Search Results - "Creech, Amanda"

Histone demethylase KDM6A directly senses oxygen to control chromatin and cell fate by Chakraborty, Abhishek A, Laukka, Tuomas, Myllykoski, Matti, Ringel, Alison E, Booker, Matthew A, Tolstorukov, Michael Y, Meng, Yuzhong Jeff, Meier, Samuel R, Jennings, Rebecca B, Creech, Amanda L, Herbert, Zachary T, McBrayer, Samuel K, Olenchock, Benjamin A, Jaffe, Jacob D, Haigis, Marcia C, Beroukhim, Rameen, Signoretti, Sabina, Koivunen, Peppi, Kaelin, Jr, William G

“…Oxygen sensing is central to metazoan biology and has implications for human disease. Mammalian cells express multiple oxygen-dependent enzymes called…”
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Next-generation characterization of the Cancer Cell Line Encyclopedia by Ghandi, Mahmoud, Huang, Franklin W., Jané-Valbuena, Judit, Kryukov, Gregory V., Lo, Christopher C., McDonald, E. Robert, Barretina, Jordi, Gelfand, Ellen T., Bielski, Craig M., Li, Haoxin, Hu, Kevin, Andreev-Drakhlin, Alexander Y., Kim, Jaegil, Hess, Julian M., Haas, Brian J., Aguet, François, Weir, Barbara A., Rothberg, Michael V., Paolella, Brenton R., Lawrence, Michael S., Akbani, Rehan, Lu, Yiling, Tiv, Hong L., Gokhale, Prafulla C., de Weck, Antoine, Mansour, Ali Amin, Oh, Coyin, Shih, Juliann, Hadi, Kevin, Rosen, Yanay, Bistline, Jonathan, Venkatesan, Kavitha, Reddy, Anupama, Sonkin, Dmitriy, Liu, Manway, Lehar, Joseph, Korn, Joshua M., Porter, Dale A., Jones, Michael D., Golji, Javad, Caponigro, Giordano, Taylor, Jordan E., Dunning, Caitlin M., Creech, Amanda L., Warren, Allison C., McFarland, James M., Zamanighomi, Mahdi, Kauffmann, Audrey, Stransky, Nicolas, Imielinski, Marcin, Maruvka, Yosef E., Cherniack, Andrew D., Tsherniak, Aviad, Vazquez, Francisca, Jaffe, Jacob D., Lane, Andrew A., Weinstock, David M., Johannessen, Cory M., Morrissey, Michael P., Stegmeier, Frank, Schlegel, Robert, Hahn, William C., Getz, Gad, Mills, Gordon B., Boehm, Jesse S., Golub, Todd R., Garraway, Levi A., Sellers, William R.

“…Large panels of comprehensively characterized human cancer models, including the Cancer Cell Line Encyclopedia (CCLE), have provided a rigorous framework with…”
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Defining HLA-II Ligand Processing and Binding Rules with Mass Spectrometry Enhances Cancer Epitope Prediction by Abelin, Jennifer G., Harjanto, Dewi, Malloy, Matthew, Suri, Prerna, Colson, Tyler, Goulding, Scott P., Creech, Amanda L., Serrano, Lia R., Nasir, Gibran, Nasrullah, Yusuf, McGann, Christopher D., Velez, Diana, Ting, Ying S., Poran, Asaf, Rothenberg, Daniel A., Chhangawala, Sagar, Rubinsteyn, Alex, Hammerbacher, Jeff, Gaynor, Richard B., Fritsch, Edward F., Greshock, Joel, Oslund, Rob C., Barthelme, Dominik, Addona, Terri A., Arieta, Christina M., Rooney, Michael S.

“…Increasing evidence indicates CD4+ T cells can recognize cancer-specific antigens and control tumor growth. However, it remains difficult to predict the…”
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The Role of Mass Spectrometry and Proteogenomics in the Advancement of HLA Epitope Prediction by Creech, Amanda L., Ting, Ying S., Goulding, Scott P., Sauld, John F.K., Barthelme, Dominik, Rooney, Michael S., Addona, Terri A., Abelin, Jennifer G.

