Collaborations

We enjoy research collaborations. The group expertise is in mass spectrometry, omics analysis and, sample preparation and separations. Chat with the PI (x.yao@uconn.edu) to start.

 

Collaborative Publications

  • “α-Methylene-β-Lactone Probe for Measuring Live-Cell Reactions of Small Molecules.” Wang, Lei; Riel, Louis; Bajrami, Bekim; Deng, Bin; Howell, Amy; Yao, Xudong (2020): ChemRxiv. Preprint. https://doi.org/10.26434/chemrxiv.12078582.v1
  • “Tuning of human MAIT cell activation by commensal bacteria species and MR1-dependent T-cell presentation.” Cihan Tastan, Ece Karhan, Wei Zhou, Elizabeth Fleming, Anita Y. Voigt, Xudong Yao, Lei Wang, Meghan Horne, Lindsey Placek, Lina Kozhaya, Julia Oh & Derya Unutmaz. Mucosal Immunology (2018)
  • “Directed Evolution of a Picomolar Affinity High Specificity Antibody Targeting Phosphorylated Tau.” D. Li, L. Wang, B.F. Maziuk, X. Yao, B. Wolozin, Y.K.Cho. J Biol Chem. 2018, pii: jbc.RA118.003557. doi: 10.1074/jbc.RA118.003557.
  • “Deposition and Hydrolysis of Serine Dipeptide Lipids of Bacteroidetes Bacteria in Human Arteries: Relationship to Atherosclerosis.” Nemati R, Dietz C, Anstadt EJ, Cervantes J, Liu Y, Dewhirst FE, Clark RB, Finegold S, Gallagher JJ, Smith MB, Yao X, Nichols FC. J Lipid Res. 2017 Aug 16. pii: jlr.M077792. doi: 10.1194/jlr.M077792.
  • “Scaling Proteome-Wide Reactions of Activity-Based Probes.” Song Li, Pamela A. Diego-Limpin, Bekim Bajrami, Santosh Keshipeddy, Ying-Wai Lam, Bin Deng, Vahid Farrokhi, Adam J. McShane, Reza Nemati, Amy R. Howell, and Xudong Yao. Anal Chem. 2017, 89 (12), pp 6295–6299; DOI: 10.1021/acs.analchem.7b01184.
  • “Simultaneous determination of absolute configuration and quantity of lipopeptides using chiral liquid chromatography-mass spectrometry and diastereomeric internal standards.” Nemati R, Dietz C, Anstadt E, Clark R, Smith MB, Nichols F, Yao X. Anal Chem. 2017, 89 (6), pp 3583–3589; DOI: 10.1021/acs.analchem.6b04901.
  • “Structural verification via convergent total synthesis of dipeptide–lipids isolated from Porphyromonas gingivalis.” Christopher Dietza, Theresa K. Harta, Reza Nematia, Xudong Yao, Frank C. Nichols, Michael B. Smith, Tetrahedron, 2016, 72(47), 24, 7557–7569.
  • Serine dipeptide lipids of Porphyromonas gingivalis inhibit osteoblast differentiation: Relationship to Toll-like receptor 2.” Wang YH, Nemati R, Anstadt E, Liu Y, Son Y, Zhu Q, Yao X, Clark RB, Rowe DW, Nichols FC. Bone. 2015 Sep 24. pii: S8756-3282(15)00353-1. doi: 10.1016/j.bone.2015.09.008.
  • Development of Structural Marker Peptides for Cystic Fibrosis Transmembrane Conductance Regulator in Cell Plasma Membrane by Reversed-Footprinting Mass Spectrometry.” Vahid Farrokhi, Bekim Bajrami, Reza Nemati, Adam J. McShane, Franz Rueckert, Barrett Wells, Xudong Yao. Anal Chem 2015 Epub 2015 Aug 3.
  • An Injectable PEG-BSA-Coumarin-GOx Hydrogel for Fluorescence Turn-on Glucose Detection.” Srinivasan G1, Chen J, Parisi J, Brückner C, Yao X, Lei Y. Appl Biochem Biotechnol. 2015
