryogenesis.42146547 · Colgan, William N, Koblan, Luke W, Villagrana, JoAnne et al.2026 · 8 citationsbioRxiv : the preprint server for biology. 2026
Epigenome editing of human hematopoietic stem cells enables sustained and reversible thrombosis prevention.41928991 · Ye, Tianyi, Xu, Wanying, Barrachina, Maria N et al.2026 · 0 citationsbioRxiv : the preprint server for biology. 2026
Elucidating genes sufficient for viral entry into cells through sequential genome-wide CRISPR activation screens.41867735 · Chai, Timothy, Wong, Alicia, Yin, Qingqing et al.2026 · 0 citationsbioRxiv : the preprint server for biology. 2026
Modeling mitochondrial inheritance enables high-precision single-cell lineage tracing in humans.41726901 · Gao, Teng, Weng, Chen, Johnson, Isaac et al.2026 · 2 citationsbioRxiv : the preprint server for biology. 2026
Mechanisms linking cytoplasmic decay of translation-defective mRNA to transcriptional adaptation.41678638 · El-Brolosy, Mohamed A, Oak, Atharv, Hoang, An T et al.2026 · 13 citationsScience (New York, N.Y.). 2026;391(6786):eaea1272
Discovery of a pre-vein progenitor that requires VEGF/ERK inhibition to complete vein differentiation.41279810 · Ang, Lay Teng, Zheng, Sherry Li, Liu, Kevin J et al.2025 · 6 citationsbioRxiv : the preprint server for biology. 2025
Translon: a single term for translated regions.40890551 · Świrski, Michał I, Tierney, Jack A S, Albà, M Mar et al.2026 · 20 citationsNature methods. 2025;22(10):2002-2006
Atlas of Lysosomal Aging Reveals a Molecular Clock of Storage Disorder-Associated Metabolites.41040360 · Puszynska, Anna M, Nguyen, Thao P, Cangelosi, Andrew L et al.2025 · 2 citationsbioRxiv : the preprint server for biology. 2025
Reprogramming Factors Activate a Non-Canonical Oxidative Resilience Pathway That Can Rejuvenate RPEs and Restore Vision.40950238 · Lu, Yuancheng Ryan, Cameron, James C, Hu, Yan et al.2025 · 2 citationsbioRxiv : the preprint server for biology. 2025
Genetic and structural evidence links calcium dysregulation and ATP2B2 to neuropsychiatric illness10.1101/2025.08.25.672202v5 · Gerges, S., Straarup, N. C., El-Brolosy, M. A. et al.2025 · 1 citationbioRxiv
Proximity-specific ribosome profiling reveals the logic of localized mitochondrial translation.40876456 · Luo, Jingchuan, Khandwala, Stuti, Hu, Jingjie et al.2025 · 44 citationsCell. 2025;188(20):5589-5604.e17
Large-scale CRISPR screening in primary human 3D gastric organoids enables comprehensive dissection of gene-drug interactions.40813572 · Lo, Yuan-Hung, Horn, Hudson T, Huang, Mo-Fan et al.2025 · 37 citationsNature communications. 2025;16(1):7566
High-quality peptide evidence for annotating non-canonical open reading frames as human proteins.39314370 · Deutsch, Eric W, Kok, Leron W, Mudge, Jonathan M et al.2026 · 76 citationsbioRxiv : the preprint server for biology. 2025
High-resolution spatial mapping of cell state and lineage dynamics in vivo with PEtracer.40661400 · Koblan, Luke W, Yost, Kathryn E, Zheng, Pu et al.2026 · 41 citationsbioRxiv : the preprint server for biology. 2025
Perturb-Multimodal: A platform for pooled genetic screens with imaging and sequencing in intact mammalian tissue.40513557 · Saunders, Reuben A, Allen, William E, Pan, Xingjie et al.2025 · 60 citationsCell. 2025;188(17):4790-4809.e22
Shaping the composition of the mitochondrial outer membrane.40523936 · Muthukumar, Gayathri, Weissman, Jonathan S2025 · 13 citationsNature cell biology. 2025;27(6):890-901
FET fusion oncoproteins disrupt physiologic DNA repair and create a targetable opportunity for ATR inhibitor therapy.37205599 · Menon, Shruti, Gracilla, Daniel, Breese, Marcus R et al.2026 · 6 citationsbioRxiv : the preprint server for biology. 2025
Spatiotemporal modeling of molecular holograms.40024251 · Qiu, Xiaojie, Zhu, Daniel Y, Lu, Yifan et al.2026 · 9 citationsCell. 2025;188(6):1744
A platform for multimodal in vivo pooled genetic screens reveals regulators of liver function.39605605 · Saunders, Reuben A, Allen, William E, Pan, Xingjie et al.2025 · 13 citationsbioRxiv : the preprint server for biology. 2025
The cytosolic cysteinyl-tRNA synthetase is capable of regulating ATF4 translation independent of eIF2α phosphorylation state10.1101/2024.12.23.630120v1 · Xu, A. E., Weissman, J. S.2024 · 0 citationsbioRxiv
Multiplexed mosaic tumor models reveal natural phenotypic variations in drug response within and between populations.39763922 · Yu, Johnny X, Suh, Jung Min, Popova, Katerina D et al.2026 · 8 citationsbioRxiv : the preprint server for biology. 2024
