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Yuan Yuan

Title(s)Assistant Professor, Philosophy
SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. iModulonDB 2.0: dynamic tools to facilitate knowledge-mining and user-enabled analyses of curated transcriptomic datasets. Nucleic Acids Res. 2025 Jan 06; 53(D1):D99-D106. Catoiu EA, Krishnan J, Li G, Lou XA, Rychel K, Yuan Y, Bajpe H, Patel A, Choe D, Shin J, Burrows J, Phaneuf PV, Zielinski DC, Palsson BO. PMID: 39494532; PMCID: PMC11701608.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    2. iModulonMiner and PyModulon: Software for unsupervised mining of gene expression compendia. PLoS Comput Biol. 2024 Oct; 20(10):e1012546. Sastry AV, Yuan Y, Poudel S, Rychel K, Yoo R, Lamoureux CR, Li G, Burrows JT, Chauhan S, Haiman ZB, Al Bulushi T, Seif Y, Palsson BO, Zielinski DC. PMID: 39441835; PMCID: PMC11534266.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    3. Machine learning reveals the transcriptional regulatory network and circadian dynamics of Synechococcus elongatus PCC 7942. Proc Natl Acad Sci U S A. 2024 Sep 17; 121(38):e2410492121. Yuan Y, Al Bulushi T, Sastry AV, Sancar C, Szubin R, Golden SS, Palsson BO. PMID: 39269777; PMCID: PMC11420160.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    4. Pan-Genome Analysis of Transcriptional Regulation in Six Salmonella enterica Serovar Typhimurium Strains Reveals Their Different Regulatory Structures. mSystems. 2022 12 20; 7(6):e0046722. Yuan Y, Seif Y, Rychel K, Yoo R, Chauhan S, Poudel S, Al-Bulushi T, Palsson BO, Sastry AV. PMID: 36317888; PMCID: PMC9764980.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    5. Cancer-cell-secreted extracellular vesicles suppress insulin secretion through miR-122 to impair systemic glucose homeostasis and contribute to tumour growth. Nat Cell Biol. 2022 06; 24(6):954-967. Cao M, Isaac R, Yan W, Ruan X, Jiang L, Wan Y, Wang J, Wang E, Caron C, Neben S, Drygin D, Pizzo DP, Wu X, Liu X, Chin AR, Fong MY, Gao Z, Guo K, Fadare O, Schwab RB, Yuan Y, Yost SE, Mortimer J, Zhong W, Ying W, Bui JD, Sears DD, Olefsky JM, Wang SE. PMID: 35637408; PMCID: PMC9233030.
      View in: PubMed   Mentions: 61     Fields:    Translation:HumansAnimalsCells
    6. Machine Learning of All Mycobacterium tuberculosis H37Rv RNA-seq Data Reveals a Structured Interplay between Metabolism, Stress Response, and Infection. mSphere. 2022 04 27; 7(2):e0003322. Yoo R, Rychel K, Poudel S, Al-Bulushi T, Yuan Y, Chauhan S, Lamoureux C, Palsson BO, Sastry A. PMID: 35306876; PMCID: PMC9044949.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    7. Machine Learning Uncovers a Data-Driven Transcriptional Regulatory Network for the Crenarchaeal Thermoacidophile Sulfolobus acidocaldarius. Front Microbiol. 2021; 12:753521. Chauhan SM, Poudel S, Rychel K, Lamoureux C, Yoo R, Al Bulushi T, Yuan Y, Palsson BO, Sastry AV. PMID: 34777307; PMCID: PMC8578740.
      View in: PubMed   Mentions: 17  
    8. The molecular architecture of engulfment during Bacillus subtilis sporulation. Elife. 2019 07 08; 8. Khanna K, Lopez-Garrido J, Zhao Z, Watanabe R, Yuan Y, Sugie J, Pogliano K, Villa E. PMID: 31282858; PMCID: PMC6684271.
      View in: PubMed   Mentions: 23     Fields:    Translation:Cells
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