Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins von Kennedy, Jacob J, Abbatiello, Susan E, Kim, Kyunggon, Yan, Ping, Whiteaker, Jeffrey R, Lin, Chenwei, Kim, Jun Seok, Zhang, Yuzheng, Wang, Xianlong, Ivey, Richard G, Zhao, Lei, Min, Hophil, Lee, Youngju, Yu, Myeong-Hee, Yang, Eun Gyeong, Lee, Cheolju, Wang, Pei, Rodriguez, Henry, Kim, Youngsoo, Carr, Steven A, Paulovich, Amanda G

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Immobilized Metal Affinity Chromatography Coupled to Multiple Reaction Monitoring Enables Reproducible Quantification of Phospho-signaling von Kennedy, Jacob J., Yan, Ping, Zhao, Lei, Ivey, Richard G., Voytovich, Uliana J., Moore, Heather D., Lin, Chenwei, Pogosova-Agadjanyan, Era L., Stirewalt, Derek L., Reding, Kerryn W., Whiteaker, Jeffrey R., Paulovich, Amanda G.

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RNA and phosphoprotein profiles of TP53- and PTEN-knockouts in MCF10A at baseline and responding to DNA damage von Lin, ChenWei, Schoenherr, Regine M., Voytovich, Uliana J., Ivey, Richard G., Kennedy, Jacob J., Whiteaker, Jeffrey R., Wang, Pei, Paulovich, Amanda G.

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Targeted Mass Spectrometry Enables Multiplexed Quantification of Immunomodulatory Proteins in Clinical Biospecimens von Whiteaker, Jeffrey R, Lundeen, Rachel A, Zhao, Lei, Schoenherr, Regine M, Burian, Aura, Huang, Dongqing, Voytovich, Ulianna, Wang, Tao, Kennedy, Jacob J, Ivey, Richard G, Lin, Chenwei, Murillo, Oscar D, Lorentzen, Travis D, Thiagarajan, Mathangi, Colantonio, Simona, Caceres, Tessa W, Roberts, Rhonda R, Knotts, Joseph G, Reading, Joshua J, Kaczmarczyk, Jan A, Richardson, Christopher W, Garcia-Buntley, Sandra S, Bocik, William, Hewitt, Stephen M, Murray, Karen E, Do, Nhan, Brophy, Mary, Wilz, Stephen W, Yu, Hongbo, Ajjarapu, Samuel, Boja, Emily, Hiltke, Tara, Rodriguez, Henry, Paulovich, Amanda G

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A multiplexed assay for quantifying immunomodulatory proteins supports correlative studies in immunotherapy clinical trials von Whiteaker, Jeffrey R, Zhao, Lei, Schoenherr, Regine M, Huang, Dongqing, Lundeen, Rachel A, Voytovich, Ulianna, Kennedy, Jacob J, Ivey, Richard G, Lin, Chenwei, Murillo, Oscar D, Lorentzen, Travis D, Colantonio, Simona, Caceres, Tessa W, Roberts, Rhonda R, Knotts, Joseph G, Reading, Joshua J, Perry, Candice D, Richardson, Christopher W, Garcia-Buntley, Sandra S, Bocik, William, Hewitt, Stephen M, Chowdhury, Shrabanti, Vandermeer, Jackie, Smith, Stephen D, Gopal, Ajay K, Ramchurren, Nirasha, Fling, Steven P, Wang, Pei, Paulovich, Amanda G

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Integrated Pipeline for Mass Spectrometry-Based Discovery and Confirmation of Biomarkers Demonstrated in a Mouse Model of Breast Cancer von Whiteaker, Jeffrey R, Zhang, Heidi, Zhao, Lei, Wang, Pei, Kelly-Spratt, Karen S, Ivey, Richard G, Piening, Brian D, Feng, Li-Chia, Kasarda, Erik, Gurley, Kay E, Eng, Jimmy K, Chodosh, Lewis A, Kemp, Christopher J, McIntosh, Martin W, Paulovich, Amanda G

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Characterization of an expanded set of assays for immunomodulatory proteins using targeted mass spectrometry von Whiteaker, Jeffrey R., Zhao, Lei, Schoenherr, Regine M., Huang, Dongqing, Kennedy, Jacob J., Ivey, Richard G., Lin, Chenwei, Lorentzen, Travis D., Colantonio, Simona, Caceres, Tessa W., Roberts, Rhonda R., Knotts, Joseph G., Reading, Joshua J., Perry, Candice D., Garcia-Buntley, Sandra S., Bocik, William, Hewitt, Stephen M., Paulovich, Amanda G.

