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• Applications of selected reaction monitoring (SRM)-mass spectrometry (MS) for quantitative measurement of signaling pathways

  Zhao, Y. & Brasier, A. R., Jun 15 2013, In: Methods. 61, 3, p. 313-322 10 p.

  Research output: Contribution to journal › Review article › peer-review

  • Mass spectrometry
  • Assays
  • Isotopes
  • Dilution
  • Mass Spectrometry
  40 Scopus citations

• BRD4 couples NF-κB/RelA with airway inflammation and the IRF-RIG-I amplification loop in respiratory syncytial virus infection

  Tian, B., Yang, J., Zhao, Y., Ivanciuc, T., Sun, H., Garofalo, R. P. & Brasier, A. R., 2017, In: Journal of virology. 91, 6, e00007-17.

  Research output: Contribution to journal › Article › peer-review

  • Respiratory syncytial virus
  • Respiratory Syncytial Virus Infections
  • Interferons
  • inflammation
  • Respiratory Syncytial Viruses
  27 Scopus citations

• BRD4 mediates NF-κB-dependent epithelial-mesenchymal transition and pulmonary fibrosis via transcriptional elongation

  Tian, B., Zhao, Y., Sun, H., Zhang, Y., Yang, J. & Brasier, A. R., 2016, In: American Journal of Physiology - Lung Cellular and Molecular Physiology. 311, 6, p. L1183-L1201

  Research output: Contribution to journal › Article › peer-review

  • Immediate-Early Genes
  • Pulmonary Fibrosis
  • Epithelial-Mesenchymal Transition
  • Transcription Factor RelA
  • Fibrosis
  38 Scopus citations

• CDK9-dependent transcriptional elongation in the innate interferon-stimulated gene response to respiratory syncytial virus infection in airway epithelial cells

  Tian, B., Zhao, Y., Kalita, M., Edeh, C. B., Paessler, S., Casola, A., Teng, M. N., Garofalo, R. P. & Brasier, A. R., Jun 2013, In: Journal of virology. 87, 12, p. 7075-7092 18 p.

  Research output: Contribution to journal › Article › peer-review

  • Cyclin-Dependent Kinase 9
  • Respiratory syncytial virus
  • Interferon Regulatory Factor-3
  • Respiratory Syncytial Virus Infections
  • cyclin-dependent kinase
  41 Scopus citations

• Cognitive enhancement with rosiglitazone links the hippocampal PPARγ and ERK MAPK signaling pathways

  Denner, L. A., Rodriguez-Rivera, J., Haidacher, S. J., Jahrling, J. B., Carmical, J. R., Hernandez, C. M., Zhao, Y., Sadygov, R. G., Starkey, J. M., Spratt, H., Luxon, B. A., Wood, T. G. & Dineley, K. T., Nov 21 2012, In: Journal of Neuroscience. 32, 47, p. 16725-16735 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Rosiglitazone
  • Peroxisome Proliferator-Activated Receptors
  • Extracellular Signal-Regulated MAP Kinases
  • Mitogen-Activated Protein Kinases
  • Protein Kinases
  84 Scopus citations

• Coordinate activities of BRD4 and CDK9 in the transcriptional elongation complex are required for TGFβ-induced Nox4 expression and myofibroblast transdifferentiation

  Ijaz, T., Jamaluddin, M., Zhao, Y., Zhang, Y., Jay, J., Finnerty, C. C., Herndon, D. N., Tilton, R. G. & Brasier, A. R., 2017, In: Cell Death and Disease. 8, 2, e2606.

  Research output: Contribution to journal › Article › peer-review

  • Cyclin-Dependent Kinase 9
  • Myofibroblasts
  • Fibroblasts
  • Hypertrophic Cicatrix
  • Collagen
  21 Scopus citations

• Coordinate activities of BRD4 and CDK9 in the transcriptional elongation complex are required for TGFβ-induced Nox4 expression and myofibroblast transdifferentiation

  Zhao, Y., Tilton, R., Brasier, A., Ijaz, T., Finnerty, C., Herndon, D., Tilton, R. & Jamaluddin, M., Feb 9 2017, In: Cell Death and Disease.

  Research output: Contribution to journal › Article › peer-review

  • Cyclin-Dependent Kinase 9
  • Myofibroblasts
  • Fibroblasts
  • Hypertrophic Cicatrix
  • Collagen

• Detection of structural and metabolic changes in traumatically injured hippocampus by quantitative differential proteomics

  Wu, P., Zhao, Y., Haidacher, S. J., Wang, E., Parsley, M. O., Gao, J., Sadygov, R. G., Starkey, J. M., Luxon, B. A., Spratt, H., Dewitt, D. S., Prough, D. S. & Denner, L., May 1 2013, In: Journal of neurotrauma. 30, 9, p. 775-788 14 p.

