263 results on '"Nieman, Linda T."'
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2. Single-cell transcriptomic analyses reveal distinct immune cell contributions to epithelial barrier dysfunction in checkpoint inhibitor colitis
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Thomas, Molly Fisher, Slowikowski, Kamil, Manakongtreecheep, Kasidet, Sen, Pritha, Samanta, Nandini, Tantivit, Jessica, Nasrallah, Mazen, Zubiri, Leyre, Smith, Neal P., Tirard, Alice, Ramesh, Swetha, Arnold, Benjamin Y., Nieman, Linda T., Chen, Jonathan H., Eisenhaure, Thomas, Pelka, Karin, Song, Yuhui, Xu, Katherine H., Jorgji, Vjola, Pinto, Christopher J., Sharova, Tatyana, Glasser, Rachel, Chan, PuiYee, Sullivan, Ryan J., Khalili, Hamed, Juric, Dejan, Boland, Genevieve M., Dougan, Michael, Hacohen, Nir, Li, Bo, Reynolds, Kerry L., and Villani, Alexandra-Chloé
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- 2024
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3. Human lung cancer harbors spatially organized stem-immunity hubs associated with response to immunotherapy
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Chen, Jonathan H., Nieman, Linda T., Spurrell, Maxwell, Jorgji, Vjola, Elmelech, Liad, Richieri, Peter, Xu, Katherine H., Madhu, Roopa, Parikh, Milan, Zamora, Izabella, Mehta, Arnav, Nabel, Christopher S., Freeman, Samuel S., Pirl, Joshua D., Lu, Chenyue, Meador, Catherine B., Barth, Jaimie L., Sakhi, Mustafa, Tang, Alexander L., Sarkizova, Siranush, Price, Colles, Fernandez, Nicolas F., Emanuel, George, He, Jiang, Van Raay, Katrina, Reeves, Jason W., Yizhak, Keren, Hofree, Matan, Shih, Angela, Sade-Feldman, Moshe, Boland, Genevieve M., Pelka, Karin, Aryee, Martin J., Mino-Kenudson, Mari, Gainor, Justin F., Korsunsky, Ilya, and Hacohen, Nir
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- 2024
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4. Disruption of cellular plasticity by repeat RNAs in human pancreatic cancer
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You, Eunae, Danaher, Patrick, Lu, Chenyue, Sun, Siyu, Zou, Luli, Phillips, Ildiko E., Rojas, Alexandra S., Ho, Natalie I., Song, Yuhui, Raabe, Michael J., Xu, Katherine H., Richieri, Peter M., Li, Hao, Aston, Natalie, Porter, Rebecca L., Patel, Bidish K., Nieman, Linda T., Schurman, Nathan, Hudson, Briana M., North, Khrystyna, Church, Sarah E., Deshpande, Vikram, Liss, Andrew S., Kim, Tae K., Cui, Yi, Kim, Youngmi, Greenbaum, Benjamin D., Aryee, Martin J., and Ting, David T.
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- 2024
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5. Cancer cells restrict immunogenicity of retrotransposon expression via distinct mechanisms
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Sun, Siyu, You, Eunae, Hong, Jungeui, Hoyos, David, Del Priore, Isabella, Tsanov, Kaloyan M., Mattagajasingh, Om, Di Gioacchino, Andrea, Marhon, Sajid A., Chacon-Barahona, Jonathan, Li, Hao, Jiang, Hua, Hozeifi, Samira, Rosas-Bringas, Omar, Xu, Katherine H., Song, Yuhui, Lang, Evan R., Rojas, Alexandra S., Nieman, Linda T., Patel, Bidish K., Murali, Rajmohan, Chanda, Pharto, Karacay, Ali, Vabret, Nicolas, De Carvalho, Daniel D., Zenklusen, Daniel, LaCava, John, Lowe, Scott W., Ting, David T., Iacobuzio-Donahue, Christine A., Solovyov, Alexander, and Greenbaum, Benjamin D.
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- 2024
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6. Selective targeting of MYC mRNA by stabilized antisense oligonucleotides
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Gill, Taylor, Wang, Haichuan, Bandaru, Raj, Lawlor, Matthew, Lu, Chenyue, Nieman, Linda T, Tao, Junyan, Zhang, Yixian, Anderson, Daniel G, Ting, David T, Chen, Xin, Bradner, James E, and Ott, Christopher J
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Biochemistry and Cell Biology ,Biomedical and Clinical Sciences ,Oncology and Carcinogenesis ,Biological Sciences ,Rare Diseases ,Genetics ,Biotechnology ,Liver Disease ,Orphan Drug ,Cancer ,Digestive Diseases ,Development of treatments and therapeutic interventions ,5.1 Pharmaceuticals ,Animals ,Apoptosis ,Carcinoma ,Hepatocellular ,Cell Proliferation ,Female ,Humans ,Liver Neoplasms ,Mice ,Mice ,Inbred C57BL ,Oligonucleotides ,Antisense ,Proto-Oncogene Proteins c-myc ,RNA Stability ,Tumor Cells ,Cultured ,Xenograft Model Antitumor Assays ,Clinical Sciences ,Oncology & Carcinogenesis ,Biochemistry and cell biology ,Oncology and carcinogenesis - Abstract
MYC is a prolific proto-oncogene driving the malignant behaviors of numerous common cancers, yet potent and selective cell-permeable inhibitors of MYC remain elusive. In order to ultimately realize the goal of therapeutic MYC inhibition in cancer, we have initiated discovery chemistry efforts aimed at inhibiting MYC translation. Here we describe a series of conformationally stabilized synthetic antisense oligonucleotides designed to target MYC mRNA (MYCASOs). To support bioactivity, we designed and synthesized this focused library of MYCASOs incorporating locked nucleic acid (LNA) bases at the 5'- and 3'-ends, a phosphorothioate backbone, and internal DNA bases. Treatment of MYC-expressing cancer cells with MYCASOs leads to a potent decrease in MYC mRNA and protein levels. Cleaved MYC mRNA in MYCASO-treated cells is detected with a sensitive 5' Rapid Amplification of cDNA Ends (RACE) assay. MYCASO treatment of cancer cell lines leads to significant inhibition of cellular proliferation while specifically perturbing MYC-driven gene expression signatures. In a MYC-induced model of hepatocellular carcinoma, MYCASO treatment decreases MYC protein levels within tumors, decreases tumor burden, and improves overall survival. MYCASOs represent a new chemical tool for in vitro and in vivo modulation of MYC activity, and promising therapeutic agents for MYC-addicted tumors.
