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Nicole Ersaro, PhD

Photo of Nicole Ersaro, PhD
Title(s)Scientific Program Manager, Medicine
SchoolSchool of Medicine
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    Drexel University, Philadelphia, PABSBiomedical Engineering
    Drexel University, Philadelphia, PAMSBiomedical Engineering
    Stanford University, Stanford, CAPhDBiomedical Informatics

    Collapse Overview 
    Collapse overview
    Nicole earned her PhD in biomedical informatics at Stanford University and B.S. and M.S. degrees from Drexel University in Biomedical Engineering. Her doctoral research focused on computational approaches to interpret non-coding rare genetic variation in both rare and common diseases, work she continued at Illumina's Artificial Intelligence Lab prior to joining UCSF's Center for Biosignal Research in 2025. As scientific program manager, she is working to bring CBR's research on improved biosignal data analysis to the clinic while supporting ongoing research efforts in methods development and discovery.

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    Collapse selected 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. Predicting expression-altering promoter mutations with deep learning. Science. 2025 Aug 07; 389(6760):eads7373. Jaganathan K, Ersaro N, Novakovsky G, Wang Y, James T, Schwartzentruber J, Fiziev P, Kassam I, Cao F, Hawe J, Cavanagh H, Lim A, Png G, McRae J, Banerjee A, Kumar A, Ulirsch J, Zhang Y, Aguet F, Wainschtein P, Sundaram L, Salcedo A, Panagiotopoulou SK, Aghamirzaie D, Padhi E, Weng Z, Dong S, Smedley D, Caulfield M, O'Donnell-Luria A, Rehm HL, Sanders SJ, Kundaje A, Montgomery SB, Ross MT, Farh KK. PMID: 40440429.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    2. Transcriptomic signatures of rare variant impacts across sex and the X chromosome. HGG Adv. 2025 Jul 10; 6(3):100463. Ungar RA, Li T, Vetr NG, Ersaro N, Battle A, Montgomery SB. PMID: 40452186; PMCID: PMC12214130.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    3. The functional impact of rare variation across the regulatory cascade. Cell Genom. 2023 Oct 11; 3(10):100401. Li T, Ferraro N, Strober BJ, Aguet F, Kasela S, Arvanitis M, Ni B, Wiel L, Hershberg E, Ardlie K, Arking DE, Beer RL, Brody J, Blackwell TW, Clish C, Gabriel S, Gerszten R, Guo X, Gupta N, Johnson WC, Lappalainen T, Lin HJ, Liu Y, Nickerson DA, Papanicolaou G, Pritchard JK, Qasba P, Shojaie A, Smith J, Sotoodehnia N, Taylor KD, Tracy RP, Van Den Berg D, Wheeler MT, Rich SS, Rotter JI, Battle A, Montgomery SB. PMID: 37868038; PMCID: PMC10589633.
      View in: PubMed   Mentions: 8     Fields:    
    4. Integration of rare expression outlier-associated variants improves polygenic risk prediction. Am J Hum Genet. 2022 06 02; 109(6):1055-1064. Smail C, Ferraro NM, Hui Q, Durrant MG, Aguirre M, Tanigawa Y, Keever-Keigher MR, Rao AS, Justesen JM, Li X, Gloudemans MJ, Assimes TL, Kooperberg C, Reiner AP, Huang J, O'Donnell CJ, Sun YV, Million Veteran Program, Rivas MA, Montgomery SB. PMID: 35588732; PMCID: PMC9247823.
      View in: PubMed   Mentions: 14     Fields:    Translation:Humans
    5. Nonsense-mediated decay is highly stable across individuals and tissues. Am J Hum Genet. 2021 08 05; 108(8):1401-1408. Teran NA, Nachun DC, Eulalio T, Ferraro NM, Smail C, Rivas MA, Montgomery SB. PMID: 34216550; PMCID: PMC8387471.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansCells
    6. Population-scale tissue transcriptomics maps long non-coding RNAs to complex disease. Cell. 2021 05 13; 184(10):2633-2648.e19. de Goede OM, Nachun DC, Ferraro NM, Gloudemans MJ, Rao AS, Smail C, Eulalio TY, Aguet F, Ng B, Xu J, Barbeira AN, Castel SE, Kim-Hellmuth S, Park Y, Scott AJ, Strober BJ, GTEx Consortium, Brown CD, Wen X, Hall IM, Battle A, Lappalainen T, Im HK, Ardlie KG, Mostafavi S, Quertermous T, Kirkegaard K, Montgomery SB. PMID: 33864768; PMCID: PMC8651477.
