Fiona Kearns

Title(s)	Postdoctoral Scholar, Molecular Biology
School	Vc-academic Affairs
Address	9500 Gilman Drive # La Jolla CA 92093
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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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Glycoproteomic landscape and structural dynamics of TIM family immune checkpoints enabled by mucinase SmE. Nat Commun. 2023 10 04; 14(1):6169. Chongsaritsinsuk J, Steigmeyer AD, Mahoney KE, Rosenfeld MA, Lucas TM, Smith CM, Li A, Ince D, Kearns FL, Battison AS, Hollenhorst MA, Judy Shon D, Tiemeyer KH, Attah V, Kwon C, Bertozzi CR, Ferracane MJ, Lemmon MA, Amaro RE, Malaker SA. PMID: 37794035; PMCID: PMC10550946.

View in: PubMed Mentions: 4 Fields:
Bio Biology Sci Science
SARS-CoV-2 evolved variants optimize binding to cellular glycocalyx. Cell Rep Phys Sci. 2023 Apr 19; 4(4):101346. Kim SH, Kearns FL, Rosenfeld MA, Votapka L, Casalino L, Papanikolas M, Amaro RE, Freeman R. PMID: 37077408; PMCID: PMC10080732.

View in: PubMed Mentions: 4
Transmissible SARS-CoV-2 variants with resistance to clinical protease inhibitors. Sci Adv. 2023 03 29; 9(13):eade8778. Moghadasi SA, Heilmann E, Khalil AM, Nnabuife C, Kearns FL, Ye C, Moraes SN, Costacurta F, Esler MA, Aihara H, von Laer D, Martinez-Sobrido L, Palzkill T, Amaro RE, Harris RS. PMID: 36989354; PMCID: PMC10058310.

View in: PubMed Mentions: 34 Fields:
Sci Science
Translation:Humans Cells
Glycoproteomic landscape and structural dynamics of TIM family immune checkpoints enabled by mucinase SmE. bioRxiv. 2023 Feb 03. Chongsaritsinsuk J, Steigmeyer AD, Mahoney KE, Rosenfeld MA, Lucas TM, Ince D, Kearns FL, Battison AS, Hollenhorst MA, Shon DJ, Tiemeyer KH, Attah V, Kwon C, Bertozzi CR, Ferracane MJ, Amaro RE, Malaker SA. PMID: 36778266; PMCID: PMC9915616.

View in: PubMed Mentions:
Transmissible SARS-CoV-2 variants with resistance to clinical protease inhibitors. bioRxiv. 2022 Dec 26. Moghadasi SA, Heilmann E, Khalil AM, Nnabuife C, Kearns FL, Ye C, Moraes SN, Costacurta F, Esler MA, Aihara H, von Laer D, Martinez-Sobrido L, Palzkill T, Amaro RE, Harris RS. PMID: 35982678; PMCID: PMC9387136.

View in: PubMed Mentions:
#COVIDisAirborne: AI-enabled multiscale computational microscopy of delta SARS-CoV-2 in a respiratory aerosol. Int J High Perform Comput Appl. 2023 Jan; 37(1):28-44. Dommer A, Casalino L, Kearns F, Rosenfeld M, Wauer N, Ahn SH, Russo J, Oliveira S, Morris C, Bogetti A, Trifan A, Brace A, Sztain T, Clyde A, Ma H, Chennubhotla C, Lee H, Turilli M, Khalid S, Tamayo-Mendoza T, Welborn M, Christensen A, Smith DG, Qiao Z, Sirumalla SK, O'Connor M, Manby F, Anandkumar A, Hardy D, Phillips J, Stern A, Romero J, Clark D, Dorrell M, Maiden T, Huang L, McCalpin J, Woods C, Gray A, Williams M, Barker B, Rajapaksha H, Pitts R, Gibbs T, Stone J, Zuckerman DM, Mulholland AJ, Miller T, Jha S, Ramanathan A, Chong L, Amaro RE. PMID: 36647365; PMCID: PMC9527558.

View in: PubMed Mentions: 18
Targeted protein S-nitrosylation of ACE2 inhibits SARS-CoV-2 infection. Nat Chem Biol. 2023 03; 19(3):275-283. Oh CK, Nakamura T, Beutler N, Zhang X, Piña-Crespo J, Talantova M, Ghatak S, Trudler D, Carnevale LN, McKercher SR, Bakowski MA, Diedrich JK, Roberts AJ, Woods AK, Chi V, Gupta AK, Rosenfeld MA, Kearns FL, Casalino L, Shaabani N, Liu H, Wilson IA, Amaro RE, Burton DR, Yates JR, Becker C, Rogers TF, Chatterjee AK, Lipton SA. PMID: 36175661; PMCID: PMC10127945.

View in: PubMed Mentions: 9 Fields:
Bio Biology Che Chemistry
Translation:Humans Cells
Spike-heparan sulfate interactions in SARS-CoV-2 infection. Curr Opin Struct Biol. 2022 10; 76:102439. Kearns FL, Sandoval DR, Casalino L, Clausen TM, Rosenfeld MA, Spliid CB, Amaro RE, Esko JD. PMID: 35926454; PMCID: PMC9257145.