“…A challenge in developing personalized cancer immunotherapies is the prediction of putative cancer‐specific antigens. Currently, predictive algorithms are used…”
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Reduced-representation Phosphosignatures Measured by Quantitative Targeted MS Capture Cellular States and Enable Large-scale Comparison of Drug-induced Phenotypes by Abelin, Jennifer G., Patel, Jinal, Lu, Xiaodong, Feeney, Caitlin M., Fagbami, Lola, Creech, Amanda L., Hu, Roger, Lam, Daniel, Davison, Desiree, Pino, Lindsay, Qiao, Jana W., Kuhn, Eric, Officer, Adam, Li, Jianxue, Abbatiello, Susan, Subramanian, Aravind, Sidman, Richard, Snyder, Evan, Carr, Steven A., Jaffe, Jacob D.

“…Profiling post-translational modifications represents an alternative dimension to gene expression data in characterizing cellular processes. Many cellular…”
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High-fat diet fuels prostate cancer progression by rewiring the metabolome and amplifying the MYC program by Labbé, David P., Zadra, Giorgia, Yang, Meng, Reyes, Jaime M., Lin, Charles Y., Cacciatore, Stefano, Ebot, Ericka M., Creech, Amanda L., Giunchi, Francesca, Fiorentino, Michelangelo, Elfandy, Habiba, Syamala, Sudeepa, Karoly, Edward D., Alshalalfa, Mohammed, Erho, Nicholas, Ross, Ashley, Schaeffer, Edward M., Gibb, Ewan A., Takhar, Mandeep, Den, Robert B., Lehrer, Jonathan, Karnes, R. Jeffrey, Freedland, Stephen J., Davicioni, Elai, Spratt, Daniel E., Ellis, Leigh, Jaffe, Jacob D., DʼAmico, Anthony V., Kantoff, Philip W., Bradner, James E., Mucci, Lorelei A., Chavarro, Jorge E., Loda, Massimo, Brown, Myles

“…Systemic metabolic alterations associated with increased consumption of saturated fat and obesity are linked with increased risk of prostate cancer progression…”
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Purine nucleoside phosphorylase enables dual metabolic checkpoints that prevent T cell immunodeficiency and TLR7-associated autoimmunity by Abt, Evan R, Rashid, Khalid, Le, Thuc M, Li, Suwen, Lee, Hailey R, Lok, Vincent, Li, Luyi, Creech, Amanda L, Labora, Amanda N, Mandl, Hanna K, Lam, Alex K, Cho, Arthur, Rezek, Valerie, Wu, Nanping, Abril-Rodriguez, Gabriel, Rosser, Ethan W, Mittelman, Steven D, Hugo, Willy, Mehrling, Thomas, Bantia, Shanta, Ribas, Antoni, Donahue, Timothy R, Crooks, Gay M, Wu, Ting-Ting, Radu, Caius G

“…Purine nucleoside phosphorylase (PNP) enables the breakdown and recycling of guanine nucleosides. PNP insufficiency in humans is paradoxically associated with…”
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STING-driven interferon signaling triggers metabolic alterations in pancreas cancer cells visualized by [18F]FLT PET imaging by Liang, Keke, Abt, Evan R., Le, Thuc M., Cho, Arthur, Dann, Amanda M., Cui, Jing, Li, Luyi, Rashid, Khalid, Creech, Amanda L., Wei, Liu, Ghukasyan, Razmik, Rosser, Ethan W., Wu, Nanping, Carlucci, Giuseppe, Czernin, Johannes, Donahue, Timothy R., Radu, Caius G.

“…Type I interferons (IFNs) are critical effectors of emerging cancer immunotherapies designed to activate pattern recognition receptors (PRRs). A challenge in…”
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18F-FDG PET Visualizes Systemic STING Agonist-Induced Lymphocyte Activation in Preclinical Models by Le, Thuc M, Lee, Hailey R, Abt, Evan R, Rashid, Khalid, Creech, Amanda L, Liang, Keke, Cui, Jing, Cho, Arthur, Wei, Liu, Labora, Amanda, Chan, Charlotte, Sanchez, Eric, Kriti, Kriti, Karin, Daniel, Li, Luyi, Wu, Nanping, Mona, Christine, Carlucci, Giuseppe, Hugo, Willy, Wu, Ting-Ting, Donahue, Timothy R, Czernin, Johannes, Radu, Caius G