CD47 predominates over CD24 as a macrophage immune checkpoint in cancer.39651307 · Allen, Juliet, Meglan, Anna, Vaccaro, Kyle et al.2025 · 2 citationsbioRxiv : the preprint server for biology. 2024
Multi-species genome-wide CRISPR screens identify conserved suppressors of cold-induced cell death.39091747 · Lam, Breanna, Kajderowicz, Kathrin M, Keys, Heather R et al.2026 · 6 citationsbioRxiv : the preprint server for biology. 2024
Spatiotemporal modeling of molecular holograms.39532097 · Qiu, Xiaojie, Zhu, Daniel Y, Lu, Yifan et al.2024 · 113 citationsCell. 2024;187(26):7351-7373.e61
Combinatorial effector targeting (COMET) for transcriptional modulation and locus-specific biochemistry.39554033 · Wilson, Caroline M, Pommier, Greg C, Richman, Daniel D et al.2024 · 6 citationsbioRxiv : the preprint server for biology. 2024
Spatiotemporal lineage tracing reveals the dynamic spatial architecture of tumor growth and metastasis.39484491 · Jones, Matthew G, Sun, Dawei, Min, Kyung Hoi Joseph et al.2026 · 30 citationsbioRxiv : the preprint server for biology. 2024
Robustness and reliability of single-cell regulatory multi-omics with deep mitochondrial mutation profiling.39229039 · Weng, Chen, Weissman, Jonathan S, Sankaran, Vijay G2025 · 8 citationsbioRxiv : the preprint server for biology. 2024
Transcriptome-wide characterization of genetic perturbations.39005298 · Nadig, Ajay, Replogle, Joseph M, Pogson, Angela N et al.2026 · 69 citationsbioRxiv : the preprint server for biology. 2024
Brainwide silencing of prion protein by AAV-mediated delivery of an engineered compact epigenetic editor.38935715 · Neumann, Edwin N, Bertozzi, Tessa M, Wu, Elaine et al.2024 · 116 citationsScience (New York, N.Y.). 2024;384(6703):ado7082
Author Correction: CRISPR technologies for genome, epigenome and transcriptome editing.38740926 · Villiger, Lukas, Joung, Julia, Koblan, Luke et al.2024 · 6 citationsNature reviews. Molecular cell biology. 2024;25(6):510
Nucleotide depletion promotes cell fate transitions by inducing DNA replication stress.38823395 · Do, Brian T, Hsu, Peggy P, Vermeulen, Sidney Y et al.2024 · 38 citationsDevelopmental cell. 2024;59(16):2203-2221.e15
CRISPRi screens identify the lncRNA, LOUP, as a multifunctional locus regulating macrophage differentiation and inflammatory signaling.38781216 · Halasz, Haley, Malekos, Eric, Covarrubias, Sergio et al.2024 · 24 citationsProceedings of the National Academy of Sciences of the United States of America. 2024;121(22):e2322524121
Neuronal activity rapidly reprograms dendritic translation via eIF4G2:uORF binding.38589584 · Hacisuleyman, Ezgi, Hale, Caryn R, Noble, Natalie et al.2024 · 55 citationsNature neuroscience. 2024;27(5):822-835
CRISPR technologies for genome, epigenome and transcriptome editing.38308006 · Villiger, Lukas, Joung, Julia, Koblan, Luke et al.2024 · 261 citationsNature reviews. Molecular cell biology. 2024;25(6):464-487
Deciphering cell states and genealogies of human haematopoiesis.38253266 · Weng, Chen, Yu, Fulong, Yang, Dian et al.2024 · 150 citationsNature. 2024;627(8003):389-398
CRISPRi screens identify the lncRNA, LOUP, as a multifunctional locus regulating macrophage differentiation epigenetically and inflammatory signaling through a short, encoded peptide10.1101/2023.12.19.572453v1 · Halasz, H., Malekos, E., Covarrubias, S. et al.2023 · 0 citationsbioRxiv
Author Correction: Efficient C•G-to-G•C base editors developed using CRISPRi screens, target-library analysis, and machine learning.37853259 · Koblan, Luke W, Arbab, Mandana, Shen, Max W et al.2024 · 7 citationsNature biotechnology. 2023;41(11):1655
Systematic functional interrogation of SARS-CoV-2 host factors using Perturb-seq.37803001 · Sunshine, Sara, Puschnik, Andreas S, Replogle, Joseph M et al.2023 · 34 citationsNature communications. 2023;14(1):6245
Graph-Dynamo: Learning stochastic cellular state transition dynamics from single cell data10.1101/2023.09.24.559170v1 · Zhang, Y., Qiu, X., Weissman, J. S. et al.2023 · 10 citationsbioRxiv
Triaging of α-helical proteins to the mitochondrial outer membrane by distinct chaperone machinery based on substrate topology.37645817 · Muthukumar, Gayathri, Stevens, Taylor A, Inglis, Alison J et al.2026 · 34 citationsbioRxiv : the preprint server for biology. 2023
Career total: 607 works. 340 are in this corpus.Showing the 50 most recent.
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