View in: PubMed Mentions: 21 Fields:
Bio Biochemistry Mol Molecular Biology
Translation:Humans Cells
Tuaimenal A, a Meroterpene from the Irish Deep-Sea Soft Coral Duva florida, Displays Inhibition of the SARS-CoV-2 3CLpro Enzyme. J Nat Prod. 2022 05 27; 85(5):1315-1323. Avalon NE, Nafie J, De Marco Verissimo C, Warrensford LC, Dietrick SG, Pittman AR, Young RM, Kearns FL, Smalley T, Binning JM, Dalton JP, Johnson MP, Woodcock HL, Allcock AL, Baker BJ. PMID: 35549259; PMCID: PMC9127705.

View in: PubMed Mentions: 4 Fields:
Pha Pharmacology
Translation:Animals Cells
Optimizing the Calculation of Free Energy Differences in Nonequilibrium Work SQM/MM Switching Simulations. J Phys Chem B. 2022 04 21; 126(15):2798-2811. Schöller A, Kearns F, Woodcock HL, Boresch S. PMID: 35404610; PMCID: PMC9036525.

View in: PubMed Mentions: 5 Fields:
Che Chemistry
Translation:Cells
Targeted protein S-nitrosylation of ACE2 as potential treatment to prevent spread of SARS-CoV-2 infection. bioRxiv. 2022 Apr 05. Oh CK, Nakamura T, Beutler N, Zhang X, Piña-Crespo J, Talantova M, Ghatak S, Trudler D, Carnevale LN, McKercher SR, Bakowski MA, Diedrich JK, Roberts AJ, Woods AK, Chi V, Gupta AK, Rosenfeld MA, Kearns FL, Casalino L, Shaabani N, Liu H, Wilson IA, Amaro RE, Burton DR, Yates JR, Becker C, Rogers TF, Chatterjee AK, Lipton SA. PMID: 35411336; PMCID: PMC8996617.

View in: PubMed Mentions:
Not Drug-like, but Like Drugs: Cnidaria Natural Products. Mar Drugs. 2021 Dec 30; 20(1). Laguionie-Marchais C, Allcock AL, Baker BJ, Conneely EA, Dietrick SG, Kearns F, McKeever K, Young RM, Sierra CA, Soldatou S, Woodcock HL, Johnson MP. PMID: 35049897; PMCID: PMC8779300.

View in: PubMed Mentions: Fields:
Bio Biology Pha Pharmacology
Translation:Animals
GlycoGrip: Cell Surface-Inspired Universal Sensor for Betacoronaviruses. ACS Cent Sci. 2022 Jan 26; 8(1):22-42. Kim SH, Kearns FL, Rosenfeld MA, Casalino L, Papanikolas MJ, Simmerling C, Amaro RE, Freeman R. PMID: 35106370; PMCID: PMC8796303.

View in: PubMed Mentions: 19
#COVIDisAirborne: AI-Enabled Multiscale Computational Microscopy of Delta SARS-CoV-2 in a Respiratory Aerosol. bioRxiv. 2021 Nov 15. Dommer A, Casalino L, Kearns F, Rosenfeld M, Wauer N, Ahn SH, Russo J, Oliveira S, Morris C, Bogetti A, Trifan A, Brace A, Sztain T, Clyde A, Ma H, Chennubhotla C, Lee H, Turilli M, Khalid S, Tamayo-Mendoza T, Welborn M, Christensen A, Smith DGA, Qiao Z, Sirumalla SK, O'Connor M, Manby F, Anandkumar A, Hardy D, Phillips J, Stern A, Romero J, Clark D, Dorrell M, Maiden T, Huang L, McCalpin J, Woods C, Gray A, Williams M, Barker B, Rajapaksha H, Pitts R, Gibbs T, Stone J, Zuckerman D, Mulholland A, Miller T, Jha S, Ramanathan A, Chong L, Amaro R. PMID: 34816263; PMCID: PMC8609898.

View in: PubMed Mentions: 1
CIFDock: A novel CHARMM-based flexible receptor-flexible ligand docking protocol. J Comput Chem. 2022 01 15; 43(2):84-95. Vankayala SL, Warrensford LC, Pittman AR, Pollard BC, Kearns FL, Larkin JD, Woodcock HL. PMID: 34741467.

View in: PubMed Mentions: 2 Fields:
Che Chemistry Com Computational Biology
A glycan gate controls opening of the SARS-CoV-2 spike protein. Nat Chem. 2021 10; 13(10):963-968. Sztain T, Ahn SH, Bogetti AT, Casalino L, Goldsmith JA, Seitz E, McCool RS, Kearns FL, Acosta-Reyes F, Maji S, Mashayekhi G, McCammon JA, Ourmazd A, Frank J, McLellan JS, Chong LT, Amaro RE. PMID: 34413500; PMCID: PMC8488004.