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- 2021
7. Spatial transcriptomics reveals distinct tissue niches linked with steroid responsiveness in acute gastrointestinal GVHD
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Patel, Bidish K., Raabe, Michael J., Lang, Evan R., Song, Yuhui, Lu, Chenyue, Deshpande, Vikram, Nieman, Linda T., Aryee, Martin J., Chen, Yi-Bin, Ting, David T., and DeFilipp, Zachariah
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- 2023
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8. Stromal Microenvironment Shapes the Intratumoral Architecture of Pancreatic Cancer
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Ligorio, Matteo, Sil, Srinjoy, Malagon-Lopez, Jose, Nieman, Linda T, Misale, Sandra, Di Pilato, Mauro, Ebright, Richard Y, Karabacak, Murat N, Kulkarni, Anupriya S, Liu, Ann, Vincent Jordan, Nicole, Franses, Joseph W, Philipp, Julia, Kreuzer, Johannes, Desai, Niyati, Arora, Kshitij S, Rajurkar, Mihir, Horwitz, Elad, Neyaz, Azfar, Tai, Eric, Magnus, Neelima KC, Vo, Kevin D, Yashaswini, Chittampalli N, Marangoni, Francesco, Boukhali, Myriam, Fatherree, Jackson P, Damon, Leah J, Xega, Kristina, Desai, Rushil, Choz, Melissa, Bersani, Francesca, Langenbucher, Adam, Thapar, Vishal, Morris, Robert, Wellner, Ulrich F, Schilling, Oliver, Lawrence, Michael S, Liss, Andrew S, Rivera, Miguel N, Deshpande, Vikram, Benes, Cyril H, Maheswaran, Shyamala, Haber, Daniel A, Fernandez-Del-Castillo, Carlos, Ferrone, Cristina R, Haas, Wilhelm, Aryee, Martin J, and Ting, David T
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Biochemistry and Cell Biology ,Biomedical and Clinical Sciences ,Oncology and Carcinogenesis ,Biological Sciences ,Rare Diseases ,Genetics ,Digestive Diseases ,Stem Cell Research ,Pancreatic Cancer ,Cancer ,Stem Cell Research - Nonembryonic - Human ,2.1 Biological and endogenous factors ,Aetiology ,Animals ,Cancer-Associated Fibroblasts ,Carcinoma ,Pancreatic Ductal ,Cell Proliferation ,Coculture Techniques ,Epithelial-Mesenchymal Transition ,Female ,HEK293 Cells ,Heterografts ,Humans ,Mice ,Mice ,Inbred NOD ,Mice ,SCID ,Mitogen-Activated Protein Kinases ,Pancreatic Neoplasms ,RNA-Seq ,STAT3 Transcription Factor ,Stromal Cells ,Transfection ,Tumor Microenvironment ,mass spectrometry ,pancreatic cancer ,pancreatic ductal adenocarcinoma ,single cell RNA-sequencing ,single cell spatial analysis ,stromal microenvironment ,tumor architecture ,Medical and Health Sciences ,Developmental Biology ,Biological sciences ,Biomedical and clinical sciences - Abstract
Single-cell technologies have described heterogeneity across tissues, but the spatial distribution and forces that drive single-cell phenotypes have not been well defined. Combining single-cell RNA and protein analytics in studying the role of stromal cancer-associated fibroblasts (CAFs) in modulating heterogeneity in pancreatic cancer (pancreatic ductal adenocarcinoma [PDAC]) model systems, we have identified significant single-cell population shifts toward invasive epithelial-to-mesenchymal transition (EMT) and proliferative (PRO) phenotypes linked with mitogen-activated protein kinase (MAPK) and signal transducer and activator of transcription 3 (STAT3) signaling. Using high-content digital imaging of RNA in situ hybridization in 195 PDAC tumors, we quantified these EMT and PRO subpopulations in 319,626 individual cancer cells that can be classified within the context of distinct tumor gland "units." Tumor gland typing provided an additional layer of intratumoral heterogeneity that was associated with differences in stromal abundance and clinical outcomes. This demonstrates the impact of the stroma in shaping tumor architecture by altering inherent patterns of tumor glands in human PDAC.
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- 2019
9. NR4A1 regulates expression of immediate early genes, suppressing replication stress in cancer
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Guo, Hongshan, Golczer, Gabriel, Wittner, Ben S., Langenbucher, Adam, Zachariah, Marcus, Dubash, Taronish D., Hong, Xin, Comaills, Valentine, Burr, Risa, Ebright, Richard Y., Horwitz, Elad, Vuille, Joanna A., Hajizadeh, Soroush, Wiley, Devon F., Reeves, Brittany A., Zhang, Jia-min, Niederhoffer, Kira L., Lu, Chenyue, Wesley, Benjamin, Ho, Uyen, Nieman, Linda T., Toner, Mehmet, Vasudevan, Shobha, Zou, Lee, Mostoslavsky, Raul, Maheswaran, Shyamala, Lawrence, Michael S., and Haber, Daniel A.
