Search Results - "Siemers, Nathan O"

Genome-wide association analysis identifies genetic correlates of immune infiltrates in solid tumors by Siemers, Nathan O, Holloway, James L, Chang, Han, Chasalow, Scott D, Ross-MacDonald, Petra B, Voliva, Charles F, Szustakowski, Joseph D

“…Therapeutic options for the treatment of an increasing variety of cancers have been expanded by the introduction of a new class of drugs, commonly referred to…”
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Cancer-associated fibroblasts are the main contributors to epithelial-to-mesenchymal signatures in the tumor microenvironment by Szabo, Peter M., Vajdi, Amir, Kumar, Namit, Tolstorukov, Michael Y., Chen, Benjamin J., Edwards, Robin, Ligon, Keith L., Chasalow, Scott D., Chow, Kin-Hoe, Shetty, Aniket, Bolisetty, Mohan, Holloway, James L., Golhar, Ryan, Kidd, Brian A., Hull, Philip Ansumana, Houser, Jeff, Vlach, Logan, Siemers, Nathan O., Saha, Saurabh

“…Epithelial-to-mesenchymal transition (EMT) is associated with tumor initiation, metastasis, and drug resistance. However, the mechanisms underlying these…”
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Nearest Neighbor Networks: clustering expression data based on gene neighborhoods by Huttenhower, Curtis, Flamholz, Avi I, Landis, Jessica N, Sahi, Sauhard, Myers, Chad L, Olszewski, Kellen L, Hibbs, Matthew A, Siemers, Nathan O, Troyanskaya, Olga G, Coller, Hilary A

“…The availability of microarrays measuring thousands of genes simultaneously across hundreds of biological conditions represents an opportunity to understand…”
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An immune-active tumor microenvironment favors clinical response to ipilimumab by Ji, Rui-Ru, Chasalow, Scott D., Wang, Lisu, Hamid, Omid, Schmidt, Henrik, Cogswell, John, Alaparthy, Suresh, Berman, David, Jure-Kunkel, Maria, Siemers, Nathan O., Jackson, Jeffrey R., Shahabi, Vafa

“…Purpose Ipilimumab, a fully human monoclonal antibody specific to CTLA-4, has been shown to improve overall survival in metastatic melanoma patients. As a…”
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Fc-optimized Anti-CCR8 Antibody Depletes Regulatory T Cells in Human Tumor Models by Campbell, Joseph R, McDonald, Bryan R, Mesko, Paul B, Siemers, Nathan O, Singh, Priti B, Selby, Mark, Sproul, Tim W, Korman, Alan J, Vlach, Logan M, Houser, Jeff, Sambanthamoorthy, Sharmila, Lu, Kai, Hatcher, Sandra V, Lohre, Jack, Jain, Renu, Lan, Ruth Y

“…FOXP3+ Regulatory T cells (Tregs) play a critical role in mediating tolerance to self-antigens and can repress antitumor immunity through multiple mechanisms…”
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Analyses of PD-L1 and Inflammatory Gene Expression Association with Efficacy of Nivolumab ± Ipilimumab in Gastric Cancer/Gastroesophageal Junction Cancer by Lei, Ming, Siemers, Nathan O, Pandya, Dimple, Chang, Han, Sanchez, Teresa, Harbison, Christopher, Szabo, Peter M, Janjigian, Yelena, Ott, Patrick A, Sharma, Padmanee, Bendell, Johanna, Evans, Thomas R Jeffry, de Braud, Filippo, Chau, Ian, Boyd, Zachary

“…In advanced gastric cancer/gastroesophageal junction cancer (GC/GEJC), there is a need to identify biomarkers of response to therapies, such as immune…”
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Transcriptional profiling of the dose response: a more powerful approach for characterizing drug activities by Ji, Rui-Ru, de Silva, Heshani, Jin, Yisheng, Bruccoleri, Robert E, Cao, Jian, He, Aiqing, Huang, Wenjun, Kayne, Paul S, Neuhaus, Isaac M, Ott, Karl-Heinz, Penhallow, Becky, Cockett, Mark I, Neubauer, Michael G, Siemers, Nathan O, Ross-Macdonald, Petra

“…The dose response curve is the gold standard for measuring the effect of a drug treatment, but is rarely used in genomic scale transcriptional profiling due to…”
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Exome sequencing reveals comprehensive genomic alterations across eight cancer cell lines by Chang, Han, Jackson, Donald G, Kayne, Paul S, Ross-Macdonald, Petra B, Ryseck, Rolf-Peter, Siemers, Nathan O

“…It is well established that genomic alterations play an essential role in oncogenesis, disease progression, and response of tumors to therapeutic intervention…”
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Gene set enrichment analysis by Tilford, Charles A, Siemers, Nathan O

