Following is a select list of CLP Publications:

2024

A platform for mapping reactive cysteines within the immunopeptidome, Zhang, C., Zhou, C., Magassa, A., Jin, X., F., Deyu, Zhang, X., Nat Commun 15, 9698 (2024).

Inhibiting the Keap1/Nrf2 Protein-Protein Interaction with Protein-Like Polymers, Carrow, K. P., Hamilton, H. L., Hopps, M. P., Li, Y., Qiao, B., Payne, N. C., Thompson, M. P.,  Zhang, X., Magassa, A., Fattah, M., Agarwal, S., Vincent, M. P., Buyanova, M., Bertin, P. A., Mazitschek, R.,  Olvera de la Cruz, M., Johnson, D. A., Johnson, J. A. &  Gianneschi, N. C., May 23 2024, In:  Advanced Materials. 36, 21, 2311467.

Design, Synthesis, and Mechanistic Studies of (R)-3-Amino-5,5-difluorocyclohex-1-ene-1-carboxylic Acid as an Inactivator of Human Ornithine Aminotransferase, Devitt, A. N., Vargas, A. L., Zhu, W., Des Soye, B. J., Butun, F. A., Alt, T., Kaley, N., Ferreira, G. M., Moran, G. R.,  Kelleher, N. L., Liu, D. &  Silverman, R. B., May 17 2024, In:  ACS chemical biology. 19, 5, p. 1066-1081 16 p.

TDP-43-M323K causes abnormal brain development and progressive cognitive and motor deficits associated with mislocalised and increased levels of TDP-43, Godoy-Corchuelo, J. M., Ali, Z., Brito Armas, J. M., Martins-Bach, A. B., García-Toledo, I., Fernández-Beltrán, L. C., López-Carbonero, J. I., Bascuñana, P., Spring, S., Jimenez-Coca, I., Muñoz de Bustillo Alfaro, R. A., Sánchez-Barrena, M. J., Nair, R. R., Nieman, B. J., Lerch, J. P., Miller, K. L.,  Ozdinler, H. P., Fisher, E. M. C., Cunningham, T. J., Acevedo-Arozena, A.,  & 1 others, Apr 2024, In:  Neurobiology of Disease. 193, 106437.

SBT-272 improves TDP-43 pathology in ALS upper motor neurons by modulating mitochondrial integrity, motility, and function,  Gautam, M., Genç, B., Helmold, B., Ahrens, A., Kuka, J., Makrecka-Kuka, M., Günay, A., Koçak, N., Aguilar-Wickings, I. R., Keefe, D., Zheng, G.,  Swaminathan, S., Redmon, M., Zariwala, H. A. &  Özdinler, P. H., Mar 2023, In:  Neurobiology of Disease. 178, 106022.

Parsing 20 Years of Public Data by AI Maps Trends in Proteomics and Forecasts Technology

Green, J. J., Grimm, C., Fristo, A., Byrum, J. &  Kelleher, N. L., Feb 2 2024, In:  Journal of Proteome Research. 23, 2, p. 523-531 9 p.

Precise Readout of MEK1 Proteoforms upon MAPK Pathway Modulation by Individual Ion Mass Spectrometry, Drown, B. S., Gupta, R., McGee, J. P., Hollas, M. A. R., Hergenrother, P. J.,  Kafader, J. O. &  Kelleher, N. L., Mar 19 2024, In:  Analytical Chemistry. 96, 11, p. 4455-4462 8 p.

Single Cell Analysis of Proteoforms, Su, P., Hollas, M. A. R., Butun, F. A., Kanchustambham, V. L., Rubakhin, S., Ramani, N., Greer, J. B., Early, B. P., Fellers, R. T.,  Caldwell, M. A., Sweedler, J. V.,  Kafader, J. O. &  Kelleher, N. L., Jun 7 2024, In:  Journal of Proteome Research. 23, 6, p. 1883-1893 11 p.

Identification of druggable regulators of cell secretion via a kinome-wide screen and high-throughput immunomagnetic cell sorting, Labib, M. A. M., Wang, Z., Kim, Y., Lin, S., Abdrabou, A., Yousefi, H., Lo, P. Y., Angers, S.,  Sargent, E. H. &  Kelley, S. O., Mar 2024, In:  Nature Biomedical Engineering. 8, 3, p. 263-277 15 p.

Target Identification of a Class of Pyrazolone Protein Aggregation Inhibitor Therapeutics for Amyotrophic Lateral Sclerosis, Weerawarna, P. M., Schiefer, I. T., Soares, P., Fox, S.,  Morimoto, R. I., Melani, R. D.,  Kelleher, N. L.,  Luan, C. H. &  Silverman, R. B., Jan 24 2024, In:  ACS Central Science. 10, 1, p. 87-103 17 p.