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- 2021
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10. Spatially organized multicellular immune hubs in human colorectal cancer
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Pelka, Karin, Hofree, Matan, Chen, Jonathan H., Sarkizova, Siranush, Pirl, Joshua D., Jorgji, Vjola, Bejnood, Alborz, Dionne, Danielle, Ge, William H., Xu, Katherine H., Chao, Sherry X., Zollinger, Daniel R., Lieb, David J., Reeves, Jason W., Fuhrman, Christopher A., Hoang, Margaret L., Delorey, Toni, Nguyen, Lan T., Waldman, Julia, Klapholz, Max, Wakiro, Isaac, Cohen, Ofir, Albers, Julian, Smillie, Christopher S., Cuoco, Michael S., Wu, Jingyi, Su, Mei-ju, Yeung, Jason, Vijaykumar, Brinda, Magnuson, Angela M., Asinovski, Natasha, Moll, Tabea, Goder-Reiser, Max N., Applebaum, Anise S., Brais, Lauren K., DelloStritto, Laura K., Denning, Sarah L., Phillips, Susannah T., Hill, Emma K., Meehan, Julia K., Frederick, Dennie T., Sharova, Tatyana, Kanodia, Abhay, Todres, Ellen Z., Jané-Valbuena, Judit, Biton, Moshe, Izar, Benjamin, Lambden, Conner D., Clancy, Thomas E., Bleday, Ronald, Melnitchouk, Nelya, Irani, Jennifer, Kunitake, Hiroko, Berger, David L., Srivastava, Amitabh, Hornick, Jason L., Ogino, Shuji, Rotem, Asaf, Vigneau, Sébastien, Johnson, Bruce E., Corcoran, Ryan B., Sharpe, Arlene H., Kuchroo, Vijay K., Ng, Kimmie, Giannakis, Marios, Nieman, Linda T., Boland, Genevieve M., Aguirre, Andrew J., Anderson, Ana C., Rozenblatt-Rosen, Orit, Regev, Aviv, and Hacohen, Nir
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- 2021
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11. Supplementary Video S12 from Mesothelin CAR T Cells Secreting Anti-FAP/Anti-CD3 Molecules Efficiently Target Pancreatic Adenocarcinoma and its Stroma
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Wehrli, Marc, primary, Guinn, Samantha, primary, Birocchi, Filippo, primary, Kuo, Adam, primary, Sun, Yi, primary, Larson, Rebecca C., primary, Almazan, Antonio J., primary, Scarfò, Irene, primary, Bouffard, Amanda A., primary, Bailey, Stefanie R., primary, Anekal, Praju Vikas, primary, Montero Llopis, Paula, primary, Nieman, Linda T., primary, Song, Yuhui, primary, Xu, Katherine H., primary, Berger, Trisha R., primary, Kann, Michael C., primary, Leick, Mark B., primary, Silva, Harrison, primary, Salas-Benito, Diego, primary, Kienka, Tamina, primary, Grauwet, Korneel, primary, Armstrong, Todd D., primary, Zhang, Rui, primary, Zhu, Qingfeng, primary, Fu, Juan, primary, Schmidts, Andrea, primary, Korell, Felix, primary, Jan, Max, primary, Choi, Bryan D., primary, Liss, Andrew S., primary, Boland, Genevieve M., primary, Ting, David T., primary, Burkhart, Richard A., primary, Jenkins, Russell W., primary, Zheng, Lei, primary, Jaffee, Elizabeth M., primary, Zimmerman, Jacquelyn W., primary, and Maus, Marcela V., primary
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- 2024
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12. Supplementary Figure S6 from Mesothelin CAR T Cells Secreting Anti-FAP/Anti-CD3 Molecules Efficiently Target Pancreatic Adenocarcinoma and its Stroma
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Wehrli, Marc, primary, Guinn, Samantha, primary, Birocchi, Filippo, primary, Kuo, Adam, primary, Sun, Yi, primary, Larson, Rebecca C., primary, Almazan, Antonio J., primary, Scarfò, Irene, primary, Bouffard, Amanda A., primary, Bailey, Stefanie R., primary, Anekal, Praju Vikas, primary, Montero Llopis, Paula, primary, Nieman, Linda T., primary, Song, Yuhui, primary, Xu, Katherine H., primary, Berger, Trisha R., primary, Kann, Michael C., primary, Leick, Mark B., primary, Silva, Harrison, primary, Salas-Benito, Diego, primary, Kienka, Tamina, primary, Grauwet, Korneel, primary, Armstrong, Todd D., primary, Zhang, Rui, primary, Zhu, Qingfeng, primary, Fu, Juan, primary, Schmidts, Andrea, primary, Korell, Felix, primary, Jan, Max, primary, Choi, Bryan D., primary, Liss, Andrew S., primary, Boland, Genevieve M., primary, Ting, David T., primary, Burkhart, Richard A., primary, Jenkins, Russell W., primary, Zheng, Lei, primary, Jaffee, Elizabeth M., primary, Zimmerman, Jacquelyn W., primary, and Maus, Marcela V., primary
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- 2024
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13. Data from Mesothelin CAR T Cells Secreting Anti-FAP/Anti-CD3 Molecules Efficiently Target Pancreatic Adenocarcinoma and its Stroma
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Wehrli, Marc, primary, Guinn, Samantha, primary, Birocchi, Filippo, primary, Kuo, Adam, primary, Sun, Yi, primary, Larson, Rebecca C., primary, Almazan, Antonio J., primary, Scarfò, Irene, primary, Bouffard, Amanda A., primary, Bailey, Stefanie R., primary, Anekal, Praju Vikas, primary, Montero Llopis, Paula, primary, Nieman, Linda T., primary, Song, Yuhui, primary, Xu, Katherine H., primary, Berger, Trisha R., primary, Kann, Michael C., primary, Leick, Mark B., primary, Silva, Harrison, primary, Salas-Benito, Diego, primary, Kienka, Tamina, primary, Grauwet, Korneel, primary, Armstrong, Todd D., primary, Zhang, Rui, primary, Zhu, Qingfeng, primary, Fu, Juan, primary, Schmidts, Andrea, primary, Korell, Felix, primary, Jan, Max, primary, Choi, Bryan D., primary, Liss, Andrew S., primary, Boland, Genevieve M., primary, Ting, David T., primary, Burkhart, Richard A., primary, Jenkins, Russell W., primary, Zheng, Lei, primary, Jaffee, Elizabeth M., primary, Zimmerman, Jacquelyn W., primary, and Maus, Marcela V., primary
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- 2024
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14. Supplementary Methods 1 from Mesothelin CAR T Cells Secreting Anti-FAP/Anti-CD3 Molecules Efficiently Target Pancreatic Adenocarcinoma and its Stroma
