Search Results - "Aguet, Francois"

Unannotated proteins expand the MHC-I-restricted immunopeptidome in cancer by Ouspenskaia, Tamara, Law, Travis, Clauser, Karl R., Klaeger, Susan, Sarkizova, Siranush, Aguet, François, Li, Bo, Christian, Elena, Knisbacher, Binyamin A., Le, Phuong M., Hartigan, Christina R., Keshishian, Hasmik, Apffel, Annie, Oliveira, Giacomo, Zhang, Wandi, Chen, Sarah, Chow, Yuen Ting, Ji, Zhe, Jungreis, Irwin, Shukla, Sachet A., Justesen, Sune, Bachireddy, Pavan, Kellis, Manolis, Getz, Gad, Hacohen, Nir, Keskin, Derin B., Carr, Steven A., Wu, Catherine J., Regev, Aviv

“…Tumor-associated epitopes presented on MHC-I that can activate the immune system against cancer cells are typically identified from annotated protein-coding…”
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Measuring Clathrin-Coated Vesicle Formation with Single-Molecule Resolution by Aguet, François, Cocucci, Emanuele

“…High-resolution fluorescence microscopy is increasingly contributing to our understanding of molecular processes. By utilizing single-molecule intensity…”
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Liquid versus tissue biopsy for detecting acquired resistance and tumor heterogeneity in gastrointestinal cancers by Parikh, Aparna R., Leshchiner, Ignaty, Elagina, Liudmila, Goyal, Lipika, Levovitz, Chaya, Siravegna, Giulia, Livitz, Dimitri, Rhrissorrakrai, Kahn, Martin, Elizabeth E., Van Seventer, Emily E., Hanna, Megan, Slowik, Kara, Utro, Filippo, Pinto, Christopher J., Wong, Alicia, Danysh, Brian P., de la Cruz, Ferran Fece, Fetter, Isobel J., Nadres, Brandon, Shahzade, Heather A., Allen, Jill N., Blaszkowsky, Lawrence S., Clark, Jeffrey W., Giantonio, Bruce, Murphy, Janet E., Nipp, Ryan D., Roeland, Eric, Ryan, David P., Weekes, Colin D., Kwak, Eunice L., Faris, Jason E., Wo, Jennifer Y., Aguet, François, Dey-Guha, Ipsita, Hazar-Rethinam, Mehlika, Dias-Santagata, Dora, Ting, David T., Zhu, Andrew X., Hong, Theodore S., Golub, Todd R., Iafrate, A. John, Adalsteinsson, Viktor A., Bardelli, Alberto, Parida, Laxmi, Juric, Dejan, Getz, Gad, Corcoran, Ryan B.

“…During cancer therapy, tumor heterogeneity can drive the evolution of multiple tumor subclones harboring unique resistance mechanisms in an individual patient…”
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Genomic Profiling of Smoldering Multiple Myeloma Identifies Patients at a High Risk of Disease Progression by Bustoros, Mark, Sklavenitis-Pistofidis, Romanos, Park, Jihye, Redd, Robert, Zhitomirsky, Benny, Dunford, Andrew J, Salem, Karma, Tai, Yu-Tzu, Anand, Shankara, Mouhieddine, Tarek H, Chavda, Selina J, Boehner, Cody, Elagina, Liudmila, Neuse, Carl Jannes, Cha, Justin, Rahmat, Mahshid, Taylor-Weiner, Amaro, Van Allen, Eliezer, Kumar, Shaji, Kastritis, Efstathis, Leshchiner, Ignaty, Morgan, Elizabeth A, Laubach, Jacob, Casneuf, Tineke, Richardson, Paul, Munshi, Nikhil C, Anderson, Kenneth C, Trippa, Lorenzo, Aguet, François, Stewart, Chip, Dimopoulos, Meletios-Athanasios, Yong, Kwee, Bergsagel, P Leif, Manier, Salomon, Getz, Gad, Ghobrial, Irene M

“…Smoldering multiple myeloma (SMM) is a precursor condition of multiple myeloma (MM) with a 10% annual risk of progression. Various prognostic models exist for…”
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Leveraging supervised learning for functionally informed fine-mapping of cis-eQTLs identifies an additional 20,913 putative causal eQTLs by Wang, Qingbo S., Kelley, David R., Ulirsch, Jacob, Kanai, Masahiro, Sadhuka, Shuvom, Cui, Ran, Albors, Carlos, Cheng, Nathan, Okada, Yukinori, Aguet, Francois, Ardlie, Kristin G., MacArthur, Daniel G., Finucane, Hilary K.

