Lin Ye, PhD

Title(s)Assistant Professor, Medicine
SchoolSchool of Medicine
Address513 Parnassus Avenue, HSW, #532
San Francisco CA 94143
Phone415-734-2000
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    University of California, San FranciscoPostdoctoral StudiesGraduate Division

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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. A spotlight on congestion in acute heart failure: a joint session with the Romanian Society of Cardiology (part I). Heart Fail Rev. 2025 Apr 29. Ye L, Chang AJ, Chioncel O, Antohi EL, Geavlete O, Abdelhamid M, Adamo M, Biegus J, Chopra V, Cotter G, Grupper A, Lainscak M, Mebazaa A, Palazzuoli A, Rosano G, Savarese G, Collins SP, Hamilton SA, Ambrosy AP. PMID: 40299252.
      View in: PubMed   Mentions:    Fields:    
    2. Abstract 4140108: A CRISPR-Activation CROP-seq Screen Identifies HMGN1 as a Dosage-Sensitive Regulator of Heart Defects in Down Syndrome. Circulation. 2024 Nov 12; 150(Suppl_1):a4140108-a4140108. Ranade RS, Li LF, Whalen WS, Angelo AP, Ye YL, Huang HY, Brand BA, Nishino NT, Costa CM, Mital MR, Boileau BR, Koback KF, Padmanabhan PA, Merriman MA, Wallace WL, Nguyen NA, Poulis PN, Gifford GC, Pollard PK, Srivastava SD. .
      View in: Publisher Site   Mentions:
    3. Chromatin remodelling drives immune cell-fibroblast communication in heart failure. Nature. 2024 Nov; 635(8038):434-443. Alexanian M, Padmanabhan A, Nishino T, Travers JG, Ye L, Pelonero A, Lee CY, Sadagopan N, Huang Y, Auclair K, Zhu A, An Y, Ekstrand CA, Martinez C, Teran BG, Flanigan WR, Kim CK, Lumbao-Conradson K, Gardner Z, Li L, Costa MW, Jain R, Charo I, Combes AJ, Haldar SM, Pollard KS, Vagnozzi RJ, McKinsey TA, Przytycki PF, Srivastava D. PMID: 39443808; PMCID: PMC11698514.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansAnimalsCells
    4. A genome-wide CRISPR screen identifies BRD4 as a regulator of cardiomyocyte differentiation. Nat Cardiovasc Res. 2024 03; 3(3):317-331. Padmanabhan A, de Soysa TY, Pelonero A, Sapp V, Shah PP, Wang Q, Li L, Lee CY, Sadagopan N, Nishino T, Ye L, Yang R, Karnay A, Poleshko A, Bolar N, Linares-Saldana R, Ranade SS, Alexanian M, Morton SU, Jain M, Haldar SM, Srivastava D, Jain R. PMID: 39196112; PMCID: PMC11361716.
      View in: PubMed   Mentions: 2  Translation:HumansAnimalsCells
    5. Abstract 14797: Single Cell Multi-Modal Analyses Reveal Epigenomic and Transcriptomic Basis Underlying Cardiac Defects in Maternal Diabetes. Circulation. 2022 Nov 8; 146(Suppl_1):a14797-a14797. Nishino NT, Ranade RS, Angelo AP, van Soldt vB, Ye YL, Alexanian AM, Koback KF, Huang HY, Sadagopan SN, Padmanabhan PA, Thomas TR, van Bemmel vJ, Gifford GC, Costa CM, Srivastava SD. .
      View in: Publisher Site   Mentions:
    6. Genetically edited CD34+ cells derived from human iPS cells in vivo but not in vitro engraft and differentiate into HIV-resistant cells. Proc Natl Acad Sci U S A. 2021 05 18; 118(20). Morvan MG, Teque F, Ye L, Moreno ME, Wang J, VandenBerg S, Stoddart CA, Kan YW, Levy JA. PMID: 33975958; PMCID: PMC8158014.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    7. CRISPR/Cas9-mediated gene deletion efficiently retards the progression of Philadelphia-positive acute lymphoblastic leukemia in a p210 BCR-ABL1T315I mutation mouse model. Haematologica. 2020 05; 105(5):e232-e236. Tan YT, Ye L, Xie F, Wang J, Müschen M, Chen SJ, Kan YW, Liu H. PMID: 31537693; PMCID: PMC7193494.
      View in: PubMed   Mentions: 4     Fields:    Translation:Animals
    8. Context-Specific Transcription Factor Functions Regulate Epigenomic and Transcriptional Dynamics during Cardiac Reprogramming. Cell Stem Cell. 2019 07 03; 25(1):87-102.e9. Stone NR, Gifford CA, Thomas R, Pratt KJB, Samse-Knapp K, Mohamed TMA, Radzinsky EM, Schricker A, Ye L, Yu P, van Bemmel JG, Ivey KN, Pollard KS, Srivastava D. PMID: 31271750; PMCID: PMC6632093.
      View in: PubMed   Mentions: 63     Fields:    Translation:AnimalsCells
    9. Genome editing using CRISPR-Cas9 to create the HPFH genotype in HSPCs: An approach for treating sickle cell disease and β-thalassemia. Proc Natl Acad Sci U S A. 2016 09 20; 113(38):10661-5. Ye L, Wang J, Tan Y, Beyer AI, Xie F, Muench MO, Kan YW. PMID: 27601644; PMCID: PMC5035856.