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Wehrli, Marc, primary, Guinn, Samantha, primary, Birocchi, Filippo, primary, Kuo, Adam, primary, Sun, Yi, primary, Larson, Rebecca C., primary, Almazan, Antonio J., primary, Scarfò, Irene, primary, Bouffard, Amanda A., primary, Bailey, Stefanie R., primary, Anekal, Praju Vikas, primary, Montero Llopis, Paula, primary, Nieman, Linda T., primary, Song, Yuhui, primary, Xu, Katherine H., primary, Berger, Trisha R., primary, Kann, Michael C., primary, Leick, Mark B., primary, Silva, Harrison, primary, Salas-Benito, Diego, primary, Kienka, Tamina, primary, Grauwet, Korneel, primary, Armstrong, Todd D., primary, Zhang, Rui, primary, Zhu, Qingfeng, primary, Fu, Juan, primary, Schmidts, Andrea, primary, Korell, Felix, primary, Jan, Max, primary, Choi, Bryan D., primary, Liss, Andrew S., primary, Boland, Genevieve M., primary, Ting, David T., primary, Burkhart, Richard A., primary, Jenkins, Russell W., primary, Zheng, Lei, primary, Jaffee, Elizabeth M., primary, Zimmerman, Jacquelyn W., primary, and Maus, Marcela V., primary
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- 2024
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15. Supplementary Figure 6 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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16. Supplementary Figure 24 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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17. Supplementary Figure 5 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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18. Supplementary Figure 17 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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19. Supplementary Tables S1-S12 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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20. Supplementary Figure 9 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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21. Supplementary Figure 7 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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22. Supplementary Data 1 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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23. Data from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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24. Supplementary Figure 4 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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25. Supplementary Data 2 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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26. Supplementary Figure 8 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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27. Supplementary Figure 3 from Ultrasensitive Detection of Circulating LINE-1 ORF1p as a Specific Multicancer Biomarker
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Taylor, Martin S., primary, Wu, Connie, primary, Fridy, Peter C., primary, Zhang, Stephanie J., primary, Senussi, Yasmeen, primary, Wolters, Justina C., primary, Cajuso, Tatiana, primary, Cheng, Wen-Chih, primary, Heaps, John D., primary, Miller, Bryant D., primary, Mori, Kei, primary, Cohen, Limor, primary, Jiang, Hua, primary, Molloy, Kelly R., primary, Chait, Brian T., primary, Goggins, Michael G., primary, Bhan, Irun, primary, Franses, Joseph W., primary, Yang, Xiaoyu, primary, Taplin, Mary-Ellen, primary, Wang, Xinan, primary, Christiani, David C., primary, Johnson, Bruce E., primary, Meyerson, Matthew, primary, Uppaluri, Ravindra, primary, Egloff, Ann Marie, primary, Denault, Elyssa N., primary, Spring, Laura M., primary, Wang, Tian-Li, primary, Shih, Ie-Ming, primary, Fairman, Jennifer E., primary, Jung, Euihye, primary, Arora, Kshitij S., primary, Yilmaz, Osman H., primary, Cohen, Sonia, primary, Sharova, Tatyana, primary, Chi, Gary, primary, Norden, Bryanna L., primary, Song, Yuhui, primary, Nieman, Linda T., primary, Pappas, Leontios, primary, Parikh, Aparna R., primary, Strickland, Matthew R., primary, Corcoran, Ryan B., primary, Mustelin, Tomas, primary, Eng, George, primary, Yilmaz, Ömer H., primary, Matulonis, Ursula A., primary, Chan, Andrew T., primary, Skates, Steven J., primary, Rueda, Bo R., primary, Drapkin, Ronny, primary, Klempner, Samuel J., primary, Deshpande, Vikram, primary, Ting, David T., primary, Rout, Michael P., primary, LaCava, John, primary, Walt, David R., primary, and Burns, Kathleen H., primary
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- 2024
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28. Dysregulated Repeat Element Viral-like Immune Response in Hepatocellular Carcinoma
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Coley, Avril K., primary, Lu, Chenyue, additional, Pankaj, Amaya, additional, Emmett, Matthew J., additional, Lang, Evan R., additional, Song, Yuhui, additional, Xu, Katherine H., additional, Xu, Nova, additional, Patel, Bidish K., additional, Chougule, Abhijit, additional, Nieman, Linda T., additional, Aryee, Martin J., additional, Ferrone, Cristina R., additional, Deshpande, Vikram, additional, Franses, Joseph W., additional, and Ting, David T., additional
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- 2023
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29. Molecular signatures of circulating melanoma cells for monitoring early response to immune checkpoint therapy
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Hong, Xin, Sullivan, Ryan J., Kalinich, Mark, Kwan, Tanya Todorova, Giobbie-Hurder, Anita, Pan, Shiwei, LiCausi, Joseph A., Milner, John D., Nieman, Linda T., Wittner, Ben S., Ho, Uyen, Chen, Tianqi, Kapur, Ravi, Lawrence, Donald P., Flaherty, Keith T., Sequist, Lecia V., Ramaswamy, Sridhar, Miyamoto, David T., Lawrence, Michael, Toner, Mehmet, Isselbacher, Kurt J., Maheswaran, Shyamala, and Haber, Daniel A.