“…Set enrichment analytical methods have become commonplace tools applied to the analysis and interpretation of biological data. The statistical techniques are…”
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HBEGF, SRA1, and IK: Three cosegregating genes as determinants of cardiomyopathy by Friedrichs, Frauke, Zugck, Christian, Rauch, Gerd-Jörg, Ivandic, Boris, Weichenhan, Dieter, Müller-Bardorff, Margit, Meder, Benjamin, El Mokhtari, Nour Eddine, Regitz-Zagrosek, Vera, Hetzer, Roland, Schäfer, Arne, Schreiber, Stefan, Chen, Jian, Neuhaus, Isaac, Ji, Ruiru, Siemers, Nathan O, Frey, Norbert, Rottbauer, Wolfgang, Katus, Hugo A, Stoll, Monika

“…Human dilated cardiomyopathy (DCM), a disorder of the cardiac muscle, causes considerable morbidity and mortality and is one of the major causes of sudden…”
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SDRS—an algorithm for analyzing large-scale dose–response data by Ji, Rui-Ru, Siemers, Nathan O, Lei, Ming, Schweizer, Liang, Bruccoleri, Robert E

“…Dose–response information is critical to understanding drug effects, yet analytical methods for dose–response assays cannot cope with the dimensionality of…”
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Development and Activities of a New Melphalan Prodrug Designed for Tumor-Selective Activation by Kerr, David E, Li, Zhengong, Siemers, Nathan O, Senter, Peter D, Vrudhula, Vivekananda M

“…The synthesis of C-Mel, a cephalosporin carbamate derivative of the clinically used alkylating agent melphalan, is described. C-Mel was designed as an…”
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Abstract 2244: Evaluation of large antibody panels in single-cell genomic immunophenotyping of fresh and preserved human leukocytes by Siemers, Nathan O., Chen, Jasmine, Mankoo, Parminder, Ilyas, Shazia

“…Abstract Background: Multi-omic single cell studies are revolutionizing knowledge of the tumor immune microenvironment and positioned to detect rare cell…”
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Cephalosporin prodrugs of paclitaxel for immunologically specific activation by L-49-sFv-β-Lactamase fusion protein by Vrudhula, Vivekananda M., Kerr, David E., Siemers, Nathan O., Dubowchik, Gene M., Senter, Peter D.

“…Paclitaxel conjugates of 7-phenylacetamidocephalosporanic acid were prepared as prodrugs for site specific activation by targeted β-lactamase. Immunologically…”
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Structural and functional characterization of CFE88: Evidence that a conserved and essential bacterial protein is a methyltransferase by Constantine, Keith L., Krystek, Stanley R., Healy, Matthew D., Doyle, Michael L., Siemers, Nathan O., Thanassi, Jane, Yan, Ning, Xie, Dianlin, Goldfarb, Valentina, Yanchunas, Joseph, Tao, Li, Dougherty, Brian A., Farmer, Bennett T.

“…CFE88 is a conserved essential gene product from Streptococcus pneumoniae. This 227‐residue protein has minimal sequence similarity to proteins of known…”
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Comparison of Recombinant and Synthetically Formed Monoclonal Antibody-β-Lactamase Conjugates for Anticancer Prodrug Activation by Kerr, David E, Vrudhula, Vivekananda M, Svensson, Håkan P, Siemers, Nathan O, Senter, Peter D

“…Conjugates of the L49 monoclonal antibody (binds to the p97 antigen on melanomas and carcinomas) were formed by attaching Enterobacter cloacae β-lactamase (bL)…”
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Modifying the Specificity and Activity of the Enterobacter cloacae P99 β-Lactamase by Mutagenesis within an M13 Phage Vector by Siemers, Nathan O, Yelton, Dale E, Bajorath, Jürgen, Senter, Peter D

“…A library of Enterobacter cloacae P99 β-lactamase mutants was produced to investigate the importance of residues 286−290 for substrate binding and catalysis…”
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Transcriptional Profiling of the Dose Response: A More Powerful Approach for Characterizing Drug Activities: e1000512 by Ji, Rui-Ru, Silva, Heshani de, Jin, Yisheng, Bruccoleri, Robert E, Cao, Jian, He, Aiqing, Huang, Wenjun, Kayne, Paul S, Neuhaus, Isaac M, Ott, Karl-Heinz, Penhallow, Becky, Cockett, Mark I, Neubauer, Michael G, Siemers, Nathan O, Ross-Macdonald, Petra

“…The dose response curve is the gold standard for measuring the effect of a drug treatment, but is rarely used in genomic scale transcriptional profiling due to…”
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Construction, Expression, and Activities of L49-sFv-β-Lactamase, a Single-Chain Antibody Fusion Protein for Anticancer Prodrug Activation by Siemers, Nathan O., Kerr, David E., Yarnold, Susan, Stebbins, Mark R., Vrudhula, Vivekananda M., Hellström, Ingegerd, Hellström, Karl Erik, Senter, Peter D.

“…The L49 (IgG1) monoclonal antibody binds to p97 (melanotransferrin), a tumor-selective antigen that is expressed on human melanomas and carcinomas. A…”
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