Eliah Shamir, MD, PhD

Title(s)Assistant Professor, Pathology
SchoolSchool of Medicine
Address513 Parnassus Avenue HSW, #450E
San Francisco CA 94143
ORCID ORCID Icon0000-0002-2417-3294 Additional info
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    Collapse Biography 
    Collapse education and training
    University of Virginia, Charlottesville, VABS05/2008Biomedical Engineering, Global Public Health
    Johns Hopkins School of Medicine, Baltimore, MDMD05/2016
    Johns Hopkins School of Medicine, Baltimore, MDPhD05/2016Cell Biology
    University of California, San Francisco, San Francisco, CAResidency06/2019Anatomic Pathology
    University of California, San Francisco, San Francisco, CAFellowship06/2019Surgical Pathology, Breast Pathology

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    Collapse Bibliographic 
    Collapse publications
    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. High-throughput histopathology for complex in vitro models. Cell Rep Methods. 2026 Jun 15; 6(6):101419. Harter MF, D'Arcangelo E, Aubert J, Lavickova B, Havnar C, Stoll B, Cubela I, Filip AM, Gaspa-Toneu L, Scherer J, Karagkiozi E, Dupré JS, López-Sandoval R, Hsia R, Norona LM, Brancati G, Okuda R, Camp JG, Shamir ER, Garcia-Cordero JL, Pereiro I, Gjorevski N. PMID: 42030947.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    2. Clinicopathologic Analyses of 34 Cases of High-Grade Serous-Like Carcinoma (HG-SL-Ca) of the Breast. Am J Surg Pathol. 2026 May 01; 50(5):543-549. Haw Y, Krings G, Hsiao WY, Zhan H, Hou Y, Zhang G, Zhang H, Wei S, Yang W, Laé M, Post MD, Liu Y, Shamir ER, Rosa M, Siziopikou K, Schnitt S, Chen YY, Li X. PMID: 41735183.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    3. Ex Vivo Culture and Formalin-Fixed Paraffin Embedding of Murine Retinal Explants. Methods Mol Biol. 2026; 3023:81-100. Haller S, Marton RM, Shamir ER. PMID: 42020903.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    4. Genetic Analysis of Early Neoplasia in the Breast: Next-Generation Sequencing of Flat Epithelial Atypia and Associated Ductal and Lobular Lesions. Mod Pathol. 2025 Nov; 38(11):100820. Krings G, Shamir ER, Shelley Hwang E, Chen YY. PMID: 40553940.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    5. Serous-like breast carcinomas: immunophenotypic, genetic, and clinicopathologic characterization of a morphologically distinct group of tumours. Histopathology. 2025 Apr; 86(5):779-792. Krings G, Shamir ER, Laé M, Bean GR, Post MD, Schnitt SJ, Chen YY. PMID: 39654368.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    6. Histogel-based techniques for embedding organoids in paraffin blocks enable high throughput downstream histopathological analyses. J Histotechnol. 2025 Mar; 48(1):46-57. Havnar C, Holokai L, Ichikawa R, Chen W, Scherl A, Shamir ER. PMID: 39234931.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansAnimals
    7. IL-4-induced SOX9 confers lineage plasticity to aged adult lung stem cells. Cell Rep. 2024 08 27; 43(8):114569. Cai XT, Jia M, Heigl T, Shamir ER, Wong AK, Hall BM, Arlantico A, Hung J, Menon HG, Darmanis S, Brightbill HD, Garfield DA, Rock JR. PMID: 39088319.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansAnimalsCells
    8. Epimorphic regeneration in the mammalian tympanic membrane. NPJ Regen Med. 2023 Oct 18; 8(1):58. Scaria SM, Frumm SM, Vikram EP, Easow SA, Sheth AH, Shamir ER, Yu SK, Tward AD. PMID: 37852984; PMCID: PMC10584978.
      View in: PubMed   Mentions: 2  
    9. Specific Oral Microbial Differences in Proteobacteria and Bacteroidetes Are Associated with Distinct Sites When Moving from Healthy Mucosa to Oral Dysplasia-A Microbiome and Gene Profiling Study and Focused Review. Microorganisms. 2023 Sep 07; 11(9). Radaic A, Shamir ER, Jones K, Villa A, Garud NR, Tward AD, Kamarajan P, Kapila YL. PMID: 37764094; PMCID: PMC10534919.