- Published
- 2018
30. Satellite repeat RNA expression in epithelial ovarian cancer associates with a tumor-immunosuppressive phenotype
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Porter, Rebecca L., Sun, Siyu, Flores, Micayla N., Berzolla, Emily, You, Eunae, Phillips, Ildiko E., Neelima, K.C., Desai, Niyati, Tai, Eric C., Szabolcs, Annamaria, Lang, Evan R., Pankaj, Amaya, Raabe, Michael J., Thapar, Vishal, Xu, Katherine H., Nieman, Linda T., Rabe, Daniel C., Kolin, David L., Stover, Elizabeth H., Pepin, David, Stott, Shannon L., Deshpande, Vikram, Liu, Joyce F., Solovyov, Alexander, Matulonis, Ursula A., Greenbaum, Benjamin D., and Ting, David T.
- Subjects
Immune response -- Genetic aspects -- Health aspects ,RNA -- Physiological aspects -- Health aspects ,Ovarian cancer -- Genetic aspects -- Development and progression ,Health care industry - Abstract
Aberrant expression of viral-like repeat elements is a common feature of epithelial cancers, and the substantial diversity of repeat species provides a distinct view of the cancer transcriptome. Repeatome profiling across ovarian, pancreatic, and colorectal cell lines identifies distinct clustering independent of tissue origin that is seen with coding gene analysis. Deeper analysis of ovarian cancer cell lines demonstrated that human satellite II (HSATII) satellite repeat expression was highly associated with epithelial-mesenchymal transition (EMT) and anticorrelated with IFN-response genes indicative of a more aggressive phenotype. SATII expression--and its correlation with EMT and anticorrelation with IFN-response genes-- was also found in ovarian cancer RNA-Seq data and was associated with significantly shorter survival in a second independent cohort of patients with ovarian cancer. Repeat RNAs were enriched in tumor-derived extracellular vesicles capable of stimulating monocyte-derived macrophages, demonstrating a mechanism that alters the tumor microenvironment with these viral-like sequences. Targeting of HSATII with antisense locked nucleic acids stimulated IFN response and induced MHC I expression in ovarian cancer cell lines, highlighting a potential strategy of modulating the repeatome to reestablish antitumor cell immune surveillance., Introduction Repetitive elements make up approximately 50% of the human genome (1, 2), and their aberrant expression has been described across a wide range ofcancers (3-5). Repeat suppression is achieved [...]
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- 2022
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31. Immune Responses in Checkpoint Myocarditis Across Heart, Blood, and Tumor
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Blum, Steven M., primary, Zlotoff, Daniel A., additional, Smith, Neal P., additional, Kernin, Isabela J., additional, Ramesh, Swetha, additional, Zubiri, Leyre, additional, Caplin, Joshua, additional, Tirard, Alice, additional, Sen, Prith, additional, Song, Yuhui, additional, Barth, Jaimie L., additional, Slowikowski, Kamil, additional, Nasrallah, Mazen, additional, Tantivit, Jessica, additional, Manakongtreecheep, Kasidet, additional, Arnold, Benjamin Y., additional, McGuire, John, additional, Pinto, Christopher J., additional, McLoughlin, Daniel, additional, Jackson, Monica, additional, Chan, PuiYee, additional, Lawless, Aleigha, additional, Sharova, Tatyana, additional, Nieman, Linda T., additional, Gainor, Justin F., additional, Juric, Dejan, additional, Mino-Kenudsen, Mari, additional, Sullivan, Ryan J., additional, Boland, Genevieve M., additional, Stone, James R., additional, Thomas, Molly F., additional, Neilan, Tomas G., additional, Reynolds, Kerry L., additional, and Villani, Alexandra-Chloe, additional
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- 2023
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32. Ultrasensitive detection of circulating LINE-1 ORF1p as a specific multi-cancer biomarker
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Taylor, Martin S., primary, Wu, Connie, additional, Fridy, Peter C., additional, Zhang, Stephanie J., additional, Senussi, Yasmeen, additional, Wolters, Justina C., additional, Cajuso, Tatiana, additional, Cheng, Wen-Chih, additional, Heaps, John D., additional, Miller, Bryant D., additional, Mori, Kei, additional, Cohen, Limor, additional, Jiang, Hua, additional, Molloy, Kelly R., additional, Chait, Brian T., additional, Goggins, Michael G., additional, Bhan, Irun, additional, Franses, Joseph W., additional, Yang, Xiaoyu, additional, Taplin, Mary-Ellen, additional, Wang, Xinan, additional, Christiani, David C., additional, Johnson, Bruce E., additional, Meyerson, Matthew, additional, Uppaluri, Ravindra, additional, Egloff, Ann Marie, additional, Denault, Elyssa N., additional, Spring, Laura M., additional, Wang, Tian-Li, additional, Shih, Ie-Ming, additional, Fairman, Jennifer E., additional, Jung, Euihye, additional, Arora, Kshitij S., additional, Yilmaz, Osman H., additional, Cohen, Sonia, additional, Sharova, Tatyana, additional, Chi, Gary, additional, Norden, Bryanna L., additional, Song, Yuhui, additional, Nieman, Linda T., additional, Pappas, Leontios, additional, Parikh, Aparna R., additional, Strickland, Matthew R., additional, Corcoran, Ryan B., additional, Mustelin, Tomas, additional, Eng, George, additional, Yilmaz, Omer H., additional, Matulonis, Ursula A., additional, Skates, Steven J., additional, Rueda, Bo R., additional, Drapkin, Ronny, additional, Klempner, Samuel J., additional, Deshpande, Vikram, additional, Ting, David T., additional, Rout, Michael P., additional, LaCava, John, additional, Walt, David R., additional, and Burns, Kathleen H., additional
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- 2023
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33. Temporal and spatial heterogeneity of host response to SARS-CoV-2 pulmonary infection
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Desai, Niyati, Neyaz, Azfar, Szabolcs, Annamaria, Shih, Angela R., Chen, Jonathan H., Thapar, Vishal, Nieman, Linda T., Solovyov, Alexander, Mehta, Arnav, Lieb, David J., Kulkarni, Anupriya S., Jaicks, Christopher, Xu, Katherine H., Raabe, Michael J., Pinto, Christopher J., Juric, Dejan, Chebib, Ivan, Colvin, Robert B., Kim, Arthur Y., Monroe, Robert, Warren, Sarah E., Danaher, Patrick, Reeves, Jason W., Gong, Jingjing, Rueckert, Erroll H., Greenbaum, Benjamin D., Hacohen, Nir, Lagana, Stephen M., Rivera, Miguel N., Sholl, Lynette M., Stone, James R., Ting, David T., and Deshpande, Vikram
