Angela Phillips, PhD

Title(s)Assistant Professor, Microbiology and Immunology
SchoolSchool of Medicine
Address513 Parnassus Avenue, HSE, #454
San Francisco CA 94143
ORCID ORCID Icon0000-0002-9806-7574 Additional info
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    Collapse Biography 
    Collapse Education and Training
    Massachusetts Institute of Technology, Cambridge, MAPh.D.06/2018Biological Chemistry
    Harvard University, Cambridge, MAPost-doc09/2022Evolutionary Biology

    Collapse Overview 
    Collapse Overview
    We are broadly interested in how the molecular properties of viral proteins and antibodies constrain their evolution and co-evolution.

    Viral proteins and antibodies acquire amino acid substitutions at a rate orders of magnitude above most eukaryotic proteins. These substitutions can have pleiotropic consequences on protein stability, folding, and function. Our lab is developing high-throughput evolution and phenotyping assays to determine how these properties, and trade-offs between them, constrain and potentiate the evolution of viral proteins and antibodies, and how this varies between distinct selection environments. These experimental platforms will enable us to (1) determine key constraints on protein evolution, (2) predict the emergence of new viral variants, and (3) design therapeutic strategies that are refractory to the development of resistance.

    Collapse Research 
    Collapse Research Activities and Funding
    Mapping constraints on protein evolution at the host-virus interface
    HHMI Hanna H. Gray FellowshipSep 12, 2022 - Sep 12, 2026
    Role: Principal Investigator

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    Collapse Featured Publications

