Search Results - "Liebler, Daniel C"

Targeted Quantitation of Proteins by Mass Spectrometry by Liebler, Daniel C, Zimmerman, Lisa J

“…Quantitative measurement of proteins is one of the most fundamental analytical tasks in a biochemistry laboratory, but widely used immunochemical methods often…”
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Skyline: an open source document editor for creating and analyzing targeted proteomics experiments by MacLean, Brendan, Tomazela, Daniela M., Shulman, Nicholas, Chambers, Matthew, Finney, Gregory L., Frewen, Barbara, Kern, Randall, Tabb, David L., Liebler, Daniel C., MacCoss, Michael J.

“…Skyline is a Windows client application for targeted proteomics method creation and quantitative data analysis. It is open source and freely available for…”
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Proteomic Analysis of Exosomes from Mutant KRAS Colon Cancer Cells Identifies Intercellular Transfer of Mutant KRAS by Demory Beckler, Michelle, Higginbotham, James N., Franklin, Jeffrey L., Ham, Amy-Joan, Halvey, Patrick J., Imasuen, Imade E., Whitwell, Corbin, Li, Ming, Liebler, Daniel C., Coffey, Robert J.

“…Activating mutations in KRAS occur in 30% to 40% of colorectal cancers. How mutant KRAS alters cancer cell behavior has been studied intensively, but non-cell…”
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Oncogenic KRAS and BRAF Drive Metabolic Reprogramming in Colorectal Cancer by Hutton, Josiah E., Wang, Xiaojing, Zimmerman, Lisa J., Slebos, Robbert J.C., Trenary, Irina A., Young, Jamey D., Li, Ming, Liebler, Daniel C.

“…Metabolic reprogramming, in which altered utilization of glucose and glutamine supports rapid growth, is a hallmark of most cancers. Mutations in the oncogenes…”
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Glucose-Independent Glutamine Metabolism via TCA Cycling for Proliferation and Survival in B Cells by Le, Anne, Lane, Andrew N., Hamaker, Max, Bose, Sminu, Gouw, Arvin, Barbi, Joseph, Tsukamoto, Takashi, Rojas, Camilio J., Slusher, Barbara S., Zhang, Haixia, Zimmerman, Lisa J., Liebler, Daniel C., Slebos, Robbert J.C., Lorkiewicz, Pawel K., Higashi, Richard M., Fan, Teresa W.M., Dang, Chi V.

“…Because MYC plays a causal role in many human cancers, including those with hypoxic and nutrient-poor tumor microenvironments, we have determined the metabolic…”
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Depletion of Abundant Plasma Proteins and Limitations of Plasma Proteomics by Tu, Chengjian, Rudnick, Paul A, Martinez, Misti Y, Cheek, Kristin L, Stein, Stephen E, Slebos, Robbert J. C, Liebler, Daniel C

“…Immunoaffinity depletion with antibodies to the top 7 or top 14 high-abundance plasma proteins is used to enhance detection of lower abundance proteins in both…”
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Protein Identification Using Customized Protein Sequence Databases Derived from RNA-Seq Data by Wang, Xiaojing, Slebos, Robbert J. C, Wang, Dong, Halvey, Patrick J, Tabb, David L, Liebler, Daniel C, Zhang, Bing

“…The standard shotgun proteomics data analysis strategy relies on searching MS/MS spectra against a context-independent protein sequence database derived from…”
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The development of selected reaction monitoring methods for targeted proteomics via empirical refinement by Bereman, Michael S., MacLean, Brendan, Tomazela, Daniela M., Liebler, Daniel C., MacCoss, Michael J.

“…Software advancements in the last several years have had a significant impact on proteomics from method development to data analysis. Herein, we detail a…”
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Identification of Sensor Cysteines in Human Keap1 Modified by the Cancer Chemopreventive Agent Sulforaphane by Hong, Fei, Freeman, Michael L, Liebler, Daniel C

“…The chemopreventive agent sulforaphane is an isothiocyanate derived from cruciferous vegetables. Sulforaphane exerts cancer chemopreventive effects by inducing…”
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Reversibility of Covalent Electrophile−Protein Adducts and Chemical Toxicity by Lin, De, Saleh, Samir, Liebler, Daniel C

“…The biotin-tagged electrophiles 1-biotinamido-4-(4′-[maleimidoethylcyclohexane]-carboxamido)butane (BMCC) and N-iodoacetyl-N-biotinylhexylenediamine (IAB) have…”
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Safety Assessment of Glycerin as Used in Cosmetics by Becker, Lillian C., Bergfeld, Wilma F., Belsito, Donald V., Hill, Ronald A., Klaassen, Curtis D., Liebler, Daniel C., Marks, James G., Shank, Ronald C., Slaga, Thomas J., Snyder, Paul W., Gill, Lillian J., Heldreth, Bart