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- 2020
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34. HIF1A signaling selectively supports proliferation of breast cancer in the brain
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Ebright, Richard Y., Zachariah, Marcus A., Micalizzi, Douglas S., Wittner, Ben S., Niederhoffer, Kira L., Nieman, Linda T., Chirn, Brian, Wiley, Devon F., Wesley, Benjamin, Shaw, Brian, Nieblas-Bedolla, Edwin, Atlas, Lian, Szabolcs, Annamaria, Iafrate, Anthony J., Toner, Mehmet, Ting, David T., Brastianos, Priscilla K., Haber, Daniel A., and Maheswaran, Shyamala
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- 2020
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35. LGR5 in Barrettʼs Esophagus and its Utility in Predicting Patients at Increased Risk of Advanced Neoplasia
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Neyaz, Azfar, Odze, Robert D., Rickelt, Steffen, Nieman, Linda T., Bledsoe, Jacob R., Mahadevan, Krishnan K., Arora, Kshitij, Jeck, William R., Taylor, Martin S., Gala, Manish, Patil, Deepa T., Yilmaz, Omer H., Rivera, Miguel N., Ting, David T., and Deshpande, Vikram
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- 2021
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36. Spatial analysis of human lung cancer reveals organized immune hubs enriched for stem-like CD8 T cells and associated with immunotherapy response
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Chen, Jonathan H., primary, Nieman, Linda T., additional, Spurrell, Maxwell, additional, Jorgji, Vjola, additional, Richieri, Peter, additional, Xu, Katherine H., additional, Madhu, Roopa, additional, Parikh, Milan, additional, Zamora, Izabella, additional, Mehta, Arnav, additional, Nabel, Christopher S., additional, Freeman, Samuel S., additional, Pirl, Joshua D., additional, Lu, Chenyue, additional, Meador, Catherine B., additional, Barth, Jaimie L., additional, Sakhi, Mustafa, additional, Tang, Alexander L., additional, Sarkizova, Siranush, additional, Price, Colles, additional, Fernandez, Nicolas F., additional, Emanuel, George, additional, He, Jiang, additional, Raay, Katrina Van, additional, Reeves, Jason W., additional, Yizhak, Keren, additional, Hofree, Matan, additional, Shih, Angela, additional, Sade-Feldman, Moshe, additional, Boland, Genevieve M., additional, Pelka, Karin, additional, Aryee, Martin, additional, Korsunsky, Ilya, additional, Mino-Kenudson, Mari, additional, Gainor, Justin F., additional, and Hacohen, Nir, additional
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- 2023
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37. Supplementary Data from Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer
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Rajurkar, Mihir, primary, Parikh, Aparna R., primary, Solovyov, Alexander, primary, You, Eunae, primary, Kulkarni, Anupriya S., primary, Chu, Chong, primary, Xu, Katherine H., primary, Jaicks, Christopher, primary, Taylor, Martin S., primary, Wu, Connie, primary, Alexander, Katherine A., primary, Good, Charly R., primary, Szabolcs, Annamaria, primary, Gerstberger, Stefanie, primary, Tran, Antuan V., primary, Xu, Nova, primary, Ebright, Richard Y., primary, Van Seventer, Emily E., primary, Vo, Kevin D., primary, Tai, Eric C., primary, Lu, Chenyue, primary, Joseph-Chazan, Jasmin, primary, Raabe, Michael J., primary, Nieman, Linda T., primary, Desai, Niyati, primary, Arora, Kshitij S., primary, Ligorio, Matteo, primary, Thapar, Vishal, primary, Cohen, Limor, primary, Garden, Padric M., primary, Senussi, Yasmeen, primary, Zheng, Hui, primary, Allen, Jill N., primary, Blaszkowsky, Lawrence S., primary, Clark, Jeffrey W., primary, Goyal, Lipika, primary, Wo, Jennifer Y., primary, Ryan, David P., primary, Corcoran, Ryan B., primary, Deshpande, Vikram, primary, Rivera, Miguel N., primary, Aryee, Martin J., primary, Hong, Theodore S., primary, Berger, Shelley L., primary, Walt, David R., primary, Burns, Kathleen H., primary, Park, Peter J., primary, Greenbaum, Benjamin D., primary, and Ting, David T., primary
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- 2023
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38. Data from Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer
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Rajurkar, Mihir, primary, Parikh, Aparna R., primary, Solovyov, Alexander, primary, You, Eunae, primary, Kulkarni, Anupriya S., primary, Chu, Chong, primary, Xu, Katherine H., primary, Jaicks, Christopher, primary, Taylor, Martin S., primary, Wu, Connie, primary, Alexander, Katherine A., primary, Good, Charly R., primary, Szabolcs, Annamaria, primary, Gerstberger, Stefanie, primary, Tran, Antuan V., primary, Xu, Nova, primary, Ebright, Richard Y., primary, Van Seventer, Emily E., primary, Vo, Kevin D., primary, Tai, Eric C., primary, Lu, Chenyue, primary, Joseph-Chazan, Jasmin, primary, Raabe, Michael J., primary, Nieman, Linda T., primary, Desai, Niyati, primary, Arora, Kshitij S., primary, Ligorio, Matteo, primary, Thapar, Vishal, primary, Cohen, Limor, primary, Garden, Padric M., primary, Senussi, Yasmeen, primary, Zheng, Hui, primary, Allen, Jill N., primary, Blaszkowsky, Lawrence S., primary, Clark, Jeffrey W., primary, Goyal, Lipika, primary, Wo, Jennifer Y., primary, Ryan, David P., primary, Corcoran, Ryan B., primary, Deshpande, Vikram, primary, Rivera, Miguel N., primary, Aryee, Martin J., primary, Hong, Theodore S., primary, Berger, Shelley L., primary, Walt, David R., primary, Burns, Kathleen H., primary, Park, Peter J., primary, Greenbaum, Benjamin D., primary, and Ting, David T., primary
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- 2023
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39. Supplementary Figure from Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer
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Rajurkar, Mihir, primary, Parikh, Aparna R., primary, Solovyov, Alexander, primary, You, Eunae, primary, Kulkarni, Anupriya S., primary, Chu, Chong, primary, Xu, Katherine H., primary, Jaicks, Christopher, primary, Taylor, Martin S., primary, Wu, Connie, primary, Alexander, Katherine A., primary, Good, Charly R., primary, Szabolcs, Annamaria, primary, Gerstberger, Stefanie, primary, Tran, Antuan V., primary, Xu, Nova, primary, Ebright, Richard Y., primary, Van Seventer, Emily E., primary, Vo, Kevin D., primary, Tai, Eric C., primary, Lu, Chenyue, primary, Joseph-Chazan, Jasmin, primary, Raabe, Michael J., primary, Nieman, Linda T., primary, Desai, Niyati, primary, Arora, Kshitij S., primary, Ligorio, Matteo, primary, Thapar, Vishal, primary, Cohen, Limor, primary, Garden, Padric M., primary, Senussi, Yasmeen, primary, Zheng, Hui, primary, Allen, Jill N., primary, Blaszkowsky, Lawrence S., primary, Clark, Jeffrey W., primary, Goyal, Lipika, primary, Wo, Jennifer Y., primary, Ryan, David P., primary, Corcoran, Ryan B., primary, Deshpande, Vikram, primary, Rivera, Miguel N., primary, Aryee, Martin J., primary, Hong, Theodore S., primary, Berger, Shelley L., primary, Walt, David R., primary, Burns, Kathleen H., primary, Park, Peter J., primary, Greenbaum, Benjamin D., primary, and Ting, David T., primary
- Published
- 2023
- Full Text
- View/download PDF
40. Table S2 from The Lipogenic Regulator SREBP2 Induces Transferrin in Circulating Melanoma Cells and Suppresses Ferroptosis
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Hong, Xin, primary, Roh, Whijae, primary, Sullivan, Ryan J., primary, Wong, Keith H.K., primary, Wittner, Ben S., primary, Guo, Hongshan, primary, Dubash, Taronish D., primary, Sade-Feldman, Moshe, primary, Wesley, Benjamin, primary, Horwitz, Elad, primary, Boland, Genevieve M., primary, Marvin, Dieuwke L., primary, Bonesteel, Todd, primary, Lu, Chenyue, primary, Aguet, François, primary, Burr, Risa, primary, Freeman, Samuel S., primary, Parida, Laxmi, primary, Calhoun, Katherine, primary, Jewett, Michelle K., primary, Nieman, Linda T., primary, Hacohen, Nir, primary, Näär, Anders M., primary, Ting, David T., primary, Toner, Mehmet, primary, Stott, Shannon L., primary, Getz, Gad, primary, Maheswaran, Shyamala, primary, and Haber, Daniel A., primary
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- 2023
- Full Text
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41. Data from The Lipogenic Regulator SREBP2 Induces Transferrin in Circulating Melanoma Cells and Suppresses Ferroptosis
- Author
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Hong, Xin, primary, Roh, Whijae, primary, Sullivan, Ryan J., primary, Wong, Keith H.K., primary, Wittner, Ben S., primary, Guo, Hongshan, primary, Dubash, Taronish D., primary, Sade-Feldman, Moshe, primary, Wesley, Benjamin, primary, Horwitz, Elad, primary, Boland, Genevieve M., primary, Marvin, Dieuwke L., primary, Bonesteel, Todd, primary, Lu, Chenyue, primary, Aguet, François, primary, Burr, Risa, primary, Freeman, Samuel S., primary, Parida, Laxmi, primary, Calhoun, Katherine, primary, Jewett, Michelle K., primary, Nieman, Linda T., primary, Hacohen, Nir, primary, Näär, Anders M., primary, Ting, David T., primary, Toner, Mehmet, primary, Stott, Shannon L., primary, Getz, Gad, primary, Maheswaran, Shyamala, primary, and Haber, Daniel A., primary
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- 2023
- Full Text
- View/download PDF
42. Supplementary Data from The Lipogenic Regulator SREBP2 Induces Transferrin in Circulating Melanoma Cells and Suppresses Ferroptosis
- Author
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Hong, Xin, primary, Roh, Whijae, primary, Sullivan, Ryan J., primary, Wong, Keith H.K., primary, Wittner, Ben S., primary, Guo, Hongshan, primary, Dubash, Taronish D., primary, Sade-Feldman, Moshe, primary, Wesley, Benjamin, primary, Horwitz, Elad, primary, Boland, Genevieve M., primary, Marvin, Dieuwke L., primary, Bonesteel, Todd, primary, Lu, Chenyue, primary, Aguet, François, primary, Burr, Risa, primary, Freeman, Samuel S., primary, Parida, Laxmi, primary, Calhoun, Katherine, primary, Jewett, Michelle K., primary, Nieman, Linda T., primary, Hacohen, Nir, primary, Näär, Anders M., primary, Ting, David T., primary, Toner, Mehmet, primary, Stott, Shannon L., primary, Getz, Gad, primary, Maheswaran, Shyamala, primary, and Haber, Daniel A., primary
- Published
- 2023
- Full Text
- View/download PDF
43. AI in Clinical Decision Support: Applications in Optical Spectroscopy for Cancer Detection and Diagnosis
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Kan, Chili-Wen, Nieman, Linda T., Sokolov, Konstantin, Markey, Mia K., Kacprzyk, Janusz, editor, Sordo, Margarita, editor, Vaidya, Sachin, editor, and Jain, Lakhmi C., editor
- Published
- 2008
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44. Abstract PR004: Characterizing the effects of neoadjuvant therapy in PDAC
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Pankaj, Amaya, primary, Raabe, Michael J., additional, Patel, Bidish, additional, Lang, Evan R., additional, Kocher, Joshua, additional, Xu, Katherine H., additional, Nieman, Linda T., additional, Kimmelman, Alec C., additional, Ryan, David P., additional, Hong, Theodore S., additional, Hwang, William L., additional, Aryee, Martin, additional, and Ting, David T., additional
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- 2022
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45. Abstract A066: 5z-7-oxozeaenol as an epithelial mesenchymal transition plasticity inhibitor in PDAC
- Author
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You, Eunae, primary, Phillips, Ildiko Phillips E., additional, Ebright, Richard Y., additional, Desai, Niyati, additional, Raabe, Michael J., additional, Lang, Evan R., additional, Nieman, Linda T., additional, Hajizadeh, Soroush, additional, Kreuzer, Johannes, additional, Haas, Wilhelm, additional, and Ting, David T., additional
- Published
- 2022
- Full Text
- View/download PDF
46. In vivo Hyperspectral Confocal Fluorescence Imaging to Determine Pigment Localization and Distribution in Cyanobacterial Cells
- Author
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Vermaas, Wim F. J., Timlin, Jerilyn A., Jones, Howland D. T., Sinclair, Michael B., Nieman, Linda T., Hamad, Sawsan W., Melgaard, David K., and Haaland, David M.