Top-down mass spectrometry of native proteoforms and their complexes: a community study, Habeck, T., Brown, K. A., Des Soye, B., Lantz, C., Zhou, M., Alam, N., Hossain, M. A., Jung, W., Keener, J. E., Volny, M., Wilson, J. W., Ying, Y., Agar, J. N., Danis, P. O., Ge, Y.,  Kelleher, N. L., Li, H., Loo, J. A., Marty, M. T., Paša-Tolić, L.,  & 2 others, 2024, (Accepted/In press) In:  Nature Methods.

Nanoparticle Targeting in Chemo-Resistant Ovarian Cancer Reveals Dual Axis of Therapeutic Vulnerability Involving Cholesterol Uptake and Cell Redox Balance,  Wang, Y., Calvert, A. E., Cardenas, H., Rink, J. S., Nahotko, D.,  Qiang, W., Ndukwe, C. E., Chen, F., Keathley, R., Zhang, Y., Cheng, J. X.,  Thaxton, C. S. &  Matei, D., Apr 3 2024, In:  Advanced Science. 11, 13, 2305212.

Genetic Alterations of NF-κB and Its Regulators: A Rich Platform to Advance Colorectal Cancer Diagnosis and Treatment, Alipourgivi, F., Motolani, A., Qiu, A. Y.,  Qiang, W.,  Yang, G. Y., Chen, S. & Lu, T., Jan 2024, In:  International journal of molecular sciences. 25, 1, 154.

2023

Pharmacological inhibition of plasminogen activator inhibitor-1 prevents memory deficits and reduces neuropathology in APP/PS1 mice, Rodriguez, G.,  Eren, M., Haupfear, I., Viola, K. L., Cline, E. N., Miyata, T.,  Klein, W. L.,  Vaughan, D. E. &  Dong, H., Dec 2023, In:  Psychopharmacology. 240, 12, p. 2641-2655 15 p.

Small molecules targeting different cellular pathologies for the treatment of amyotrophic lateral sclerosis, Elmansy, M. F., Reidl, C. T., Rahaman, M.,  Özdinler, P. H. &  Silverman, R. B., Nov 2023, In:  Medicinal Research Reviews. 43, 6, p. 2260-2302 43 p.

Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP), HuBMAP Consortium, Aug 2023, In:  Nature Cell Biology. 25, 8, p. 1089-1100 12 p.

Automated imaging and identification of proteoforms directly from ovarian cancer tissue, McGee, J. P., Su, P., Durbin, K. R., Hollas, M. A. R., Bateman, N. W., Maxwell, G. L., Conrads, T. P., Fellers, R. T., Melani, R. D., Camarillo, J. M.,  Kafader, J. O. &  Kelleher, N. L., Dec 2023, In:  Nature communications. 14, 1, 6478.

Engineered IL-7 synergizes with IL-12 immunotherapy to prevent T cell exhaustion and promote memory without exacerbating toxicity, Kang, S., Mansurov, A., Kurtanich, T., Chun, H. R., Slezak, A. J.,  Volpatti, L. R., Chang, K., Wang, T., Alpar, A. T., Refvik, K. C., Hansen, O. I., Borjas, G. J., Shim, H. N., Hultgren, K. T., Gomes, S., Solanki, A., Ishihara, J., Swartz, M. A. & Hubbell, J. A., Dec 2023, In:  Science Advances. 9, 48, eadh9879.

Amyloid β Proteoforms Elucidated by Quantitative LC/MS in the 5xFAD Mouse Model of Alzheimer’s Disease, Kandi, S., Cline, E. N., Rivera, B. M., Viola, K. L., Zhu, J., Condello, C., LeDuc, R. D.,  Klein, W. L.,  Kelleher, N. L. &  Patrie, S. M., Nov 3 2023, In:  Journal of Proteome Research. 22, 11, p. 3475-3488 14 p.

Mapping the KRAS proteoform landscape in colorectal cancer identifies truncated KRAS4B that decreases MAPK signaling, Adams, L. M., DeHart, C. J., Drown, B. S., Anderson, L. C., Bocik, W., Boja, E. S., Hiltke, T. M., Hendrickson, C. L., Rodriguez, H., Caldwell, M.,  Vafabakhsh, R. &  Kelleher, N. L., Jan 2023, In:  Journal of Biological Chemistry. 299, 1, 102768.

Structural and Mechanistic Basis for the Inactivation of Human Ornithine Aminotransferase by (3S,4S)-3-Amino-4-fluorocyclopentenecarboxylic Acid, Shen, S., Butrin, A., Beaupre, B. A., Ferreira, G. M., Doubleday, P. F., Grass, D. H., Zhu, W.,  Kelleher, N. L., Moran, G. R., Liu, D. &  Silverman, R. B., Feb 2023, In:  Molecules. 28, 3, 1133.