“…The large majority of variants identified by GWAS are non-coding, motivating detailed characterization of the function of non-coding variants. Experimental…”
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Crosstalk between Akt/GSK3β signaling and dynamin-1 regulates clathrin-mediated endocytosis by Reis, Carlos R, Chen, Ping-Hung, Srinivasan, Saipraveen, Aguet, François, Mettlen, Marcel, Schmid, Sandra L

“…Clathrin‐mediated endocytosis (CME) regulates signaling from the plasma membrane. Analysis of clathrin‐coated pit (CCP) dynamics led us to propose the…”
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The Lipogenic Regulator SREBP2 Induces Transferrin in Circulating Melanoma Cells and Suppresses Ferroptosis by Hong, Xin, Roh, Whijae, Sullivan, Ryan J, Wong, Keith H K, Wittner, Ben S, Guo, Hongshan, Dubash, Taronish D, Sade-Feldman, Moshe, Wesley, Benjamin, Horwitz, Elad, Boland, Genevieve M, Marvin, Dieuwke L, Bonesteel, Todd, Lu, Chenyue, Aguet, François, Burr, Risa, Freeman, Samuel S, Parida, Laxmi, Calhoun, Katherine, Jewett, Michelle K, Nieman, Linda T, Hacohen, Nir, Näär, Anders M, Ting, David T, Toner, Mehmet, Stott, Shannon L, Getz, Gad, Maheswaran, Shyamala, Haber, Daniel A

“…Circulating tumor cells (CTC) are shed by cancer into the bloodstream, where a viable subset overcomes oxidative stress to initiate metastasis. We show that…”
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Molecular map of chronic lymphocytic leukemia and its impact on outcome by Knisbacher, Binyamin A., Lin, Ziao, Hahn, Cynthia K., Nadeu, Ferran, Duran-Ferrer, Martí, Stevenson, Kristen E., Tausch, Eugen, Delgado, Julio, Barbera-Mourelle, Alex, Taylor-Weiner, Amaro, Bousquets-Muñoz, Pablo, Diaz-Navarro, Ander, Dunford, Andrew, Anand, Shankara, Kretzmer, Helene, Gutierrez-Abril, Jesus, López-Tamargo, Sara, Fernandes, Stacey M., Sun, Clare, Sivina, Mariela, Rassenti, Laura Z., Schneider, Christof, Li, Shuqiang, Parida, Laxmi, Meissner, Alexander, Aguet, François, Burger, Jan A., Wiestner, Adrian, Kipps, Thomas J., Brown, Jennifer R., Hallek, Michael, Stewart, Chip, Neuberg, Donna S., Martín-Subero, José I., Puente, Xose S., Stilgenbauer, Stephan, Wu, Catherine J., Campo, Elias, Getz, Gad

“…Recent advances in cancer characterization have consistently revealed marked heterogeneity, impeding the completion of integrated molecular and clinical maps…”
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Transcription factor regulation of eQTL activity across individuals and tissues by Flynn, Elise D, Tsu, Athena L, Kasela, Silva, Kim-Hellmuth, Sarah, Aguet, Francois, Ardlie, Kristin G, Bussemaker, Harmen J, Mohammadi, Pejman, Lappalainen, Tuuli

“…Tens of thousands of genetic variants associated with gene expression (cis-eQTLs) have been discovered in the human population. These eQTLs are active in…”
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Single-molecule analysis of a molecular disassemblase reveals the mechanism of Hsc70-driven clathrin uncoating by Kirchhausen, Tomas, Böcking, Till, Aguet, François, Harrison, Stephen C

“…Hsc70 disassembles the coats of clathrin-coated vesicles, remodels a number of other protein complexes, and facilitates protein folding. The dynamics of…”
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Host protein kinases required for SARS-CoV-2 nucleocapsid phosphorylation and viral replication by Yaron, Tomer M, Heaton, Brook E, Levy, Tyler M, Johnson, Jared L, Jordan, Tristan X, Cohen, Benjamin M, Kerelsky, Alexander, Lin, Ting-Yu, Liberatore, Katarina M, Bulaon, Danielle K, Van Nest, Samantha J, Koundouros, Nikos, Kastenhuber, Edward R, Mercadante, Marisa N, Shobana-Ganesh, Kripa, He, Long, Schwartz, Robert E, Chen, Shuibing, Weinstein, Harel, Elemento, Olivier, Piskounova, Elena, Nilsson-Payant, Benjamin E, Lee, Gina, Trimarco, Joseph D, Burke, Kaitlyn N, Hamele, Cait E, Chaparian, Ryan R, Harding, Alfred T, Tata, Aleksandra, Zhu, Xinyu, Tata, Purushothama Rao, Smith, Clare M, Possemato, Anthony P, Tkachev, Sasha L, Hornbeck, Peter V, Beausoleil, Sean A, Anand, Shankara K, Aguet, François, Getz, Gad, Davidson, Andrew D, Heesom, Kate, Kavanagh-Williamson, Maia, Matthews, David A, tenOever, Benjamin R, Cantley, Lewis C, Blenis, John, Heaton, Nicholas S

“…Multiple coronaviruses have emerged independently in the past 20 years that cause lethal human diseases. Although vaccine development targeting these viruses…”
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Super-resolution orientation estimation and localization of fluorescent dipoles using 3-D steerable filters by Aguet, François, Geissbühler, Stefan, Märki, Iwan, Lasser, Theo, Unser, Michael