  Research output: Contribution to journal › Article › peer-review

  • Traumatic Brain Injury
  • Proteomics
  • Hippocampus
  • Calcineurin
  • Knowledge Bases
  17 Scopus citations

• Effects of storage temperature on airway exosome integrity for diagnostic and functional analyses

  Maroto, R., Zhao, Y., Jamaluddin, M., Popov, V. L., Wang, H., Kalubowilage, M., Zhang, Y., Luisi, J., Sun, H., Culbertson, C. T., Bossmann, S. H., Motamedi, M. & Brasier, A. R., Dec 1 2017, In: Journal of Extracellular Vesicles. 6, 1, 1359478.

  Research output: Contribution to journal › Article › peer-review

  • Exosomes
  • Temperature
  • Bronchoalveolar Lavage Fluid
  • Proteins
  • Dynamic Light Scattering
  49 Scopus citations

• Endothelial cell proteomic response to Rickettsia conorii infection reveals activation of the Janus Kinase (JAK)-signal transducer and activator of transcription (STAT)-inferferon stimulated gene (ISG)15 pathway and reprogramming plasma membrane integrin/cadherin signaling

  Zhao, Y., Valbuena, G., Walker, D. H., Gazi, M., Hidalgo, M., DeSousa, R., Oteo, J. A., Goez, Y. & Brasier, A. R., Jan 2016, In: Molecular and Cellular Proteomics. 15, 1, p. 289-304 16 p.

  Research output: Contribution to journal › Article › peer-review

  • Boutonneuse Fever
  • Endothelial cells
  • Cell membranes
  • Proteomics
  • Janus Kinases
  10 Scopus citations

• Improved detection of invasive pulmonary aspergillosis arising during leukemia treatment using a panel of host response proteins and fungal antigens

  Brasier, A. R., Zhao, Y., Spratt, H. M., Wiktorowicz, J. E., Ju, H., Wheat, L. J., Baden, L., Stafford, S., Wu, Z., Issa, N., Caliendo, A. M., Denning, D. W., Soman, K., Clancy, C. J., Nguyen, M. H., Sugrue, M. W., Alexander, B. D. & Wingard, J. R., Nov 1 2015, In: PloS one. 10, 11, 0143165.

  Research output: Contribution to journal › Article › peer-review

  • fungal antigens
  • Fungal Antigens
  • Invasive Pulmonary Aspergillosis
  • aspergillosis
  • leukemia
  15 Scopus citations

• Inducible Tumor Necrosis Factor (TNF) receptor-associated factor-1 expression couples the canonical to the non-canonical NF-κB pathway in TNF stimulation

  Choudhary, S., Kalita, M., Fang, L., Patel, K. V., Tian, B., Zhao, Y., Edeh, C. B. & Brasier, A. R., May 17 2013, In: Journal of Biological Chemistry. 288, 20, p. 14612-14623 12 p.

  Research output: Contribution to journal › Article › peer-review

  • Tumor Necrosis Factor Receptor-Associated Peptides and Proteins
  • TNF Receptor-Associated Factor 1
  • Phosphotransferases
  • Tumor Necrosis Factor-alpha
  • Ligases
  28 Scopus citations

• Integrative proteomic analysis reveals reprograming tumor necrosis factor signaling in epithelial mesenchymal transition

  Zhao, Y., Tian, B., Sadygov, R., Zhang, Y. & Brasier, A. R., Oct 4 2016, In: Journal of Proteomics. 148, p. 126-138 13 p.

  Research output: Contribution to journal › Article › peer-review

  • Proteomics
  • Epithelial-Mesenchymal Transition
  • Tumor Necrosis Factor-alpha
  • Transforming Growth Factor beta
  • Epithelial Cells
  14 Scopus citations

• Junín virus infection activates the type I interferon pathway in a RIG-I-dependent manner

  Huang, C., Kolokoltsova, O. A., Yun, N. E., Seregin, A. V., Poussard, A. L., Walker, A. G., Brasier, A. R., Zhao, Y., Tian, B., de la Torre, J. C. & Paessler, S., May 2012, In: PLoS neglected tropical diseases. 6, 5, e1659.

  Research output: Contribution to journal › Article › peer-review

  • Interferon Type I
  • Virus Diseases
  • Viruses
  • Interferons
  • Arenavirus
  43 Scopus citations

• Methods for biomarker verification and assay development

  Zhao, Y. & Brasier, A. R., Jul 2011, In: Current Proteomics. 8, 2, p. 138-152 15 p.

