Proteomic analysis of carotid artery plaques with and without vulnerable features on magnetic resonance angiography with vessel wall imaging: a pilot study

Authors: Madden, Benjamin J. ^a, Polania-Sandoval, Camilo ^b, Pujari, Ganesh P. ^c, Mangalaparthi, Kiran K. ^c, Charlesworth, M. Cristine ^a, Prudencio, Mercedes ^d, Gendron, Tania ^d, Sandhu, Sukhwinder J.S. ^e, Nassar, Aziza ^f, Petrucelli, Leonard ^d, Meschia, James F. ^g, Pandey, Akhilesh ^{b, h, i}, Erben, Young ^{b, ∗}

Source: In JVS-Vascular Science 2025 6

Recent advances in proteomic analysis to study carotid artery plaques

Authors: Cruz-González, Gabriel ^a, Meschia, James F. ^b, Madden, Benjamin J. ^{c, d}, Prudencio, Mercedes ^e, Polania-Sandoval, Camilo A. ^a, Hartwell, Janelle ^a, Oyefeso, Eniola ^a, Benchaaboune, Ranya ^a, Brigham, Tara ^f, Sandhu, Sukhwinder J.S. ^g, Charlesworth, Cristine ^c, Pujari, Ganesh P. ^c, Petrucelli, Leonard ^e, Pandey, Akhilesh ^{c, h, i}, Erben, Young ^{a, ∗}

Source: In JVS-Vascular Science 2024 5

Optimizing single cell proteomics using trapped ion mobility spectrometry for label-free experimentsElectronic supplementary information (ESI) available: Fig. S1: Distribution of the ion mobility of peptides identified from ramp times of 50, 100, 150, and 200 ms injecting 2.5 ng of peptides. Fig. S2: Annotated MS/MS spectra of a single hit peptide from proteins CCR7, CD27 and SATB1. Fig. S3: The number of identified peptides and proteins from 10 ng to 156 pg of HeLa peptides. Fig. S4: Pathway enrichment analysis using identified enzymes from one, five, ten and forty T cells. See DOI: https://doi.org/10.1039/d3an00080j

Authors: Mun, Dong-Gi, Bhat, Firdous A., Ding, Husheng, Madden, Benjamin J., Natesampillai, Sekar, Badley, Andrew D., Johnson, Kenneth L., Kelly, Ryan T., Pandey, Akhilesh

Source: Analyst. 148(15):3466-3475

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Substitution of PINK1 Gly411 modulates substrate receptivity and turnover

Authors: Fiesel, Fabienne C, Fričová, Dominika, Hayes, Caleb S, Coban, Mathew A, Hudec, Roman, Bredenberg, Jenny M, Broadway, Benjamin J, Markham, Briana N, Yan, Tingxiang, Boneski, Paige K, Fiorino, Gabriella, Watzlawik, Jens O, Hou, Xu, McCarty, Arthur M, Lewis-Tuffin, Laura J, Zhong, Jun, Madden, Benjamin J, Ordureau, Alban, An, Heeseon, Puschmann, Andreas, Wszolek, Zbigniew K, Ross, Owen A, Harper, J Wade, Caulfield, Thomas R, Springer, Wolfdieter

Source: Autophagy. 19(6):1711-1732

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100185048118.0x000001&indx=1&recIds=ETOCvdc_100185048118.0x000001

Membranous Nephropathy With Extensive Tubular Basement Membrane Deposits Following Allogeneic Hematopoietic Cell Transplant: A Report of 5 Cases

Authors: Nasr, Samih H., Leung, Nelson, Said, Samar M., Alkhateeb, Hassan B., Madden, Benjamin J., Charlesworth, M. Cristine, Beck, Laurence H., Larsen, Christopher P., Sethi, Sanjeev

Source: American journal of kidney diseases. 79(6):904-908

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A mass spectrometry-based targeted assay for detection of SARS-CoV-2 antigen from clinical specimens

Authors: Renuse, Santosh, Vanderboom, Patrick M., Maus, Anthony D., Kemp, Jennifer V., Gurtner, Kari M., Madugundu, Anil K., Chavan, Sandip, Peterson, Jane A., Madden, Benjamin J., Mangalaparthi, Kiran K., Mun, Dong-Gi, Singh, Smrita, Kipp, Benjamin R., Dasari, Surendra, Singh, Ravinder J., Grebe, Stefan K., Pandey, Akhilesh

Source: In eBioMedicine July 2021 69

Chondrogenic Predifferentiation Inhibits Vascular Endothelial Growth Factor Angiogenic Effect in Pericranium-Derived Spheroids

Authors: San-Marina, Serban, Prummer, Christopher M., Voss, Stephen G., Hunter, Danielle E., Madden, Benjamin J., Charlesworth, Mary Cristine, Ekbom, Dale C., Janus, Jeffrey R.

Source: Tissue engineering.Part A. 27(3/4):237-245

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Mesenchymal stromal cells protect human cardiomyocytes from amyloid fibril damage

Authors: Lin, Yi ^*, Marin-Argany, Marta ^*, Dick, Christopher J., Redhage, Keely R., Blancas-Mejia, Luis M., Bulur, Peggy, Butler, Greg W., Deeds, Michael C., Madden, Benjamin J., Williams, Angela, Wall, Jonathan S., Dietz, Allan, Ramirez-Alvarado, Marina ^*

Source: In Cytotherapy December 2017 19(12):1426-1437

An acetylation–phosphorylation switch that regulates tau aggregation propensity and function

Authors: Carlomagno, Yari, Chung, Dah-eun Chloe, Yue, Mei, Castanedes-Casey, Monica, Madden, Benjamin J., Dunmore, Judy, Tong, Jimei, DeTure, Michael, Dickson, Dennis W., Petrucelli, Leonard, Cook, Casey

Source: In Journal of Biological Chemistry 15 September 2017 292(37):15277-15286

Defining albumin as a glycoprotein with multiple N-linked glycosylation sites.