      View in: PubMed   Mentions: 9  
    10. Solid-Basaloid Adenoid Cystic Carcinoma of the Breast: An Aggressive Subtype Enriched for Notch Pathway and Chromatin Modifier Mutations With MYB Overexpression. Mod Pathol. 2023 12; 36(12):100324. Shamir ER, Bean GR, Schwartz CJ, Vohra P, Wang A, Allard GM, Wolsky RJ, Garcia JJ, Chen YY, Krings G. PMID: 37660928.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    11. An agonistic anti-signal regulatory protein α antibody for chronic inflammatory diseases. Cell Rep Med. 2023 08 15; 4(8):101130. Xie MM, Dai B, Hackney JA, Sun T, Zhang J, Jackman JK, Jeet S, Irizarry-Caro RA, Fu Y, Liang Y, Bender H, Shamir ER, Keir ME, Bevers J, Nakamura G, Townsend MJ, Fox DA, Scherl A, Lee WP, Martin F, Godowski PJ, Pappu R, Yi T. PMID: 37490914; PMCID: PMC10439247.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansCells
    12. Improved handling and embedding schemes for cultured murine neuroretinal explants. J Histotechnol. 2022 Oct 12; 1-13. Haller S, Marton RM, Marroquin KA, Shamir ER. PMID: 36222271.
      View in: PubMed   Mentions:    Fields:    
    13. Autophagic Degradation of NBR1 Restricts Metastatic Outgrowth during Mammary Tumor Progression. Dev Cell. 2020 03 09; 52(5):591-604.e6. Marsh T, Kenific CM, Suresh D, Gonzalez H, Shamir ER, Mei W, Tankka A, Leidal AM, Kalavacherla S, Woo K, Werb Z, Debnath J. PMID: 32084360; PMCID: PMC7108946.
      View in: PubMed   Mentions: 74     Fields:    Translation:HumansAnimalsCells
    14. Genetic analysis of pleomorphic and florid lobular carcinoma in situ variants: frequent ERBB2/ERBB3 alterations and clonal relationship to classic lobular carcinoma in situ and invasive lobular carcinoma. Mod Pathol. 2020 06; 33(6):1078-1091. Shamir ER, Chen YY, Krings G. PMID: 31907376.
      View in: PubMed   Mentions: 9     Fields:    Translation:Humans
    15. Pleomorphic and Florid Lobular Carcinoma In Situ Variants of the Breast: A Clinicopathologic Study of 85 Cases With and Without Invasive Carcinoma From a Single Academic Center. Am J Surg Pathol. 2019 03; 43(3):399-408. Shamir ER, Chen YY, Chu T, Pekmezci M, Rabban JT, Krings G. PMID: 30489319.
      View in: PubMed   Mentions: 15     Fields:    Translation:Humans
    16. De novo leukocyte chemotactic factor 2 amyloidosis in a pediatric renal allograft, 15 years post-transplant. Pediatr Transplant. 2019 05; 23(3):e13371. Shamir ER, Lee MM, Walavalkar V. PMID: 30714275.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    17. Identification of high-risk human papillomavirus and Rb/E2F pathway genomic alterations in mutually exclusive subsets of colorectal neuroendocrine carcinoma. Mod Pathol. 2019 02; 32(2):290-305. Shamir ER, Devine WP, Pekmezci M, Umetsu SE, Krings G, Federman S, Cho SJ, Saunders TA, Jen KY, Bergsland E, Jones K, Kim GE, Kakar S, Chiu CY, Joseph NM. PMID: 30237525.
      View in: PubMed   Mentions: 28     Fields:    Translation:Humans
    18. Myoepithelial cells are a dynamic barrier to epithelial dissemination. J Cell Biol. 2018 10 01; 217(10):3368-3381. Sirka OK, Shamir ER, Ewald AJ. PMID: 30061105; PMCID: PMC6168248.