  Research output: Contribution to journal › Review article › peer-review

  • Biomarkers
  • Assays
  • Proteomics
  • Mass spectrometry
  • Dilution
  3 Scopus citations

• Mixed-effects model of epithelial-mesenchymal transition reveals rewiring of signaling networks

  Desai, P., Yang, J., Tian, B., Sun, H., Kalita, M., Ju, H., Paulucci-Holthauzen, A., Zhao, Y., Brasier, A. R. & Sadygov, R. G., Jul 1 2015, In: Cellular Signalling. 27, 7, p. 1413-1425 13 p.

  Research output: Contribution to journal › Article › peer-review

  • Epithelial-Mesenchymal Transition
  • HSP27 Heat-Shock Proteins
  • Vitamin K 3
  • Glycogen Synthase Kinase 3
  • Airway Remodeling
  18 Scopus citations

• Molecular classification of outcomes from dengue virus -3 infections

  Brasier, A. R., Zhao, Y., Wiktorowicz, J. E., Spratt, H. M., Nascimento, E. J. M., Cordeiro, M. T., Soman, K. V., Ju, H., Recinos, A., Stafford, S., Wu, Z., Marques, E. T. A. & Vasilakis, N., Mar 1 2015, In: Journal of Clinical Virology. 64, p. 97-106 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Severe Dengue
  • Dengue Virus
  • Dengue
  • Virus Diseases
  • Heuristics
  10 Scopus citations

• Mucosal bromodomain-containing protein 4 mediates aeroallergen-induced inflammation and remodeling

  Tian, B., Hosoki, K., Liu, Z., Yang, J., Zhao, Y., Sun, H., Zhou, J., Rytting, E., Kaphalia, L., Calhoun, W. J., Sur, S. & Brasier, A. R., Apr 2019, In: Journal of Allergy and Clinical Immunology. 143, 4, p. 1380-1394.e9

  Research output: Contribution to journal › Article › peer-review

  • Dander
  • Cats
  • Myofibroblasts
  • Inflammation
  • Airway Remodeling
  13 Scopus citations

• Palmitoyl-carnitine production by blood cells associates with the concentration of circulating acyl-carnitines in healthy overweight women

  Chondronikola, M., Asghar, R., Zhang, X., Dillon, E. L., Durham, W. J., Wu, Z., Porter, C., Camacho-Hughes, M., Zhao, Y., Brasier, A. R., Volpi, E., Sheffield-Moore, M., Abate, N., Sidossis, L. & Tuvdendorj, D., Oct 2017, In: Clinical Nutrition. 36, 5, p. 1310-1319 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Carnitine
  • Blood Cells
  • Palmitates
  • Insulin Resistance
  • Hyperinsulinism
  2 Scopus citations

• Pharmacoproteomics reveal novel protective activity of bromodomain containing 4 inhibitors on vascular homeostasis in TLR3-mediated airway remodeling

  Zhao, Y., Tian, B., Sun, H., Zhang, J., Zhang, Y., Ivannikov, M., Motamedi, M., Liu, Z., Zhou, J., Kaphalia, L., Calhoun, W. J., Maroto, R. & Brasier, A. R., Aug 15 2019, In: Journal of Proteomics. 205, 103415.

  Research output: Contribution to journal › Article › peer-review

  • Airway Remodeling
  • Bronchoalveolar Lavage Fluid
  • Homeostasis
  • Pericytes
  • Blood Vessels
  9 Scopus citations

• Polymorphic α-Synuclein Strains Modified by Dopamine and Docosahexaenoic Acid Interact Differentially with Tau Protein

  Sengupta, U., Puangmalai, N., Bhatt, N., Garcia, S., Zhao, Y. & Kayed, R., Jun 1 2020, In: Molecular Neurobiology. 57, 6, p. 2741-2765 25 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Synucleins
  • tau Proteins
  • Docosahexaenoic Acids
  • Parkinson Disease
  • Dopamine
  2 Scopus citations

• Qualification and verification of protein biomarker candidates

  Zhao, Y. & Brasier, A. R., 2016, Advances in Experimental Medicine and Biology. Springer New York LLC, Vol. 919. p. 493-514 22 p. (Advances in Experimental Medicine and Biology; vol. 919).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Biomarkers
  • Proteins
  • Pipelines
  • United States Food and Drug Administration
  • Industry
  8 Scopus citations

• Quantification of activated NF-κB/RelA complexes using ssDNA aptamer affinity - Stable isotope dilution - Selected reaction monitoring - Mass spectrometry

