Author

Yajie Yin

Stanford MedicineORCID 0000-0002-2220-005XUnclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:human· 5 Research Focus:differential expression· 4 Approach:statistical model· 4 Research Focus:clustering· 2 Approach:experimental assay· 2 Assay:scRNA-seq· 2 Assay:bulk RNA-seq· 1 Assay:DNA methylation· 1

Frequent Co-Authors

Ansuman T. SatpathyiD· 5 shared Caleb A. LareauiD· 4 shared Leif S. LudwigiD· 4 shared Jacob C. GutierreziD· 3 shared Katalin D. SandoriD· 3 shared Patrick YaniD· 3 shared Vincent LiuiD· 3 shared Andy Y. CheniD· 2 shared

Activity by Year

2022-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 44 mutual co-author links

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5 shared papersGenetics

Ansuman T. SatpathyORCID

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

Clonal lineage tracing of innate immune cells in human cancer

Vincent Liu, Katalin D. Sandor, Patrick Yan, Zhuang Miao, Yajie Yin, Robert R. Stickels, Andy Y. Chen, Kamir J. Hiam-Galvez, Jacob C. Gutierrez, Wenxi Zhang, Sairaj M. Sajjath, Raeline Valbuena, Steven Wang, Bence Dániel, Leif S. Ludwig, , Ansuman T. Satpathy

The paper uses mtDNA mutations to trace clonal relationships of innate immune cells in cancer, showing myeloid clones are linked to monocytes and have distinct epigenetic profiles.

Cancer Cell · Jun 4, 2026Peer-reviewedGenomics

Evolutionarily guided transcription factor design programs novel T cell states

Oliver Takacsi-Nagy, Austin Hartman, Andy Y. Chen, Yajie Yin, Gabriella C. Reeder, Courtney Kernick, Johnathan Lu, Alison K. McClellan, Colin J. Raposo, Nicole E. Theberath, Patrick Yan, Justin Eyquem, Theodore L. Roth, Ansuman T. Satpathy

This paper designs novel transcription factors using evolutionary principles to generate T cell states with enhanced functionality.

bioRxiv · Nov 6, 2024 · PreprintGenetics

Codon affinity in mitochondrial DNA shapes evolutionary and somatic fitness

Caleb A. Lareau, Yajie Yin, Jacob C. Gutierrez, Ryan S. Dhindsa, Anne-Sophie Gribling-Burrer, Yu-Hsin Hsieh, Lena Nitsch, Frank A. Buquicchio, Tsion Abay, Sebastian Zielinski, Robert R. Stickels, Jacob C. Ulirsch, Patrick Yan, Fangyi Wang, Zhuang Miao, , Ansuman T. Satpathy

The paper identifies a synonymous mtDNA variant that affects codon-anticodon affinity and shows its impact on cellular fitness in immune cells.

bioRxiv · Apr 23, 2023 · PreprintGenetics

Single-cell multi-omics reveals dynamics of purifying selection of pathogenic mitochondrial DNA across human immune cells

Caleb A. Lareau, Sonia M. Dubois, Frank A. Buquicchio, Yu-Hsin Hsieh, Kopal Garg, Pauline Kautz, Lena Nitsch, Samantha D. Praktiknjo, Patrick Maschmeyer, Jeffrey M. Verboon, Jacob C. Gutierrez, Yajie Yin, Evgenij Fiškin, Wendy Luo, Eleni P. Mimitou, , Leif S. Ludwig

The paper uses single-cell multi-omics to study how pathogenic mtDNA mutations are subject to purifying selection in immune cells from Pearson syndrome patients.

bioRxiv · Nov 20, 2022 · PreprintGenetics

Mitochondrial variant enrichment from high-throughput single-cell RNA-seq resolves clonal populations

Tyler E. Miller, Caleb A. Lareau, Julia A. Verga, Erica A. K. DePasquale, Vincent Liu, Daniel Ssozi, Katalin D. Sandor, Yajie Yin, Leif S. Ludwig, Chadi A. El Farran, Duncan M. Morgan, Ansuman T. Satpathy, Gabriel Kenneth Griffin, Andrew A. Lane, John Christopher Love, , Peter van Galen

The paper develops a method to detect mitochondrial mutations from single-cell RNA-seq to identify clonal expansions in human hematopoiesis.

Nature Biotechnology · Feb 24, 2022Peer-reviewedGenomics