“…Stimulator of interferon genes (STING) is a mediator of immune recognition of cytosolic DNA, which plays important roles in cancer, cytotoxic therapies, and…”
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18 F-FDG PET Visualizes Systemic STING Agonist-Induced Lymphocyte Activation in Preclinical Models by Le, Thuc M, Lee, Hailey R, Abt, Evan R, Rashid, Khalid, Creech, Amanda L, Liang, Keke, Cui, Jing, Cho, Arthur, Wei, Liu, Labora, Amanda, Chan, Charlotte, Sanchez, Eric, Kriti, Kriti, Karin, Daniel, Li, Luyi, Wu, Nanping, Mona, Christine, Carlucci, Giuseppe, Hugo, Willy, Wu, Ting-Ting, Donahue, Timothy R, Czernin, Johannes, Radu, Caius G

“…Stimulator of interferon genes (STING) is a mediator of immune recognition of cytosolic DNA, which plays important roles in cancer, cytotoxic therapies, and…”
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Neuronal differentiation and cell-cycle programs mediate response to BET-bromodomain inhibition in MYC-driven medulloblastoma by Bandopadhayay, Pratiti, Piccioni, Federica, O’Rourke, Ryan, Ho, Patricia, Gonzalez, Elizabeth M., Buchan, Graham, Qian, Kenin, Gionet, Gabrielle, Girard, Emily, Coxon, Margo, Rees, Matthew G., Brenan, Lisa, Dubois, Frank, Shapira, Ofer, Greenwald, Noah F., Pages, Melanie, Balboni Iniguez, Amanda, Paolella, Brenton R., Meng, Alice, Sinai, Claire, Roti, Giovanni, Dharia, Neekesh V., Creech, Amanda, Tanenbaum, Benjamin, Khadka, Prasidda, Tracy, Adam, Tiv, Hong L., Hong, Andrew L., Coy, Shannon, Rashid, Rumana, Lin, Jia-Ren, Cowley, Glenn S., Lam, Fred C., Goodale, Amy, Lee, Yenarae, Schoolcraft, Kathleen, Vazquez, Francisca, Hahn, William C., Tsherniak, Aviad, Bradner, James E., Yaffe, Michael B., Milde, Till, Pfister, Stefan M., Qi, Jun, Schenone, Monica, Carr, Steven A., Ligon, Keith L., Kieran, Mark W., Santagata, Sandro, Olson, James M., Gokhale, Prafulla C., Jaffe, Jacob D., Root, David E., Stegmaier, Kimberly, Johannessen, Cory M., Beroukhim, Rameen

“…BET-bromodomain inhibition (BETi) has shown pre-clinical promise for MYC-amplified medulloblastoma. However, the mechanisms for its action, and ultimately for…”
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Reprogramming of nucleotide metabolism by interferon confers dependence on the replication stress response pathway in pancreatic cancer cells by Abt, Evan R., Le, Thuc M., Dann, Amanda M., Capri, Joseph R., Poddar, Soumya, Lok, Vincent, Li, Luyi, Liang, Keke, Creech, Amanda L., Rashid, Khalid, Kim, Woosuk, Wu, Nanping, Cui, Jing, Cho, Arthur, Lee, Hailey Rose, Rosser, Ethan W., Link, Jason M., Czernin, Johannes, Wu, Ting-Ting, Damoiseaux, Robert, Dawson, David W., Donahue, Timothy R., Radu, Caius G.

“…We determine that type I interferon (IFN) response biomarkers are enriched in a subset of pancreatic ductal adenocarcinoma (PDAC) tumors; however, actionable…”
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Building the Connectivity Map of epigenetics: Chromatin profiling by quantitative targeted mass spectrometry by Creech, Amanda L., Taylor, Jordan E., Maier, Verena K., Wu, Xiaoyun, Feeney, Caitlin M., Udeshi, Namrata D., Peach, Sally E., Boehm, Jesse S., Lee, Jeannie T., Carr, Steven A., Jaffe, Jacob D.

“…•Quantitative mass spectrometry-based assay of histone modifications.•Robust sample preparation workflow with optimized chemistry.•Data analysis templates and…”
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Functional Proteomic Analysis of Repressive Histone Methyltransferase Complexes Reveals ZNF518B as a G9A Regulator[S] by Maier, Verena K., Feeney, Caitlin M., Taylor, Jordan E., Creech, Amanda L., Qiao, Jana W., Szanto, Attila, Das, Partha P., Chevrier, Nicholas, Cifuentes-Rojas, Catherine, Orkin, Stuart H., Carr, Steven A., Jaffe, Jacob D., Mertins, Philipp, Lee, Jeannie T.