      View in: PubMed   Mentions: 92     Fields:    Translation:HumansCells
    7. Identification of rare and common regulatory variants in pluripotent cells using population-scale transcriptomics. Nat Genet. 2021 03; 53(3):313-321. Bonder MJ, Smail C, Gloudemans MJ, Frésard L, Jakubosky D, D'Antonio M, Li X, Ferraro NM, Carcamo-Orive I, Mirauta B, Seaton DD, Cai N, Vakili D, Horta D, Zhao C, Zastrow DB, Bonner DE, HipSci Consortium, iPSCORE consortium, Undiagnosed Diseases Network, PhLiPS consortium, Wheeler MT, Kilpinen H, Knowles JW, Smith EN, Frazer KA, Montgomery SB, Stegle O. PMID: 33664507; PMCID: PMC7944648.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansCells
    8. Evaluating the Genomic Parameters Governing rAAV-Mediated Homologous Recombination. Mol Ther. 2021 03 03; 29(3):1028-1046. Spector LP, Tiffany M, Ferraro NM, Abell NS, Montgomery SB, Kay MA. PMID: 33248247; PMCID: PMC7934627.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    9. Transcriptomic signatures across human tissues identify functional rare genetic variation. Science. 2020 09 11; 369(6509). Ferraro NM, Strober BJ, Einson J, Abell NS, Aguet F, Barbeira AN, Brandt M, Bucan M, Castel SE, Davis JR, Greenwald E, Hess GT, Hilliard AT, Kember RL, Kotis B, Park Y, Peloso G, Ramdas S, Scott AJ, Smail C, Tsang EK, Zekavat SM, Ziosi M, TOPMed Lipids Working Group, Ardlie KG, Assimes TL, Bassik MC, Brown CD, Correa A, Hall I, Im HK, Li X, Natarajan P, GTEx Consortium, Lappalainen T, Mohammadi P, Montgomery SB, Battle A. PMID: 32913073; PMCID: PMC7646251.
      View in: PubMed   Mentions: 90     Fields:    Translation:HumansCells
    10. Identification of rare-disease genes using blood transcriptome sequencing and large control cohorts. Nat Med. 2019 06; 25(6):911-919. Frésard L, Smail C, Ferraro NM, Teran NA, Li X, Smith KS, Bonner D, Kernohan KD, Marwaha S, Zappala Z, Balliu B, Davis JR, Liu B, Prybol CJ, Kohler JN, Zastrow DB, Reuter CM, Fisk DG, Grove ME, Davidson JM, Hartley T, Joshi R, Strober BJ, Utiramerur S, Undiagnosed Diseases Network, Care4Rare Canada Consortium, Lind L, Ingelsson E, Battle A, Bejerano G, Bernstein JA, Ashley EA, Boycott KM, Merker JD, Wheeler MT, Montgomery SB. PMID: 31160820; PMCID: PMC6634302.
      View in: PubMed   Mentions: 171     Fields:    Translation:HumansCells
    11. Deconvolution of heterogeneous wound tissue samples into relative macrophage phenotype composition via models based on gene expression. Integr Biol (Camb). 2017 04 18; 9(4):328-338. Ferraro NM, Dampier W, Weingarten MS, Spiller KL. PMID: 28290581; PMCID: PMC5719501.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    12. Transcriptome analysis of IL-10-stimulated (M2c) macrophages by next-generation sequencing. Immunobiology. 2017 07; 222(7):847-856. Lurier EB, Dalton D, Dampier W, Raman P, Nassiri S, Ferraro NM, Rajagopalan R, Sarmady M, Spiller KL. PMID: 28318799; PMCID: PMC5719494.
      View in: PubMed   Mentions: 108     Fields:    Translation:HumansCells
    13. Macrophage Transcriptional Profile Identifies Lipid Catabolic Pathways That Can Be Therapeutically Targeted after Spinal Cord Injury. J Neurosci. 2017 03 01; 37(9):2362-2376. Zhu Y, Lyapichev K, Lee DH, Motti D, Ferraro NM, Zhang Y, Yahn S, Soderblom C, Zha J, Bethea JR, Spiller KL, Lemmon VP, Lee JK. PMID: 28130359; PMCID: PMC5354348.
      View in: PubMed   Mentions: 64     Fields:    Translation:AnimalsCells
    14. Simulation to Predict Effect of Citywide Events on Emergency Department Operations. Pediatr Qual Saf. 2017 Jan-Feb; 2(1):e008. Ferraro NM, Day TE. PMID: 30229148; PMCID: PMC6132789.
      View in: PubMed   Mentions: 1  
    15. Capacity planning for maternal-fetal medicine using discrete event simulation. Am J Perinatol. 2015 Jul; 32(8):761-70. Ferraro NM, Reamer CB, Reynolds TA, Howell LJ, Moldenhauer JS, Day TE. PMID: 25519198.
      View in: PubMed   Mentions: 5     Fields:    Translation:Humans
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