  Zhao, Y., Widen, S. G., Jamaluddin, M., Tian, B., Wood, T. G., Edeh, C. B. & Brasier, A. R., Jun 2011, In: Molecular and Cellular Proteomics. 10, 6

  Research output: Contribution to journal › Article › peer-review

  • Mass spectrometry
  • Dilution
  • Isotopes
  • Assays
  • Mass Spectrometry
  37 Scopus citations

• Quantitation of the dynamic profiles of the innate immune response using multiplex selected reaction monitoring-mass spectrometry

  Zhao, Y., Tian, B., Edeh, C. B. & Brasier, A. R., Jun 2013, In: Molecular and Cellular Proteomics. 12, 6, p. 1513-1529 17 p.

  Research output: Contribution to journal › Article › peer-review

  • Mass spectrometry
  • Innate Immunity
  • Mass Spectrometry
  • Double-Stranded RNA
  • Chemical activation
  29 Scopus citations

• Quantitative Assessment of the Effects of Trypsin Digestion Methods on Affinity Purification-Mass Spectrometry-based Protein-Protein Interaction Analysis

  Zhang, Y., Sun, H., Zhang, J., Brasier, A. R. & Zhao, Y., Aug 4 2017, In: Journal of Proteome Research. 16, 8, p. 3068-3082 15 p.

  Research output: Contribution to journal › Article › peer-review

  • Mass spectrometry
  • Purification
  • Trypsin
  • Digestion
  • Mass Spectrometry
  12 Scopus citations

• Quantitative Proteomics of the Endothelial Secretome Identifies RC0497 as Diagnostic of Acute Rickettsial Spotted Fever Infections

  Zhao, Y., Fang, R., Zhang, J., Zhang, Y., Bechelli, J., Smalley, C., Valbuena, G., Walker, D. H., Oteo, J. A. & Brasier, A. R., Feb 2020, In: American Journal of Pathology. 190, 2, p. 306-322 17 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Spotted Fever Group Rickettsiosis
  • Rickettsia conorii
  • Proteomics
  • Boutonneuse Fever
  • Infection
  3 Scopus citations

• Selective Affinity Enrichment of Nitrotyrosine-Containing Peptides for Quantitative Analysis in Complex Samples

  Zhao, Y., Zhang, Y., Sun, H., Maroto, R. & Brasier, A. R., Aug 4 2017, In: Journal of Proteome Research. 16, 8, p. 2983-2992 10 p.

  Research output: Contribution to journal › Article › peer-review

  • 3-nitrotyrosine
  • Chemical analysis
  • Peptides
  • Nitration
  • Tyrosine
  5 Scopus citations

• Systematic analysis of cell-type differences in the epithelial secretome reveals insights into the pathogenesis of respiratory syncytial virus-induced lower respiratory tract infections

  Zhao, Y., Jamaluddin, M., Zhang, Y., Sun, H., Ivanciuc, T., Garofalo, R. P. & Brasier, A. R., Apr 15 2017, In: Journal of Immunology. 198, 8, p. 3345-3364 20 p.

  Research output: Contribution to journal › Article › peer-review

  • Respiratory Syncytial Viruses
  • Respiratory Tract Infections
  • Trachea
  • Proteins
  • Human respiratory syncytial virus
  25 Scopus citations

• Systematic determination of human cyclin dependent kinase (CDK)-9 interactome identifies novel functions in RNA splicing mediated by the DEAD Box (DDX)-5/17 RNA helicases

  Yang, J., Zhao, Y., Kalita, M., Li, X., Jamaluddin, M., Tian, B., Edeh, C. B., Wiktorowicz, J. E., Kudlicki, A. & Brasier, A. R., Oct 1 2015, In: Molecular and Cellular Proteomics. 14, 10, p. 2701-2721 21 p.

  Research output: Contribution to journal › Article › peer-review

  • Cyclin-Dependent Kinase 9
  • RNA Helicases
  • RNA Splicing
  • RNA
  • Isotope Labeling
  18 Scopus citations

• Type II Epithelial-Mesenchymal Transition Upregulates Protein N-Glycosylation to Maintain Proteostasis and Extracellular Matrix Production

  Zhang, J., Jamaluddin, M., Zhang, Y., Widen, S. G., Sun, H., Brasier, A. R. & Zhao, Y., Sep 6 2019, In: Journal of Proteome Research. 18, 9, p. 3447-3460 14 p.

  Research output: Contribution to journal › Article › peer-review

  • Glycosylation
  • Proteostasis
  • Extracellular Matrix Proteins
  • X-Box Binding Protein 1
  • Epithelial-Mesenchymal Transition
  4 Scopus citations