Ligands selectively tune the local and global motions of neurotensin receptor 1 (NTS ₁)

Bumbak, F., Pons, M., Inoue, A., Paniagua, J. C., Yan, F., Wu, H., Robson, S. A., Bathgate, R. A. D., Scott, D. J., Gooley, P. R. &  Ziarek, J. J., Jan 31 2023, In:  Cell reports. 42, 1, 112015.

An efficient cell-free protein synthesis platform for producing proteins with pyrrolysine-based noncanonical amino acids, Ranji Charna, A., Des Soye, B. J., Ntai, I.,  Kelleher, N. L. & Jewett, M. C., Sep 2022, In:  Biotechnology Journal. 17, 9, 2200096.

Partially Oxidized Alginate as a Biodegradable Carrier for Glucose-Responsive Insulin Delivery and Islet Cell Replacement Therapy,  Volpatti, L. R., Bochenek, M. A., Facklam, A. L., Burns, D. M., MacIsaac, C., Morgart, A., Walters, B., Langer, R. & Anderson, D. G., Jan 13 2023, In:  Advanced Healthcare Materials. 12, 2, 2201822.

Associations between GrimAge acceleration and pulmonary function in the Coronary Artery Risk Development in Young Adults (CARDIA) study,  Joyce, B. T., Chen, X.,  Gao, T.,  Zheng, Y., Nannini, D. R., Liu, L., Henkle, B. E.,  Kalhan, R., Washko, G., Kunisaki, K. M., Thyagarajan, B.,  Vaughan, D. E., Gross, M., Jacobs, D. R.,  Lloyd-Jones, D. &  Hou, L., Jul 1 2023, In:  Epigenomics. 15, 13, p. 693-703 11 p.

Preparative Electrophoresis for HDL Particle Size Separation and Intact-Mass Apolipoprotein Proteoform Analysis, Lloyd-Jones, C., dos Santos Seckler, H., DiStefano, N., Sniderman, A., Compton, P. D.,  Kelleher, N. L. &  Wilkins, J. T., May 5 2023, In:  Journal of Proteome Research. 22, 5, p. 1455-1465 11 p.

2022

Bulk IgG glycosylation predicts COVID-19 severity and vaccine antibody response, Ash, M. K., Bhimalli, P. P., Cho, B. K., Mattamana, B. B., Gambut, S., Tarhoni, I., Fhied, C. L., Reyes, A. F., Welninski, S. J., Arivalagan, J., Negrão, F., Goel, R., Beck, T. L.,  Hope, T. J., Sha, B. E., Goo, Y. A., Al-Harthi, L., Mamede, J. I., Borgia, J. A.,  Kelleher, N. L.,  & 1 others, Dec 13 2022, In:  Cell reports. 41, 11, 111799.

Divergent Antibody Repertoires Found for Omicron versus Wuhan SARS-CoV-2 Strains Using Ig-MS, Forte, E., Des Soye, B. J., Melani, R. D., Hollas, M. A. R.,  Kafader, J. O., Sha, B. E., Schneider, J. R. &  Kelleher, N. L., Dec 2 2022, In:  Journal of Proteome Research. 21, 12, p. 2987-2997 11 p.

Genetic Alterations of NF-κB and Its Regulators: A Rich Platform to Advance Colorectal Cancer Diagnosis and Treatment, Alipourgivi, F., Motolani, A., Qiu, A. Y.,  Qiang, W.,  Yang, G. Y., Chen, S. & Lu, T., Jan 2024, In:  International journal of molecular sciences. 25, 1, 154.

Nanoparticle Targeting in Chemo-Resistant Ovarian Cancer Reveals Dual Axis of Therapeutic Vulnerability Involving Cholesterol Uptake and Cell Redox Balance,  Wang, Y., Calvert, A. E., Cardenas, H., Rink, J. S., Nahotko, D.,  Qiang, W., Ndukwe, C. E., Chen, F., Keathley, R., Zhang, Y., Cheng, J. X.,  Thaxton, C. S. &  Matei, D., Apr 3 2024, In:  Advanced Science. 11, 13, 2305212.

Clinical Perspectives in the Use of Liquid Biopsy in Metastatic Breast Cancer, Gerratana, L., Reduzzi, C., D’Amico, P., Mazzeo, R., Jacob, S. L.,  Qiang, W. & Cristofanilli, M., 2023, Current Cancer Research.  Springer Nature, p. 539-564 26 p. (Current Cancer Research; vol. Part F1235).