“…Cell-type specific gene silencing by histone H3 lysine 27 and lysine 9 methyltransferase complexes PRC2 and G9A-GLP is crucial both during development and to…”
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Defining HLA-II ligand processing and binding rules with mass spectrometry enhances cancer epitope prediction by Abelin, Jennifer G., Harjanto, Dewi, Malloy, Matthew, Suri, Prerna, Colson, Tyler, Goulding, Scott P., Creech, Amanda L., Serrano, Lia R., Nasir, Gibran, Nasrullah, Yusuf, McGann, Christopher D., Velez, Diana, Ting, Ying S., Poran, Asaf, Rothenberg, Daniel A., Chhangawala, Sagar, Rubinsteyn, Alex, Hammerbacher, Jeff, Gaynor, Richard B., Fritsch, Edward F., Greshock, Joel, Oslund, Rob C., Barthelme, Dominik, Addona, Terri A., Arieta, Christina M., Rooney, Michael S.

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Establishing a mouse model of lung metastases using ultrasound-guided right heart ventricle injection by Labora, Amanda, Creech, Amanda, Lee, Hailey, Tabornal, Erin, Radu, Caius, Donahue, Timothy

“…We report a technique to generate a murine model of lung metastases by selectively injecting tumor cells into the right heart ventricle under ultrasound…”
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A Library of Phosphoproteomic and Chromatin Signatures for Characterizing Cellular Responses to Drug Perturbations by Litichevskiy, Lev, Peckner, Ryan, Abelin, Jennifer G, Asiedu, Jacob K, Creech, Amanda L, Davis, John F, Davison, Desiree, Dunning, Caitlin M, Egertson, Jarrett D, Egri, Shawn, Gould, Joshua, Ko, Tak, Johnson, Sarah A, Lahr, David L, Lam, Daniel, Liu, Zihan, Lyons, Nicholas J, Lu, Xiaodong, MacLean, Brendan X, Mungenast, Alison E, Officer, Adam, Natoli, Ted E, Papanastasiou, Malvina, Patel, Jinal, Sharma, Vagisha, Toder, Courtney, Tubelli, Andrew A, Young, Jennie Z, Carr, Steven A, Golub, Todd R, Subramanian, Aravind, MacCoss, Michael J, Tsai, Li-Huei, Jaffe, Jacob D

“…Although the value of proteomics has been demonstrated, cost and scale are typically prohibitive, and gene expression profiling remains dominant for…”
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Generation of liver metastases in a mouse model using ultrasound-guided intravenous injection by Labora, Amanda, Lee, Hailey, Chan, Charlotte, Tabornal, Erin, Le, Thuc, Rashid, Khalid, Abt, Evan, Yamao, Takanobu, Mandl, Hanna, Creech, Amanda, Premji, Alykhan, Li, Luyi, Link, Jason, Wu, Nanping, Radu, Caius, Donahue, Timothy

“…Here, we present a protocol to generate a murine model of liver metastasis by directly injecting tumor cells into the portal vein under ultrasound guidance. We…”
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Abstract 2674: High fat diet accelerates MYC-driven prostate cancer through metabolic and epigenomic rewiring by Labbe’, David P., Zadra, Giorgia, Yang, Meng, Lin, Charles Y., Reyes, Jaime M., Cacciatore, Stefano, Ebot, Ericka M., Cotter, Maura B., Creech, Amanda L., Jaffe, Jacob D., Kantoff, Philip W., Bradner, James E., Mucci, Lorelei A., Chavarro, Jorge E., Loda, Massimo, Brown, Myles

“…Abstract Introduction: The mechanisms underlying the association between high dietary fat intake and prostate cancer (PCa) are unknown. Using a MYC-driven PCa…”
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A phosphoproteomic signature in endothelial cells predicts vascular toxicity of tyrosine kinase inhibitors used in CML by Gopal, Srila, Lu, Qing, Man, Joshua J., Baur, Wendy, Rao, Sitara P., Litichevskiy, Lev, Papanastasiou, Malvina, Creech, Amanda L., DeRuff, Katherine C., Mullahoo, James, Officer, Adam, Egri, Shawn B., Davison, Desiree, Jaffe, Jacob D., Jaffe, Iris Z.

“…•Newer CML kinase inhibitors increase ischemia risk and are toxic to endothelial cells where they produce a proteomic toxicity signature.•This phosphoproteomic…”
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