  • A Stable Human-Cell System Overexpressing Cystic Fibrosis Transmembrane Conductance Regulator Recombinant Protein at the Cell Surface.” Hildebrandt E, Ding H, Mulky A, Dai Q, Aleksandrov AA, Bajrami B, Diego PA, Wu X, Ray M, Naren AP, Riordan JR, Yao X, DeLucas LJ, Urbatsch IL, Kappes JC. Mol Biotechnol. 2015, 57 (5), 391-405. doi: 10.1007/s12033-014-9830-5.
  • Targeted Proteomic Quantitation of Absolute Expression and Turnover of Cystic Fibrosis Transmembrane Conductance Regulator in Apical Plasma Membrane,” Adam J. McShane; Bekim Bajrami, Alexis Ramos, Pamela Diego-Limpin, Vahid Farrokhi, Bonita Coutermarsh, Bruce Stanton, Timothy Jensen, John R. Riordan, Diana Wetmore, Elizabeth Joseloff, Xudong Yao; Journal of Proteome Research, Special Issue–Proteomics of Human Diseases: Pathogenesis, Diagnosis, Prognosis and Treatment. DOI: 10.1021/pr5006795. Publication Date (Web): September 16, 2014
  • “Bacterial lipodipeptide, Lipid 654, is a microbiome-associated biomarker for multiple sclerosis,” Vahid Farrokhi, Reza Nemati, Frank C Nichols, Xudong Yao, Emily Anstadt, Mai Fujiwara, James Grady, Daniel Wakefield, Wanda Castro, James Donaldson, Robert B Clark; Clinical & Translational Immunology, 2013, 2, e8; doi:10.1038/cti.2013.11.
  • Serine Lipids of Porphyromonas gingivalis are Human and Mouse Toll-like Receptor 2 Ligands,” Robert B. Clark, Jorge L. Cervantes, Mark W. Maciejewski, Vahid Farrokhi, Reza Nemati, Xudong Yao, Emily Anstadt, Mai Fujiwara, Kyle T. Wright, Caroline Riddle, Carson J. La Vake, Juan C. Salazar, Sydney Finegold, Frank C. Nichols; Infection and Immunity, 2013, 81(9), 3479-3489.
  • Free lipid A Isolated from Porphyromonas Gingivalis Lipopolysaccharide is Contaminated with Phosphorylated Dihydroceramide Lipids: Recovery in Diseased Dental Samples,” Frank C. Nichols, Bekim Bajrami, Robert B. Clark, William Housley, Xudong Yao;  Infection and Immunity, 2012, 80(2), 860-874.
  • Phosphorylated Dihydroceramides from Common Human Bacteria are Recovered in Human Tissues,” Nichols FC, Yao X, Bajrami B, Downes J, Finegold SM, Knee E, Gallagher JJ, Housley WJ, Clark RB; PLoS One. 2011, 6(2), e16771.
  • Site-Preferential Dissociation of Peptides with Active Chemical Modification for Improving Fragment Ion Detection,” Pamela A. C. Diego, Bekim Bajrami, Hui Jiang, Yu Shi, Jose Gascon, Xudong Yao; Analytical Chemistry, 2010, 82, 23-27.
  • FerriNaphth: a Fluorescence Chemodosimeter for Redox Active Metal Ion,” Randy K. Jackson, Yu Shi, Xudong Yao, Shawn C. Burdette, Dalton Trans., 2010, 39, 4155-4161.
  • Analysis of Monomeric and Dimeric Phosphorylated Forms of Protein Kinase R,” Eric Anderson, Christine Quartararo, Raymond S. Brown, Yu Shi, Xudong Yao, James L. Cole, Biochemistry, 2010, 49, 1217-1225.
  • Design and Synthesis of an Activity-Based Probe Template for Protein Kinase,” Santosh, Keshipeddy, Yu Shi, Xudong Yao, Amy R. Howell; Synlett, 2010, 521-524.