View in: PubMed Mentions: 134 Fields:
Che Chemistry
Translation:Humans Cells
A glycan gate controls opening of the SARS-CoV-2 spike protein. bioRxiv. 2021 May 17. Sztain T, Ahn SH, Bogetti AT, Casalino L, Goldsmith JA, Seitz E, McCool RS, Kearns FL, Acosta-Reyes F, Maji S, Mashayekhi G, McCammon JA, Ourmazd A, Frank J, McLellan JS, Chong LT, Amaro RE. PMID: 33619492; PMCID: PMC7899456.

View in: PubMed Mentions:
Characterization and engineering of a two-enzyme system for plastics depolymerization. Proc Natl Acad Sci U S A. 2020 10 13; 117(41):25476-25485. Knott BC, Erickson E, Allen MD, Gado JE, Graham R, Kearns FL, Pardo I, Topuzlu E, Anderson JJ, Austin HP, Dominick G, Johnson CW, Rorrer NA, Szostkiewicz CJ, Copié V, Payne CM, Woodcock HL, Donohoe BS, Beckham GT, McGeehan JE. PMID: 32989159; PMCID: PMC7568301.

View in: PubMed Mentions: 78 Fields:
Sci Science
Translation:Cells
Natural protection of ocular surface from viral infections - A hypothesis. Med Hypotheses. 2020 Oct; 143:110082. Zimmerman K, Kearns F, Tzekov R. PMID: 32679424; PMCID: PMC7346787.

View in: PubMed Mentions: 6 Fields:
Med Medicine (General)
Translation:Humans Cells PHPublic Health
Mechanism of proton transfer in class A β-lactamase catalysis and inhibition by avibactam. Proc Natl Acad Sci U S A. 2020 03 17; 117(11):5818-5825. Pemberton OA, Noor RE, Kumar M V V, Sanishvili R, Kemp MT, Kearns FL, Woodcock HL, Gelis I, Chen Y. PMID: 32123084; PMCID: PMC7084157.

View in: PubMed Mentions: 19 Fields:
Sci Science
Translation:Cells
Modeling Boronic Acid Based Fluorescent Saccharide Sensors: Computational Investigation of d-Fructose Binding to Dimethylaminomethylphenylboronic Acid. J Chem Inf Model. 2019 05 28; 59(5):2150-2158. Kearns FL, Robart C, Kemp MT, Vankayala SL, Chapin BM, Anslyn EV, Woodcock HL, Larkin JD. PMID: 30908030; PMCID: PMC8577280.

View in: PubMed Mentions: 1 Fields:
Che Chemistry Med Medical Informatics
Translation:Cells
The Good, the Bad, and the Ugly: "HiPen", a New Dataset for Validating (S)QM/MM Free Energy Simulations. Molecules. 2019 Feb 14; 24(4). Kearns FL, Warrensford L, Boresch S, Woodcock HL. PMID: 30769826; PMCID: PMC6413162.

View in: PubMed Mentions: 8 Fields:
Bio Biology
Characterization and engineering of a plastic-degrading aromatic polyesterase. Proc Natl Acad Sci U S A. 2018 05 08; 115(19):E4350-E4357. Austin HP, Allen MD, Donohoe BS, Rorrer NA, Kearns FL, Silveira RL, Pollard BC, Dominick G, Duman R, El Omari K, Mykhaylyk V, Wagner A, Michener WE, Amore A, Skaf MS, Crowley MF, Thorne AW, Johnson CW, Woodcock HL, McGeehan JE, Beckham GT. PMID: 29666242; PMCID: PMC5948967.

View in: PubMed Mentions: 167 Fields:
Sci Science
Translation:Cells
Computing converged free energy differences between levels of theory via nonequilibrium work methods: Challenges and opportunities. J Comput Chem. 2017 06 15; 38(16):1376-1388. Kearns FL, Hudson PS, Woodcock HL, Boresch S. PMID: 28272811.

View in: PubMed Mentions: 19 Fields:
Che Chemistry Com Computational Biology
Elucidating a chemical defense mechanism of Antarctic sponges: A computational study. J Mol Graph Model. 2017 01; 71:104-115. Vankayala SL, Kearns FL, Baker BJ, Larkin JD, Lee Woodcock H. PMID: 27894019.

View in: PubMed Mentions: 1 Fields:
Mol Molecular Biology
Translation:Animals Cells
Identification of Ecdysone Hormone Receptor Agonists as a Therapeutic Approach for Treating Filarial Infections. PLoS Negl Trop Dis. 2016 06; 10(6):e0004772. Mhashilkar AS, Vankayala SL, Liu C, Kearns F, Mehrotra P, Tzertzinis G, Palli SR, Woodcock HL, Unnasch TR. PMID: 27300294; PMCID: PMC4907521.

View in: PubMed Mentions: 9 Fields:
Tro Tropical Medicine
Translation:Humans Animals Cells
Efficiently computing pathway free energies: New approaches based on chain-of-replica and Non-Boltzmann Bennett reweighting schemes. Biochim Biophys Acta. 2015 May; 1850(5):944-953. Hudson PS, White JK, Kearns FL, Hodoscek M, Boresch S, Lee Woodcock H. PMID: 25239198.

View in: PubMed Mentions: 16 Fields:
Bio Biochemistry Bio Biophysics
Translation:Cells