Intranasal soluble ACE2 improves survival and prevents brain SARS-CoV-2 infection, Hassler, L.,  Wysocki, J.,  Ahrendsen, J. T., Ye, M., Gelarden, I., Nicolaescu, V., Tomatsidou, A., Gula, H., Cianfarini, C., Forster, P., Khurram, N. A., Singer, B. D., Randall, G., Missiakas, D., Henkin, J. &  Batlle, D., Jul 2023, In:  Life science alliance. 6, 7, e202301969.

A Novel Soluble ACE2 Protein Provides Lung and Kidney Protection in Mice Susceptible to Lethal SARS-CoV-2 Infection, Hassler, L.,  Wysocki, J., Gelarden, I.,  Sharma, I., Tomatsidou, A., Ye, M., Gula, H., Nicoleascu, V., Randall, G., Pshenychnyi, S., Khurram, N.,  Kanwar, Y., Missiakas, D., Henkin, J.,  Yeldandi, A. &  Batlle, D., Jul 2022, In:  Journal of the American Society of Nephrology. 33, 7

Proteolytic pan-RAS Cleavage Leads to Tumor Regression in Patient-derived Pancreatic Cancer Xenografts, Vidimar, V., Park, M., Stubbs, C. K., Ingram, N. K.,  Qiang, W., Zhang, S.,  Gursel, D., Melnyk, R. A. &  Satchell, K. J. F., May 2022, In:  Molecular cancer therapeutics. 21, 5, p. 810-820 11 p.

Single-cells isolation and molecular analysis: Focus on her2-low ctcs in metastatic breast cancer, D’amico, P., Reduzzi, C.,  Qiang, W., Zhang, Y., Gerratana, L.,  Zhang, Q., Davis, A. A., Shah, A. N., Manai, M., Curigliano, G. & Cristofanilli, M., Jan 1 2022, In:  Cancers. 14, 1, 79.

Bioresorbable Multilayer Photonic Cavities as Temporary Implants for Tether-Free Measurements of Regional Tissue Temperatures, Bai, W., Irie, M., Liu, Z., Luan, H., Franklin, D., Nandoliya, K., Guo, H., Zang, H., Weng, Y., Lu, D., Wu, D., Wu, Y., Song, J., Han, M., Song, E., Yang, Y., Chen, X., Zhao, H., Lu, W., Monti, G.,  & 20 others, Jan 2021, In:  BME Frontiers. 2021, 8653218.

Circulating tumor cells, circulating tumor DNA, and disease characteristics in young women with metastatic breast cancer, Shah, A. N., Carroll, K. J., Gerratana, L., Lin, C., Davis, A. A.,  Zhang, Q., Jacob, S., Finkelman, B., Zhang, Y.,  Qiang, W., D’Amico, P., Reduzzi, C.,  Gradishar, W. J., Behdad, A. & Cristofanilli, M., Jun 2021, In:  Breast Cancer Research and Treatment. 187, 2, p. 397-405 9 p.

Education and Outreach in Physical Sciences in Oncology, Walker, S. A., Pham, A., Nizzero, S., Kim, M., Riter, B., Bletz, J.,  Judge, S.,  Phillips, B., Noble, D., Murray, D., Wetzel, E., Samson, S., McMahon, M., Flink, C., Couch, J., Tomlin, C., Swanson, K., Anderson, A. R. A., Odde, D., Shen, H.,  & 4 others, Jan 2021, In:  Trends in Cancer. 7, 1, p. 3-9 7 p.

Iodide analogs of arsenoplatins—potential drug candidates for triple negative breast cancers, Miodragović, Ð.,  Qiang, W., Sattar Waxali, Z., Vitnik, Ž., Vitnik, V., Yang, Y., Farrell, A., Martin, M., Ren, J. & O’Halloran , T. V., Sep 2021, In:  Molecules. 26, 17, 5421.

Schlafen 5 as a novel therapeutic target in pancreatic ductal adenocarcinoma, Fischietti, M.,  Eckerdt, F., Blyth, G. T., Arslan, A. D., Mati, W. M., Oku, C. V., Perez, R. E.,  Lee-Chang, C., Kosciuczuk, E. M.,  Saleiro, D.,  Beauchamp, E. M.,  Lesniak, M. S., Verzella, D., Sun, L., Fish, E. N.,  Yang, G. Y.,  Qiang, W. &  Platanias, L. C., May 6 2021, In:  Oncogene. 40, 18, p. 3273-3286 14 p.

A Proteomic Approach Identifies Isoform-Specific and Nucleotide-Dependent RAS Interactions, Miller, S. P., Maio, G.,  Zhang, X., Badillo Soto, F. S., Zhu, J., Ramirez, S. Z. & Lin, H., Aug 2022, In:  Molecular and Cellular Proteomics. 21, 8, 100268.