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Multiplexed quantification of estrogen receptor and HER2/Neu in tissue and cell lysates by peptide immunoaffinity enrichment mass spectrometry von Schoenherr, Regine M., Whiteaker, Jeffrey R., Zhao, Lei, Ivey, Richard G., Trute, Mary, Kennedy, Jacob, Voytovich, Uliana J., Yan, Ping, Lin, Chenwei, Paulovich, Amanda G.

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Phosphoproteomic analysis of chimeric antigen receptor signaling reveals kinetic and quantitative differences that affect cell function von Salter, Alexander I, Ivey, Richard G, Kennedy, Jacob J, Voillet, Valentin, Rajan, Anusha, Alderman, Eva J, Voytovich, Uliana J, Lin, Chenwei, Sommermeyer, Daniel, Liu, Lingfeng, Whiteaker, Jeffrey R, Gottardo, Raphael, Paulovich, Amanda G, Riddell, Stanley R

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Proteogenomic characterization of highly enriched viable leukemic blasts in acute myeloid leukemia: A SWOG report von Naru, Jasmine, Othus, Megan, Lin, ChenWei, Biernacki, Melinda A., Bleakley, Marie, Chauncey, Thomas R., Erba, Harry P., Fang, Min, Fitzgibbon, Matthew P., Gafken, Phillip R., Ivey, Richard G., Kennedy, Jacob J., Lorentzen, Travis D., Meshinchi, Soheil, Moseley, Anna, Pogosova‐Agadjanyan, Era L., Liu, Vivian M., Radich, Jerald P., Voytovich, Uliana J., Wang, Pei, Whiteaker, Jeffrey R., Willman, Cheryl L., Wu, Feinan, Paulovich, Amanda G., Stirewalt, Derek L.

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Comparative analysis of TCR and CAR signaling informs CAR designs with superior antigen sensitivity and in vivo function von Salter, Alexander I, Rajan, Anusha, Kennedy, Jacob J, Ivey, Richard G, Shelby, Sarah A, Leung, Isabel, Templeton, Megan L, Muhunthan, Vishaka, Voillet, Valentin, Sommermeyer, Daniel, Whiteaker, Jeffrey R, Gottardo, Raphael, Veatch, Sarah L, Paulovich, Amanda G, Riddell, Stanley R

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CDK5–cyclin B1 regulates mitotic fidelity von Zheng, Xiao-Feng, Sarkar, Aniruddha, Lotana, Humphrey, Syed, Aleem, Nguyen, Huy, Ivey, Richard G., Kennedy, Jacob J., Whiteaker, Jeffrey R., Tomasik, Bartłomiej, Huang, Kaimeng, Li, Feng, D’Andrea, Alan D., Paulovich, Amanda G., Shah, Kavita, Spektor, Alexander, Chowdhury, Dipanjan

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Proteogenomic analysis of chemo-refractory high-grade serous ovarian cancer von Chowdhury, Shrabanti, Kennedy, Jacob J., Ivey, Richard G., Murillo, Oscar D., Hosseini, Noshad, Song, Xiaoyu, Petralia, Francesca, Calinawan, Anna, Savage, Sara R., Berry, Anna B., Reva, Boris, Ozbek, Umut, Krek, Azra, Ma, Weiping, da Veiga Leprevost, Felipe, Ji, Jiayi, Yoo, Seungyeul, Lin, Chenwei, Voytovich, Uliana J., Huang, Yajue, Lee, Sun-Hee, Bergan, Lindsay, Lorentzen, Travis D., Mesri, Mehdi, Rodriguez, Henry, Hoofnagle, Andrew N., Herbert, Zachary T., Nesvizhskii, Alexey I., Zhang, Bing, Whiteaker, Jeffrey R., Fenyo, David, McKerrow, Wilson, Wang, Joshua, Schürer, Stephan C., Stathias, Vasileios, Chen, X. Steven, Barcellos-Hoff, Mary Helen, Starr, Timothy K., Winterhoff, Boris J., Nelson, Andrew C., Mok, Samuel C., Kaufmann, Scott H., Drescher, Charles, Cieslik, Marcin, Wang, Pei, Birrer, Michael J., Paulovich, Amanda G.