      View in: PubMed   Mentions: 45     Fields:    Translation:Animals
    19. Twist1-positive epithelial cells retain adhesive and proliferative capacity throughout dissemination. Biol Open. 2016 Sep 15; 5(9):1216-28. Shamir ER, Coutinho K, Georgess D, Auer M, Ewald AJ. PMID: 27402962; PMCID: PMC5051642.
      View in: PubMed   Mentions: 8     Fields:    
    20. Cell-cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis. Proc Natl Acad Sci U S A. 2016 Feb 09; 113(6):E679-88. Ellison D, Mugler A, Brennan MD, Lee SH, Huebner RJ, Shamir ER, Woo LA, Kim J, Amar P, Nemenman I, Ewald AJ, Levchenko A. PMID: 26792522; PMCID: PMC4760786.
      View in: PubMed   Mentions: 70     Fields:    Translation:AnimalsCells
    21. Adhesion in mammary development: novel roles for E-cadherin in individual and collective cell migration. Curr Top Dev Biol. 2015; 112:353-82. Shamir ER, Ewald AJ. PMID: 25733146; PMCID: PMC4696070.
      View in: PubMed   Mentions: 58     Fields:    Translation:HumansAnimalsCells
    22. 3D culture assays of murine mammary branching morphogenesis and epithelial invasion. Methods Mol Biol. 2015; 1189:135-62. Nguyen-Ngoc KV, Shamir ER, Huebner RJ, Beck JN, Cheung KJ, Ewald AJ. PMID: 25245692; PMCID: PMC4750493.
      View in: PubMed   Mentions: 93     Fields:    Translation:AnimalsCells
    23. Three-dimensional organotypic culture: experimental models of mammalian biology and disease. Nat Rev Mol Cell Biol. 2014 Oct; 15(10):647-64. Shamir ER, Ewald AJ. PMID: 25237826; PMCID: PMC4352326.
      View in: PubMed   Mentions: 351     Fields:    Translation:AnimalsCells
    24. Twist1-induced dissemination preserves epithelial identity and requires E-cadherin. J Cell Biol. 2014 Mar 03; 204(5):839-56. Shamir ER, Pappalardo E, Jorgens DM, Coutinho K, Tsai WT, Aziz K, Auer M, Tran PT, Bader JS, Ewald AJ. PMID: 24590176; PMCID: PMC3941052.
      View in: PubMed   Mentions: 121     Fields:    Translation:AnimalsCells
    25. ECM microenvironment regulates collective migration and local dissemination in normal and malignant mammary epithelium. Proc Natl Acad Sci U S A. 2012 Sep 25; 109(39):E2595-604. Nguyen-Ngoc KV, Cheung KJ, Brenot A, Shamir ER, Gray RS, Hines WC, Yaswen P, Werb Z, Ewald AJ. PMID: 22923691; PMCID: PMC3465416.
      View in: PubMed   Mentions: 252     Fields:    Translation:HumansAnimals
    26. Nitazoxanide inhibits biofilm production and hemagglutination by enteroaggregative Escherichia coli strains by blocking assembly of AafA fimbriae. Antimicrob Agents Chemother. 2010 Apr; 54(4):1526-33. Shamir ER, Warthan M, Brown SP, Nataro JP, Guerrant RL, Hoffman PS. PMID: 20086145; PMCID: PMC2849362.
      View in: PubMed   Mentions: 30     Fields:    Translation:HumansCells
    27. Robust fluorescent detection of protein fatty-acylation with chemical reporters. J Am Chem Soc. 2009 Apr 08; 131(13):4967-75. Charron G, Zhang MM, Yount JS, Wilson J, Raghavan AS, Shamir E, Hang HC. PMID: 19281244.
      View in: PubMed   Mentions: 170     Fields:    Translation:HumansCells
    28. Recombinant human insulin-like growth factor-1 induces an anabolic response in malnourished CAPD patients. Kidney Int. 2000 Feb; 57(2):646-54. Fouque D, Peng SC, Shamir E, Kopple JD. PMID: 10652043.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCTClinical Trials
    29. Clinico-tremorgraphic features of neuroleptic-induced tremor. Int Clin Psychopharmacol. 1998 May; 13(3):115-20. Rapoport A, Stein D, Shamir E, Schwartz M, Levine J, Elizur A, Weizman A. PMID: 9690978.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
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