Search Results - "Teer, Jamie K."

The genomic landscape of malignant peripheral nerve sheath tumors: diverse drivers of Ras pathway activation by Brohl, Andrew S., Kahen, Elliot, Yoder, Sean J., Teer, Jamie K., Reed, Damon R.

“…Malignant peripheral nerve sheath tumor (MPNST) is an aggressive soft tissue sarcoma. To more fully characterize the genomic landscape of this tumor type, we…”
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Tumor-infiltrating lymphocyte treatment for anti-PD-1-resistant metastatic lung cancer: a phase 1 trial by Creelan, Benjamin C., Wang, Chao, Teer, Jamie K., Toloza, Eric M., Yao, Jiqiang, Kim, Sungjune, Landin, Ana M., Mullinax, John E., Saller, James J., Saltos, Andreas N., Noyes, David R., Montoya, Leighann B., Curry, Wesley, Pilon-Thomas, Shari A., Chiappori, Alberto A., Tanvetyanon, Tawee, Kaye, Frederic J., Thompson, Zachary J., Yoder, Sean J., Fang, Bin, Koomen, John M., Sarnaik, Amod A., Chen, Dung-Tsa, Conejo-Garcia, Jose R., Haura, Eric B., Antonia, Scott J.

“…Adoptive cell therapy using tumor-infiltrating lymphocytes (TILs) has shown activity in melanoma, but has not been previously evaluated in metastatic non-small…”
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Secondary Variants in Individuals Undergoing Exome Sequencing: Screening of 572 Individuals Identifies High-Penetrance Mutations in Cancer-Susceptibility Genes by Johnston, Jennifer J., Rubinstein, Wendy S., Facio, Flavia M., Ng, David, Singh, Larry N., Teer, Jamie K., Mullikin, James C., Biesecker, Leslie G.

“…Genome- and exome-sequencing costs are continuing to fall, and many individuals are undergoing these assessments as research participants and patients. The…”
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An Interactive Resource to Probe Genetic Diversity and Estimated Ancestry in Cancer Cell Lines by Dutil, Julie, Chen, Zhihua, Monteiro, Alvaro N, Teer, Jamie K, Eschrich, Steven A

“…Recent work points to a lack of diversity in genomics studies from genome-wide association studies to somatic (tumor) genome analyses. Yet, population-specific…”
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Fast all versus all genotype comparison using DNA/RNA sequencing data: method and workflow by Eschrich, Steven A, Yu, Xiaoqing, Teer, Jamie K

“…Massively parallel sequencing includes many liquid handling steps which introduce the possibility of sample swaps, mixing, and duplication. The unique profile…”
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A multigene mutation classification of 468 colorectal cancers reveals a prognostic role for APC by Schell, Michael J., Yang, Mingli, Teer, Jamie K., Lo, Fang Yin, Madan, Anup, Coppola, Domenico, Monteiro, Alvaro N. A., Nebozhyn, Michael V., Yue, Binglin, Loboda, Andrey, Bien-Willner, Gabriel A., Greenawalt, Danielle M., Yeatman, Timothy J.

“…Colorectal cancer (CRC) is a highly heterogeneous disease, for which prognosis has been relegated to clinicopathologic staging for decades. There is a need to…”
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Single-cell Characterization of the Cellular Landscape of Acral Melanoma Identifies Novel Targets for Immunotherapy by Li, Jiannong, Smalley, Inna, Chen, Zhihua, Wu, Jheng-Yu, Phadke, Manali S, Teer, Jamie K, Nguyen, Thanh, Karreth, Florian A, Koomen, John M, Sarnaik, Amod A, Zager, Jonathan S, Khushalani, Nikhil I, Tarhini, Ahmad A, Sondak, Vernon K, Rodriguez, Paulo C, Messina, Jane L, Chen, Y Ann, Smalley, Keiran S M