Authors: Garapati, Kishore, Jain, Anu, Madden, Benjamin J., Mun, Dong-Gi, Sharma, Jyoti, Budhraja, Rohit, Pandey, Akhilesh

Source: Journal of Translational Medicine; 5/13/2024, Vol. 22 Issue 1, p1-12, 12p

Subject Terms: LIQUID chromatography-mass spectrometry, GLYCOSYLATION, BLOOD proteins, ALBUMINS, SERUM albumin

Histone Variants as Stem Cell Biomarkers for Long‐Term Injection Medialization Laryngoplasty

Authors: Voss, Stephen, San‐Marina, Serban, Oldenburg, Michael S., Ekbom, Dale, Madden, Benjamin J., Charlesworth, Mary Cristine, Janus, Jeffrey R.

Source: Laryngoscope. 128(12):E402-E408

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Two Highly Homologous Ribonuclease Genes Expressed in Mouse Eosinophils Identify a Larger Subgroup of the Mammalian Ribonuclease Superfamily

Authors: Larson, Kirsten A., Olson, Eric V., Madden, Benjamin J., Gleich, Gerald J., Lee, Nancy A., Lee, James J.

Source: Proceedings of the National Academy of Sciences of the United States of America, 1996 Oct . 93(22), 12370-12375.

Access URL: https://www.jstor.org/stable/40624

Sequence and Conformational Specificity in Substrate Recognition: SEVERAL HUMAN KUNITZ PROTEASE INHIBITOR DOMAINS ARE SPECIFIC SUBSTRATES OF MESOTRYPSIN

Authors: Pendlebury, Devon, Wang, Ruiying, Henin, Rachel D., Hockla, Alexandra, Soares, Alexei S., Madden, Benjamin J., Kazanov, Marat D., Radisky, Evette S.

Source: In Journal of Biological Chemistry 21 November 2014 289(47):32783-32797

Subfractionation, characterization, and in-depth proteomic analysis of glomerular membrane vesicles in human urine

Authors: Hogan, Marie C. ^*, Johnson, Kenneth L., Zenka, Roman M., Cristine Charlesworth, M., Madden, Benjamin J., Mahoney, Doug W., Oberg, Ann L., Huang, Bing Q., Leontovich, Alexey A., Nesbitt, Lisa L., Bakeberg, Jason L., McCormick, Daniel J., Robert Bergen, H., Ward, Christopher J.

Source: In Kidney International May 2014 85(5):1225-1237

Identification of tau UFMylation in vitro and in vivo.

Authors: Yan, Tingxiang, Madden, Benjamin J., Murray, Melissa E., Dickson, Dennis W., Springer, Wolfdieter, Fiesel, Fabienne C

Source: Alzheimer's & Dementia: The Journal of the Alzheimer's Association; Dec2024 Supplement 1, Vol. 20, p1-2, 2p

Simple, Automated, High Resolution Mass Spectrometry Method to Determine the Disulfide Bond and Glycosylation Patterns of a Complex Protein: SUBGROUP A AVIAN SARCOMA AND LEUKOSIS VIRUS ENVELOPE GLYCOPROTEIN

Authors: Pike, Gennett M., Madden, Benjamin J., Melder, Deborah C., Charlesworth, M. Cristine, Federspiel, Mark J.

Source: In Journal of Biological Chemistry 20 May 2011 286(20):17954-17967

The Amyloid Precursor Protein/Protease Nexin 2 Kunitz Inhibitor Domain Is a Highly Specific Substrate of Mesotrypsin

Authors: Salameh, Moh'd A., Robinson, Jessica L., Navaneetham, Duraiswamy, Sinha, Dipali, Madden, Benjamin J., Walsh, Peter N., Radisky, Evette S.

Source: In Journal of Biological Chemistry 15 January 2010 285(3):1939-1949

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Trem2 H157Y increases soluble TREM2 production and reduces amyloid pathology.

Authors: Qiao, Wenhui, Chen, Yixing, Zhong, Jun, Madden, Benjamin J., Charlesworth, Cristine M., Martens, Yuka A., Liu, Chia-Chen, Knight, Joshua, Ikezu, Tadafumi C., Aishe, Kurti, Zhu, Yiyang, Meneses, Axel, Rosenberg, Cassandra L., Kuchenbecker, Lindsey A., Vanmaele, Lucy K., Li, Fuyao, Chen, Kai, Shue, Francis, Dacquel, Maxwell V., Fryer, John

Source: Molecular Neurodegeneration; 1/31/2023, Vol. 18 Issue 1, p1-22, 22p

Subject Terms: AMYLOID, ALZHEIMER'S disease, MYELOID cells, AMYLOID beta-protein precursor, GENE regulatory networks, PATHOLOGY, NEUROFIBRILLARY tangles

Time-course mass spectrometry data of adipose mesenchymal stem cells acquiring chondrogenic phenotype

Authors: Janus, Jeffrey R., Voss, Stephen G., Madden, Benjamin J., Charlesworth, Mary Cristine, Oldenburg, Michael S., Ekbom, Dale, San-Marina, Serban

Source: BMC research notes. 11(1)

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