      View in: PubMed   Mentions: 90     Fields:    Translation:HumansCells
    10. Reversible Immortalization Enables Seamless Transdifferentiation of Primary Fibroblasts into Other Lineage Cells. Stem Cells Dev. 2016 08 15; 25(16):1243-8. Xie F, Gong K, Li K, Zhang M, Chang JC, Jiang S, Ye L, Wang J, Tan Y, Kan YW. PMID: 27328768; PMCID: PMC4991573.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimalsCells
    11. 332. Correction of the Sickle Cell Anemia Mutation in Human Induced Pluripotent Stem Cells. Molecular Therapy. 2016 May 1; 24:s132. Sargent SR, Suzuki SS, Gruenert GL, Xie XF, Ye YL, Kan KY, Gruenert GD. .
      View in: Publisher Site   Mentions:
    12. TALENs Facilitate Single-step Seamless SDF Correction of F508del CFTR in Airway Epithelial Submucosal Gland Cell-derived CF-iPSCs. Mol Ther Nucleic Acids. 2016 Jan 05; 5:e273. Suzuki S, Sargent RG, Illek B, Fischer H, Esmaeili-Shandiz A, Yezzi MJ, Lee A, Yang Y, Kim S, Renz P, Qi Z, Yu J, Muench MO, Beyer AI, Guimarães AO, Ye L, Chang J, Fine EJ, Cradick TJ, Bao G, Rahdar M, Porteus MH, Shuto T, Kai H, Kan YW, Gruenert DC. PMID: 26730810; PMCID: PMC5012545.
      View in: PubMed   Mentions: 23  
    13. Identification of small activating RNAs that enhance endogenous OCT4 expression in human mesenchymal stem cells. Stem Cells Dev. 2015 Feb 01; 24(3):345-53. Wang J, Huang V, Ye L, Bárcena A, Lin G, Lue TF, Li LC. PMID: 25232932; PMCID: PMC4303016.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansCells
    14. Seamless gene correction of β-thalassemia mutations in patient-specific iPSCs using CRISPR/Cas9 and piggyBac. Genome Res. 2014 Sep; 24(9):1526-33. Xie F, Ye L, Chang JC, Beyer AI, Wang J, Muench MO, Kan YW. PMID: 25096406; PMCID: PMC4158758.
      View in: PubMed   Mentions: 199     Fields:    Translation:HumansAnimalsCells
    15. Seamless modification of wild-type induced pluripotent stem cells to the natural CCR5Δ32 mutation confers resistance to HIV infection. Proc Natl Acad Sci U S A. 2014 Jul 01; 111(26):9591-6. Ye L, Wang J, Beyer AI, Teque F, Cradick TJ, Qi Z, Chang JC, Bao G, Muench MO, Yu J, Levy JA, Kan YW. PMID: 24927590; PMCID: PMC4084478.
      View in: PubMed   Mentions: 154     Fields:    Translation:HumansCells
    16. Blood cell-derived induced pluripotent stem cells free of reprogramming factors generated by Sendai viral vectors. Stem Cells Transl Med. 2013 Aug; 2(8):558-66. Ye L, Muench MO, Fusaki N, Beyer AI, Wang J, Qi Z, Yu J, Kan YW. PMID: 23847002; PMCID: PMC3726135.
      View in: PubMed   Mentions: 37     Fields:    Translation:HumansAnimalsCells
    17. Generation of induced pluripotent stem cells using site-specific integration with phage integrase. Proc Natl Acad Sci U S A. 2010 Nov 09; 107(45):19467-72. Ye L, Chang JC, Lin C, Qi Z, Yu J, Kan YW. PMID: 20974949; PMCID: PMC2984165.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansAnimalsCells
    18. Sequence-specific correction of genomic hypoxanthine-guanine phosphoribosyl transferase mutations in lymphoblasts by small fragment homologous replacement. Oligonucleotides. 2010 Feb; 20(1):7-16. Bedayat B, Abdolmohamadi A, Ye L, Maurisse R, Parsi H, Schwarz J, Emamekhoo H, Nicklas JA, O'Neill JP, Gruenert DC. PMID: 19995283; PMCID: PMC2948462.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    19. Induced pluripotent stem cells offer new approach to therapy in thalassemia and sickle cell anemia and option in prenatal diagnosis in genetic diseases. Proc Natl Acad Sci U S A. 2009 Jun 16; 106(24):9826-30. Ye L, Chang JC, Lin C, Sun X, Yu J, Kan YW. PMID: 19482945; PMCID: PMC2701047.
      View in: PubMed   Mentions: 83     Fields:    Translation:HumansCells
    20. High oxygen environment during pregnancy rescues sickle cell anemia mice from prenatal death. Blood Cells Mol Dis. 2008 Jul-Aug; 41(1):67-72. Ye L, Chang JC, Lu R, Kan YW. PMID: 18207438.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    21. Treatment of sickle cell anemia using the murine embryonic stem cell model. Blood Cells. 2007 Mar 1; 38(2):131. Chang CJ, Ye YL, Kan KY. .
      View in: Publisher Site   Mentions:
    22. Correction of the sickle cell mutation in embryonic stem cells. Proc Natl Acad Sci U S A. 2006 Jan 24; 103(4):1036-40. Chang JC, Ye L, Kan YW. PMID: 16407095; PMCID: PMC1326143.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansAnimalsCells
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