“…Acral melanoma is a rare subtype of melanoma that arises on the non-hair-bearing skin of the palms, soles, and nail beds. In this study, we used single-cell…”
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Effects of Tobacco Smoking on the Tumor Immune Microenvironment in Head and Neck Squamous Cell Carcinoma by de la Iglesia, Janis V, Slebos, Robbert J C, Martin-Gomez, Laura, Wang, Xuefeng, Teer, Jamie K, Tan, Aik Choon, Gerke, Travis A, Aden-Buie, Garrick, van Veen, Tessa, Masannat, Jude, Chaudhary, Ritu, Song, Feifei, Fournier, Michelle, Siegel, Erin M, Schabath, Matthew B, Wadsworth, J Trad, Caudell, Jimmy, Harrison, Louis, Wenig, Bruce M, Conejo-Garcia, Jose, Hernandez-Prera, Juan C, Chung, Christine H

“…Patients with head and neck squamous cell carcinoma (HNSCC) who actively smoke during treatment have worse survival compared with never-smokers and…”
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The Phenotype of a Germline Mutation in PIGA: The Gene Somatically Mutated in Paroxysmal Nocturnal Hemoglobinuria by Johnston, Jennifer J., Gropman, Andrea L., Sapp, Julie C., Teer, Jamie K., Martin, Jodie M., Liu, Cyndi F., Yuan, Xuan, Ye, Zhaohui, Cheng, Linzhao, Brodsky, Robert A., Biesecker, Leslie G.

“…Phosphatidylinositol glycan class A (PIGA) is involved in the first step of glycosylphosphatidylinositol (GPI) biosynthesis. Many proteins, including CD55 and…”
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VarSifter: Visualizing and analyzing exome-scale sequence variation data on a desktop computer by Teer, Jamie K., Green, Eric D., Mullikin, James C., Biesecker, Leslie G.

“…VarSifter is a graphical software tool for desktop computers that allows investigators of varying computational skills to easily and quickly sort, filter, and…”
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Use of HLA peptidomics and whole exome sequencing to identify human immunogenic neo-antigens by Kalaora, Shelly, Barnea, Eilon, Merhavi-Shoham, Efrat, Qutob, Nouar, Teer, Jamie K, Shimony, Nilly, Schachter, Jacob, Rosenberg, Steven A, Besser, Michal J, Admon, Arie, Samuels, Yardena

“…The antigenicity of cells is demarcated by the peptides bound by their Human Leucocyte Antigen (HLA) molecules. Through this antigen presentation, T cell…”
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Proteogenomic landscape of squamous cell lung cancer by Stewart, Paul A., Welsh, Eric A., Slebos, Robbert J. C., Fang, Bin, Izumi, Victoria, Chambers, Matthew, Zhang, Guolin, Cen, Ling, Pettersson, Fredrik, Zhang, Yonghong, Chen, Zhihua, Cheng, Chia-Ho, Thapa, Ram, Thompson, Zachary, Fellows, Katherine M., Francis, Jewel M., Saller, James J., Mesa, Tania, Zhang, Chaomei, Yoder, Sean, DeNicola, Gina M., Beg, Amer A., Boyle, Theresa A., Teer, Jamie K., Ann Chen, Yian, Koomen, John M., Eschrich, Steven A., Haura, Eric B.

“…How genomic and transcriptomic alterations affect the functional proteome in lung cancer is not fully understood. Here, we integrate DNA copy number, somatic…”
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Co-evolution of somatic variation in primary and metastatic colorectal cancer may expand biopsy indications in the molecular era by Kim, Richard, Schell, Michael J, Teer, Jamie K, Greenawalt, Danielle M, Yang, Mingli, Yeatman, Timothy J

“…Metastasis is thought to be a clonal event whereby a single cell initiates the development of a new tumor at a distant site. However the degree to which…”
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Translational pathology, genomics and the development of systemic therapies for acral melanoma by Chen, Yian Ann, Teer, Jamie K., Eroglu, Zeynep, Wu, Jheng-Yu, Koomen, John M., Karreth, Florian A., Messina, Jane L., Smalley, Keiran S.M.