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Peptide Immunoaffinity Enrichment and Targeted Mass Spectrometry Enables Multiplex, Quantitative Pharmacodynamic Studies of Phospho-Signaling von Whiteaker, Jeffrey R., Zhao, Lei, Yan, Ping, Ivey, Richard G., Voytovich, Uliana J., Moore, Heather D., Lin, Chenwei, Paulovich, Amanda G.

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Monitoring Both Extended and Tryptic Forms of Stable Isotope-Labeled Standard Peptides Provides an Internal Quality Control of Proteolytic Digestion in Targeted Mass Spectrometry-B... von Lundeen, Rachel A., Kennedy, Jacob J., Murillo, Oscar D., Ivey, Richard G., Zhao, Lei, Schoenherr, Regine M., Hoofnagle, Andrew N., Wang, Pei, Whiteaker, Jeffrey R., Paulovich, Amanda G.

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Genetic Variation at the O-Antigen Biosynthetic Locus in Pseudomonas aeruginosa von Raymond, Christopher K, Sims, Elizabeth H, Kas, Arnold, Spencer, David H, Kutyavin, Tanya V, Ivey, Richard G, Zhou, Yang, Kaul, Rajinder, Clendenning, James B, Olson, Maynard V

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Internal Standard Triggered-Parallel Reaction Monitoring Mass Spectrometry Enables Multiplexed Quantification of Candidate Biomarkers in Plasma von Kennedy, Jacob J., Whiteaker, Jeffrey R., Ivey, Richard G., Burian, Aura, Chowdhury, Shrabanti, Tsai, Chia-Feng, Liu, Tao, Lin, ChenWei, Murillo, Oscar D., Lundeen, Rachel A., Jones, Lisa A., Gafken, Philip R., Longton, Gary, Rodland, Karin D., Skates, Steven J., Landua, John, Wang, Pei, Lewis, Michael T., Paulovich, Amanda G.

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Genomic analysis of the smallest giant virus — Feldmannia sp. virus 158 von Schroeder, Declan C, Park, Yunjung, Yoon, Hong-Mook, Lee, Yong Seok, Kang, Se Won, Meints, Russel H, Ivey, Richard G, Choi, Tae-Jin

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Proteogenomic analysis of chemo-refractory high-grade serous ovarian cancer von Chowdhury, Shrabanti, Kennedy, Jacob J., Ivey, Richard G., Murillo, Oscar D., Hosseini, Noshad, Song, Xiaoyu, Petralia, Francesca, Calinawan, Anna, Savage, Sara R., Berry, Anna B., Reva, Boris, Ozbek, Umut, Krek, Azra, Ma, Weiping, da Veiga Leprevost, Felipe, Ji, Jiayi, Yoo, Seungyeul, Lin, Chenwei, Voytovich, Uliana J., Huang, Yajue, Lee, Sun-Hee, Bergan, Lindsay, Lorentzen, Travis D., Mesri, Mehdi, Rodriguez, Henry, Hoofnagle, Andrew N., Herbert, Zachary T., Nesvizhskii, Alexey I., Zhang, Bing, Whiteaker, Jeffrey R., Fenyo, David, McKerrow, Wilson, Wang, Joshua, Schürer, Stephan C., Stathias, Vasileios, Chen, X. Steven, Barcellos-Hoff, Mary Helen, Starr, Timothy K., Winterhoff, Boris J., Nelson, Andrew C., Mok, Samuel C., Kaufmann, Scott H., Drescher, Charles, Cieslik, Marcin, Wang, Pei, Birrer, Michael J., Paulovich, Amanda G.

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pRAD50: a novel and clinically applicable pharmacodynamic biomarker of both ATM and ATR inhibition identified using mass spectrometry and immunohistochemistry von Jones, Gemma N., Rooney, Claire, Griffin, Nicola, Roudier, Martine, Young, Lucy A., Garcia-Trinidad, Antonio, Hughes, Gareth D., Whiteaker, Jeffrey R., Wilson, Zena, Odedra, Rajesh, Zhao, Lei, Ivey, Richard G., Howat, William J., Harrington, Elizabeth A., Barrett, J. Carl, Ramos-Montoya, Antonio, Lau, Alan, Paulovich, Amanda G., Cadogan, Elaine B., Pierce, Andrew J.

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