“…This is a safety assessment of glycerin as used in cosmetics. Glycerin functions as a denaturant, fragrance ingredient, hair conditioning agent, humectant,…”
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Global Analysis of Protein Damage by the Lipid Electrophile 4-Hydroxy-2-nonenal by Codreanu, Simona G, Zhang, Bing, Sobecki, Scott M, Billheimer, Dean D, Liebler, Daniel C

“…Lipid peroxidation yields a variety of electrophiles, which are thought to contribute to the molecular pathogenesis of diseases involving oxidative stress, yet…”
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Identification of Proteomic Features To Distinguish Benign Pulmonary Nodules from Lung Adenocarcinoma by Codreanu, Simona G, Hoeksema, Megan D, Slebos, Robbert J. C, Zimmerman, Lisa J, Rahman, S. M. Jamshedur, Li, Ming, Chen, Sheau-Chiann, Chen, Heidi, Eisenberg, Rosana, Liebler, Daniel C, Massion, Pierre P

“…We hypothesized that distinct protein expression features of benign and malignant pulmonary nodules may reveal novel candidate biomarkers for the early…”
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Equivalence of Protein Inventories Obtained from Formalin-fixed Paraffin-embedded and Frozen Tissue in Multidimensional Liquid Chromatography-Tandem Mass Spectrometry Shotgun Proteomic Analysis by Sprung, Robert W., Brock, Jonathan W.C., Tanksley, Jarred P., Li, Ming, Washington, Mary Kay, Slebos, Robbert J.C., Liebler, Daniel C.

“…Formalin-fixed paraffin-embedded (FFPE) tissue specimens comprise a potentially valuable resource for retrospective biomarker discovery studies, and recent…”
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Specific Patterns of Electrophile Adduction Trigger Keap1 Ubiquitination and Nrf2 Activation by Hong, Fei, Sekhar, Konjeti R., Freeman, Michael L., Liebler, Daniel C.

“…Activation of the transcription factor Nrf2 regulates expression of phase II enzymes and other adaptive responses to electrophile and oxidant stress. Nrf2…”
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Identification of S-Nitrosylation Motifs by Site-Specific Mapping of the S-Nitrosocysteine Proteome in Human Vascular Smooth Muscle Cells by Greco, Todd M., Hodara, Roberto, Parastatidis, Loannis, Heijnen, Harry F. G., Dennehy, Michelle K., Liebler, Daniel C., Ischiropoulos, Harry

“…S-nitrosylation, the selective modification of cysteine residues in proteins to form S-nitrosocysteine, is a major emerging mechanism by which nitric oxide…”
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Assembly Dynamics and Stoichiometry of the Apoptosis Signal-regulating Kinase (ASK) Signalosome in Response to Electrophile Stress by Federspiel, Joel D., Codreanu, Simona G., Palubinsky, Amy M., Winland, Ama J., Betanzos, Carlos Morales, McLaughlin, BethAnn, Liebler, Daniel C.

“…Apoptosis signal-regulating kinase 1 (ASK1) is a key sensor kinase in the mitogen-activated protein kinase pathway that transduces cellular responses to…”
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Covalent Modification at Cys151 Dissociates the Electrophile Sensor Keap1 from the Ubiquitin Ligase CUL3 by Rachakonda, Girish, Xiong, Ying, Sekhar, Konjeti R, Stamer, Sheryl L, Liebler, Daniel C, Freeman, Michael L

“…The regulation of cellular stress responses to electrophiles and oxidants is mediated by the transcription factor NF-E2-related factor 2 (Nrf2), which, in…”
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Identification of Protein Targets of 4-Hydroxynonenal Using Click Chemistry for ex Vivo Biotinylation of Azido and Alkynyl Derivatives by Vila, Andrew, Tallman, Keri A, Jacobs, Aaron T, Liebler, Daniel C, Porter, Ned A, Marnett, Lawrence J

“…Polyunsaturated fatty acids (PUFA) are primary targets of free radical damage during oxidative stress. Diffusible electrophilic α,β-unsaturated aldehydes, such…”
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Phosphotyrosine signaling analysis in human tumors is confounded by systemic ischemia-driven artifacts and intra-specimen heterogeneity by Gajadhar, Aaron S, Johnson, Hannah, Slebos, Robbert J C, Shaddox, Kent, Wiles, Kerry, Washington, Mary Kay, Herline, Alan J, Levine, Douglas A, Liebler, Daniel C, White, Forest M

“…Tumor protein phosphorylation analysis may provide insight into intracellular signaling networks underlying tumor behavior, revealing diagnostic, prognostic or…”
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