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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. 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. Protein sequence landscapes are not so simple: on reference-free versus reference-based inference. bioRxiv. 2024 Jan 30. Dupic T, Phillips AM, Desai MM. PMID: 38352387; PMCID: PMC10862727.
      View in: PubMed   Mentions:
    2. Genotype-phenotype landscapes for immune-pathogen coevolution. Trends Immunol. 2023 05; 44(5):384-396. Moulana A, Dupic T, Phillips AM, Desai MM. PMID: 37024340; PMCID: PMC10147585.
      View in: PubMed   Mentions:    Fields:    
    3. The landscape of antibody binding affinity in SARS-CoV-2 Omicron BA.1 evolution. Elife. 2023 02 21; 12. Moulana A, Dupic T, Phillips AM, Chang J, Roffler AA, Greaney AJ, Starr TN, Bloom JD, Desai MM. PMID: 36803543; PMCID: PMC9949795.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    4. Hierarchical sequence-affinity landscapes shape the evolution of breadth in an anti-influenza receptor binding site antibody. Elife. 2023 01 10; 12. Phillips AM, Maurer DP, Brooks C, Dupic T, Schmidt AG, Desai MM. PMID: 36625542; PMCID: PMC9995116.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    5. Compensatory epistasis maintains ACE2 affinity in SARS-CoV-2 Omicron BA.1. Nat Commun. 2022 11 16; 13(1):7011. Moulana A, Dupic T, Phillips AM, Chang J, Nieves S, Roffler AA, Greaney AJ, Starr TN, Bloom JD, Desai MM. PMID: 36384919; PMCID: PMC9668218.
      View in: PubMed   Mentions: 27     Fields:    Translation:HumansCells
    6. Compensatory epistasis maintains ACE2 affinity in SARS-CoV-2 Omicron BA.1. BioRxiv. 2022. Alief Moulana*, Thomas Dupic*, Angela M. Phillips*†, Jeffrey Chang*, Serafina Nieves, Anne A. Roffler, Allison J. Greaney, Tyler N. Starr, Jesse D. Bloom, Michael M. Desai†. View Publication.
    7. The endoplasmic reticulum proteostasis network profoundly shapes the protein sequence space accessible to HIV envelope. PLoS Biol. 2022 02; 20(2):e3001569. Yoon J, Nekongo EE, Patrick JE, Hui T, Phillips AM, Ponomarenko AI, Hendel SJ, Sebastian RM, Zhang YM, Butty VL, Ogbunugafor CB, Lin YS, Shoulders MD. PMID: 35180219; PMCID: PMC8906867.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    8. Dynamics and variability in the pleiotropic effects of adaptation in laboratory budding yeast populations. Elife. 2021 10 01; 10. Bakerlee CW, Phillips AM, Nguyen Ba AN, Desai MM. PMID: 34596043; PMCID: PMC8579951.
      View in: PubMed   Mentions: 8     Fields:    Translation:Animals
    9. Binding affinity landscapes constrain the evolution of broadly neutralizing anti-influenza antibodies. Elife. 2021 09 07; 10. Phillips AM, Lawrence KR, Moulana A, Dupic T, Chang J, Johnson MS, Cvijovic I, Mora T, Walczak AM, Desai MM. PMID: 34491198; PMCID: PMC8476123.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimalsCells
    10. The genetic basis of differential autodiploidization in evolving yeast populations. G3 (Bethesda). 2021 08 07; 11(8). Tung S, Bakerlee CW, Phillips AM, Nguyen Ba AN, Desai MM. PMID: 34849811; PMCID: PMC8496219.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimals
    11. Phenotypic and molecular evolution across 10,000 generations in laboratory budding yeast populations. Elife. 2021 01 19; 10. Johnson MS, Gopalakrishnan S, Goyal J, Dillingham ME, Bakerlee CW, Humphrey PT, Jagdish T, Jerison ER, Kosheleva K, Lawrence KR, Min J, Moulana A, Phillips AM, Piper JC, Purkanti R, Rego-Costa A, McDonald MJ, Nguyen Ba AN, Desai MM. PMID: 33464204; PMCID: PMC7815316.
      View in: PubMed   Mentions: 28     Fields:    Translation:Animals
    12. Destabilized adaptive influenza variants critical for innate immune system escape are potentiated by host chaperones. PLoS Biol. 2018 09; 16(9):e3000008. Phillips AM, Ponomarenko AI, Chen K, Ashenberg O, Miao J, McHugh SM, Butty VL, Whittaker CA, Moore CL, Bloom JD, Lin YS, Shoulders MD. PMID: 30222731; PMCID: PMC6160216.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansAnimalsCells
    13. Enhanced ER proteostasis and temperature differentially impact the mutational tolerance of influenza hemagglutinin. Elife. 2018 09 06; 7. Phillips AM, Doud MB, Gonzalez LO, Butty VL, Lin YS, Bloom JD, Shoulders MD. PMID: 30188321; PMCID: PMC6172027.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansCells
    14. Host proteostasis modulates influenza evolution. Elife. 2017 09 26; 6. Phillips AM, Gonzalez LO, Nekongo EE, Ponomarenko AI, McHugh SM, Butty VL, Levine SS, Lin YS, Mirny LA, Shoulders MD. PMID: 28949290; PMCID: PMC5614556.
      View in: PubMed   Mentions: 19     Fields:    Translation:AnimalsCells
    15. The Path of Least Resistance: Mechanisms to Reduce Influenza's Sensitivity to Oseltamivir. J Mol Biol. 2016 Feb 13; 428(3):533-537. Phillips AM, Shoulders MD. PMID: 26748011; PMCID: PMC4886345.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    16. Potency enhancement of the κ-opioid receptor antagonist probe ML140 through sulfonamide constraint utilizing a tetrahydroisoquinoline motif. Bioorg Med Chem. 2015 Jul 15; 23(14):3948-56. Frankowski KJ, Slauson SR, Lovell KM, Phillips AM, Streicher JM, Zhou L, Whipple DA, Schoenen FJ, Prisinzano TE, Bohn LM, Aubé J. PMID: 25593096; PMCID: PMC4468036.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    17. Quantifying Drosophila food intake: comparative analysis of current methodology. Nat Methods. 2014 May; 11(5):535-40. Deshpande SA, Carvalho GB, Amador A, Phillips AM, Hoxha S, Lizotte KJ, Ja WW. PMID: 24681694; PMCID: PMC4008671.
      View in: PubMed   Mentions: 104     Fields:    Translation:Animals
    18. Development of functionally selective, small molecule agonists at kappa opioid receptors. J Biol Chem. 2013 Dec 20; 288(51):36703-16. Zhou L, Lovell KM, Frankowski KJ, Slauson SR, Phillips AM, Streicher JM, Stahl E, Schmid CL, Hodder P, Madoux F, Cameron MD, Prisinzano TE, Aubé J, Bohn LM. PMID: 24187130; PMCID: PMC3868780.
      View in: PubMed   Mentions: 81     Fields:    Translation:HumansAnimalsCells
    19. Oxidative folding and preparation of α-conotoxins for use in high-throughput structure-activity relationship studies. J Pept Sci. 2013 Jan; 19(1):16-24. Gyanda R, Banerjee J, Chang YP, Phillips AM, Toll L, Armishaw CJ. PMID: 23193084.
      View in: PubMed   Mentions: 11     Fields:    Translation:Cells
    20. Vitamin D-dependent non-type 1, non-type 2 rickets in a 3-month-old Cornish Rex kitten. J Feline Med Surg. 2011 Jul; 13(7):526-31. Phillips AM, Fawcett AC, Allan GS, Wilkinson M, Fraser DR, Malik R. PMID: 21704902.
      View in: PubMed   Mentions: 3     Fields:    Translation:Animals
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