- Published
- 2008
- Full Text
- View/download PDF
47. Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer
- Author
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Rajurkar, Mihir, primary, Parikh, Aparna R., additional, Solovyov, Alexander, additional, You, Eunae, additional, Kulkarni, Anupriya S., additional, Chu, Chong, additional, Xu, Katherine H., additional, Jaicks, Christopher, additional, Taylor, Martin S., additional, Wu, Connie, additional, Alexander, Katherine A., additional, Good, Charly R., additional, Szabolcs, Annamaria, additional, Gerstberger, Stefanie, additional, Tran, Antuan V., additional, Xu, Nova, additional, Ebright, Richard Y., additional, Van Seventer, Emily E., additional, Vo, Kevin D., additional, Tai, Eric C., additional, Lu, Chenyue, additional, Joseph-Chazan, Jasmin, additional, Raabe, Michael J., additional, Nieman, Linda T., additional, Desai, Niyati, additional, Arora, Kshitij S., additional, Ligorio, Matteo, additional, Thapar, Vishal, additional, Cohen, Limor, additional, Garden, Padric M., additional, Senussi, Yasmeen, additional, Zheng, Hui, additional, Allen, Jill N., additional, Blaszkowsky, Lawrence S., additional, Clark, Jeffrey W., additional, Goyal, Lipika, additional, Wo, Jennifer Y., additional, Ryan, David P., additional, Corcoran, Ryan B., additional, Deshpande, Vikram, additional, Rivera, Miguel N., additional, Aryee, Martin J., additional, Hong, Theodore S., additional, Berger, Shelley L., additional, Walt, David R., additional, Burns, Kathleen H., additional, Park, Peter J., additional, Greenbaum, Benjamin D., additional, and Ting, David T., additional
- Published
- 2022
- Full Text
- View/download PDF
48. Differential Kinase Activity Across Prostate Tumor Compartments Defines Sensitivity to Target Inhibition
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Karabacak, Nezihi Murat, primary, Zheng, Yu, additional, Dubash, Taronish D., additional, Burr, Risa, additional, Micalizzi, Douglas S., additional, Wittner, Ben S., additional, Lin, Maoxuan, additional, Wiley, Devon F., additional, Comaills, Valentine, additional, Emmons, Erin, additional, Niederhoffer, Kira L., additional, Ho, Uyen, additional, Ukleja, Jacob, additional, Che, Dante, additional, Stowe, Hannah, additional, Nieman, Linda T., additional, Haas, Wilhelm, additional, Stott, Shannon L., additional, Lawrence, Michael S., additional, Ting, David T., additional, Miyamoto, David T., additional, Haber, Daniel A., additional, Toner, Mehmet, additional, and Maheswaran, Shyamala, additional
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- 2022
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49. Active RB causes visible changes in nuclear organization
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Krishnan, Badri, primary, Yasuhara, Takaaki, additional, Rumde, Purva, additional, Stanzione, Marcello, additional, Lu, Chenyue, additional, Lee, Hanjun, additional, Lawrence, Michael S., additional, Zou, Lee, additional, Nieman, Linda T., additional, Sanidas, Ioannis, additional, and Dyson, Nicholas J., additional
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- 2022
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50. Altered interactions between circulating and tissue-resident CD8 T cells with the colonic mucosa define colitis associated with immune checkpoint inhibitors
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Thomas, Molly Fisher, primary, Slowikowski, Kamil, additional, Manakongtreecheep, Kasidet, additional, Sen, Pritha, additional, Tantivit, Jessica, additional, Nasrallah, Mazen, additional, Smith, Neal P., additional, Ramesh, Swetha, additional, Zubiri, Leyre, additional, Tirard, Alice, additional, Arnold, Benjamin Y., additional, Nieman, Linda T., additional, Chen, Jonathan H., additional, Eisenhaure, Thomas, additional, Pelka, Karin, additional, Xu, Katherine H., additional, Jorgji, Vjola, additional, Pinto, Christopher J., additional, Sharova, Tatyana, additional, Glasser, Rachel, additional, Chan, Elaina PuiYee, additional, Sullivan, Ryan J., additional, Khalili, Hamed, additional, Juric, Dejan, additional, Boland, Genevieve M., additional, Dougan, Michael, additional, Hacohen, Nir, additional, Reynolds, Kerry L., additional, Li, Bo, additional, and Villani, Alexandra-Chloé, additional
- Published
- 2021
- Full Text
- View/download PDF
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