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Stephanie Fraley

TitleAssistant Researcher
InstitutionUniversity of California San Diego
DepartmentBioengineering
Address9500 Gilman Drive #0435
La Jolla CA 92093
Phone858-822-5326
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    Collapse Research 
    Collapse Research Activities and Funding
    Digital High Resolution Melt and Machine Learning for Rapid and Specific Diagnosis in Neonatal Sepsis
    NIH/NIAID R01AI134982May 1, 2018 - Apr 30, 2023
    Role: Principal Investigator

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    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.
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    1. Zhang W, Bojorquez-Gomez A, Velez DO, Xu G, Sanchez KS, Shen JP, Chen K, Licon K, Melton C, Olson KM, Yu MK, Huang JK, Carter H, Farley EK, Snyder M, Fraley SI, Kreisberg JF, Ideker T. A global transcriptional network connecting noncoding mutations to changes in tumor gene expression. Nat Genet. 2018 Apr; 50(4):613-620. PMID: 29610481.
      View in: PubMed
    2. Sinha M, Mack H, Coleman TP, Fraley SI. A High-Resolution Digital DNA Melting Platform for Robust Sequence Profiling and Enhanced Genotype Discrimination. SLAS Technol. 2018 Apr 01; 2472630318769846. PMID: 29652558.
      View in: PubMed
    3. Sinha M, Jupe J, Mack H, Coleman TP, Lawrence SM, Fraley SI. Emerging Technologies for Molecular Diagnosis of Sepsis. Clin Microbiol Rev. 2018 Apr; 31(2). PMID: 29490932.
      View in: PubMed
    4. Velez DO, Mack H, Jupe J, Hawker S, Kulkarni N, Hedayatnia B, Zhang Y, Lawrence S, Fraley SI. Massively parallel digital high resolution melt for rapid and absolutely quantitative sequence profiling. Sci Rep. 2017 Feb 08; 7:42326. PMID: 28176860.
      View in: PubMed
    5. Fraley SI, Athamanolap P, Masek BJ, Hardick J, Carroll KC, Hsieh YH, Rothman RE, Gaydos CA, Wang TH, Yang S. Nested Machine Learning Facilitates Increased Sequence Content for Large-Scale Automated High Resolution Melt Genotyping. Sci Rep. 2016 Jan 18; 6:19218. PMID: 26778280; PMCID: PMC4726007.
    6. Fraley SI, Hardick J, Masek BJ, Athamanolap P, Rothman RE, Gaydos CA, Carroll KC, Wakefield T, Wang TH, Yang S. Universal digital high-resolution melt: a novel approach to broad-based profiling of heterogeneous biological samples. Nucleic Acids Res. 2016 Jan 08; 44(1):508. PMID: 26476457; PMCID: PMC4705649.
    7. Fraley SI, Wu PH, He L, Feng Y, Krisnamurthy R, Longmore GD, Wirtz D. Three-dimensional matrix fiber alignment modulates cell migration and MT1-MMP utility by spatially and temporally directing protrusions. Sci Rep. 2015 Oct 01; 5:14580. PMID: 26423227; PMCID: PMC4589685.
    8. Athamanolap P, Parekh V, Fraley SI, Agarwal V, Shin DJ, Jacobs MA, Wang TH, Yang S. Trainable high resolution melt curve machine learning classifier for large-scale reliable genotyping of sequence variants. PLoS One. 2014; 9(9):e109094. PMID: 25275518; PMCID: PMC4183555.
    9. Fraley SI, Hardick J, Masek BJ, Jo Masek B, Athamanolap P, Rothman RE, Gaydos CA, Carroll KC, Wakefield T, Wang TH, Yang S. Universal digital high-resolution melt: a novel approach to broad-based profiling of heterogeneous biological samples. Nucleic Acids Res. 2013 Oct; 41(18):e175. PMID: 23935121; PMCID: PMC3794612.
    10. A physical sciences network characterization of non-tumorigenic and metastatic cells. Sci Rep. 2013; 3:1449. PMID: 23618955; PMCID: PMC3636513.
    11. Yap KL, Fraley SI, Thiaville MM, Jinawath N, Nakayama K, Wang J, Wang TL, Wirtz D, Shih IeM. NAC1 is an actin-binding protein that is essential for effective cytokinesis in cancer cells. Cancer Res. 2012 Aug 15; 72(16):4085-96. PMID: 22761335; PMCID: PMC3421062.
    12. Fraley SI, Feng Y, Giri A, Longmore GD, Wirtz D. Dimensional and temporal controls of three-dimensional cell migration by zyxin and binding partners. Nat Commun. 2012 Mar 06; 3:719. PMID: 22395610; PMCID: PMC4380184.
    13. Wong CC, Gilkes DM, Zhang H, Chen J, Wei H, Chaturvedi P, Fraley SI, Wong CM, Khoo US, Ng IO, Wirtz D, Semenza GL. Hypoxia-inducible factor 1 is a master regulator of breast cancer metastatic niche formation. Proc Natl Acad Sci U S A. 2011 Sep 27; 108(39):16369-74. PMID: 21911388; PMCID: PMC3182724.
    14. Fraley SI, Feng Y, Krishnamurthy R, Kim DH, Celedon A, Longmore GD, Wirtz D. A distinctive role for focal adhesion proteins in three-dimensional cell motility. Nat Cell Biol. 2010 Jun; 12(6):598-604. PMID: 20473295; PMCID: PMC3116660.
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