“…Acral melanomas arise on the non-hair bearing skin of the palms, soles and in the nail beds. These rare tumors comprise 2–3 % of all melanomas, are not linked…”
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Systematic comparison of three genomic enrichment methods for massively parallel DNA sequencing by Teer, Jamie K, Bonnycastle, Lori L, Chines, Peter S, Hansen, Nancy F, Aoyama, Natsuyo, Swift, Amy J, Abaan, Hatice Ozel, Albert, Thomas J, Margulies, Elliott H, Green, Eric D, Collins, Francis S, Mullikin, James C, Biesecker, Leslie G

“…Massively parallel DNA sequencing technologies have greatly increased our ability to generate large amounts of sequencing data at a rapid pace. Several methods…”
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Tumor-immune ecosystem dynamics define an individual Radiation Immune Score to predict pan-cancer radiocurability by Alfonso, Juan C.L., Grass, G. Daniel, Welsh, Eric, Ahmed, Kamran A., Teer, Jamie K., Pilon-Thomas, Shari, Harrison, Louis B., Cleveland, John L., Mulé, James J., Eschrich, Steven A., Torres-Roca, Javier F., Enderling, Heiko

“…Radiotherapy efficacy is the result of radiation-mediated cytotoxicity coupled with stimulation of antitumor immune responses. We develop an in silico…”
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The genomic landscape of undifferentiated embryonal sarcoma of the liver is typified by C19MC structural rearrangement and overexpression combined with TP53 mutation or loss by Setty, Bhuvana A, Jinesh, Goodwin G, Arnold, Michael, Pettersson, Fredrik, Cheng, Chia-Ho, Cen, Ling, Yoder, Sean J, Teer, Jamie K, Flores, Elsa R, Reed, Damon R, Brohl, Andrew S

“…Undifferentiated embryonal sarcoma of the liver (UESL) is a rare and aggressive malignancy. Though the molecular underpinnings of this cancer have been largely…”
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Whole-exome sequencing identifies homozygous AFG3L2 mutations in a spastic ataxia-neuropathy syndrome linked to mitochondrial m-AAA proteases by Pierson, Tyler Mark, Adams, David, Bonn, Florian, Martinelli, Paola, Cherukuri, Praveen F, Teer, Jamie K, Hansen, Nancy F, Cruz, Pedro, Mullikin For The Nisc Comparative Sequencing Program, James C, Blakesley, Robert W, Golas, Gretchen, Kwan, Justin, Sandler, Anthony, Fuentes Fajardo, Karin, Markello, Thomas, Tifft, Cynthia, Blackstone, Craig, Rugarli, Elena I, Langer, Thomas, Gahl, William A, Toro, Camilo

“…We report an early onset spastic ataxia-neuropathy syndrome in two brothers of a consanguineous family characterized clinically by lower extremity spasticity,…”
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PTPN11 Plays Oncogenic Roles and Is a Therapeutic Target for BRAF Wild-Type Melanomas by Hill, Kristen S, Roberts, Evan R, Wang, Xue, Marin, Ellen, Park, Taeeun D, Son, Sorany, Ren, Yuan, Fang, Bin, Yoder, Sean, Kim, Sungjune, Wan, Lixin, Sarnaik, Amod A, Koomen, John M, Messina, Jane L, Teer, Jamie K, Kim, Youngchul, Wu, Jie, Chalfant, Charles E, Kim, Minjung

“…Melanoma is one of the most highly mutated cancer types. To identify functional drivers of melanoma, we searched for cross-species conserved mutations…”
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Modeling phenotypic heterogeneity towards evolutionarily inspired osteosarcoma therapy by Welch, Darcy L., Fridley, Brooke L., Cen, Ling, Teer, Jamie K., Yoder, Sean J., Pettersson, Fredrik, Xu, Liping, Cheng, Chia-Ho, Zhang, Yonghong, Alexandrow, Mark G., Xiang, Shengyan, Robertson-Tessi, Mark, Brown, Joel S., Metts, Jonathan, Brohl, Andrew S., Reed, Damon R.

“…Osteosarcoma is the most common bone sarcoma in children and young adults. While universally delivered, chemotherapy only benefits roughly half of patients…”
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