“…Fluorophores that are fixed during image acquisition produce a diffraction pattern that is characteristic of the orientation of the fluorophore's underlying…”
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Interaction molecular QTL mapping discovers cellular and environmental modifiers of genetic regulatory effects by Kasela, Silva, Aguet, François, Kim-Hellmuth, Sarah, Brown, Brielin C., Nachun, Daniel C., Tracy, Russell P., Durda, Peter, Liu, Yongmei, Taylor, Kent D., Johnson, W. Craig, Van Den Berg, David, Gabriel, Stacey, Gupta, Namrata, Smith, Joshua D., Blackwell, Thomas W., Rotter, Jerome I., Ardlie, Kristin G., Manichaikul, Ani, Rich, Stephen S., Barr, R. Graham, Lappalainen, Tuuli

“…Bulk-tissue molecular quantitative trait loci (QTLs) have been the starting point for interpreting disease-associated variants, and context-specific QTLs show…”
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FOXR2 Is an Epigenetically Regulated Pan-Cancer Oncogene That Activates ETS Transcriptional Circuits by Tsai, Jessica W, Cejas, Paloma, Wang, Dayle K, Patel, Smruti, Wu, David W, Arounleut, Phonepasong, Wei, Xin, Zhou, Ningxuan, Syamala, Sudeepa, Dubois, Frank P B, Crane, Alexander, Pelton, Kristine, Vogelzang, Jayne, Sousa, Cecilia, Baguette, Audrey, Chen, Xiaolong, Condurat, Alexandra L, Dixon-Clarke, Sarah E, Zhou, Kevin N, Lu, Sophie D, Gonzalez, Elizabeth M, Chacon, Madison S, Digiacomo, Jeromy J, Kumbhani, Rushil, Novikov, Dana, Hunter, J'Ya, Tsoli, Maria, Ziegler, David S, Dirksen, Uta, Jager, Natalie, Balasubramanian, Gnana Prakash, Kramm, Christof M, Nathrath, Michaela, Bielack, Stefan, Baker, Suzanne J, Zhang, Jinghui, McFarland, James M, Getz, Gad, Aguet, François, Jabado, Nada, Witt, Olaf, Pfister, Stefan M, Ligon, Keith L, Hovestadt, Volker, Kleinman, Claudia L, Long, Henry, Jones, David T W, Bandopadhayay, Pratiti, Phoenix, Timothy N

“…Forkhead box R2 (FOXR2) is a forkhead transcription factor located on the X chromosome whose expression is normally restricted to the testis. In this study, we…”
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Gene expression associations with body mass index in the Multi-Ethnic Study of Atherosclerosis by Vargas, Luciana B., Lange, Leslie A., Ferrier, Kendra, Aguet, François, Ardlie, Kristin, Gabriel, Stacey, Gupta, Namrata, Smith, Joshua D., Blackwell, Thomas W., Ding, Jingzhong, Durda, Peter, Tracy, Russell P., Liu, Yongmei, Taylor, Kent D., Craig Johnson, W., Rich, Stephen S., Rotter, Jerome I., Lange, Ethan M., Konigsberg, Iain R.

“…Background/objectives Obesity, defined as excessive fat accumulation that represents a health risk, is increasing in adults and children, reaching global…”
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Protein prediction for trait mapping in diverse populations by Schubert, Ryan, Geoffroy, Elyse, Gregga, Isabelle, Mulford, Ashley J, Aguet, Francois, Ardlie, Kristin, Gerszten, Robert, Clish, Clary, Van Den Berg, David, Taylor, Kent D, Durda, Peter, Johnson, W Craig, Cornell, Elaine, Guo, Xiuqing, Liu, Yongmei, Tracy, Russell, Conomos, Matthew, Blackwell, Tom, Papanicolaou, George, Lappalainen, Tuuli, Mikhaylova, Anna V, Thornton, Timothy A, Cho, Michael H, Gignoux, Christopher R, Lange, Leslie, Lange, Ethan, Rich, Stephen S, Rotter, Jerome I, Manichaikul, Ani, Im, Hae Kyung, Wheeler, Heather E

“…Genetically regulated gene expression has helped elucidate the biological mechanisms underlying complex traits. Improved high-throughput technology allows…”
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Optical imaging using binary sensors by Bourquard, Aurélien, Aguet, François, Unser, Michael

“…This paper addresses the problem of reconstructing an image from 1-bit-quantized measurements, considering a simple but nonconventional optical acquisition…”
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Distinct COPD subtypes in former smokers revealed by gene network perturbation analysis by Buschur, Kristina L, Riley, Craig, Saferali, Aabida, Castaldi, Peter, Zhang, Grace, Aguet, Francois, Ardlie, Kristin G, Durda, Peter, Craig Johnson, W, Kasela, Silva, Liu, Yongmei, Manichaikul, Ani, Rich, Stephen S, Rotter, Jerome I, Smith, Josh, Taylor, Kent D, Tracy, Russell P, Lappalainen, Tuuli, Graham Barr, R, Sciurba, Frank, Hersh, Craig P, Benos, Panayiotis V

“…Chronic obstructive pulmonary disease (COPD) varies significantly in symptomatic and physiologic presentation. Identifying disease subtypes from molecular…”
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Key Interactions for Clathrin Coat Stability by Böcking, Till, Aguet, François, Rapoport, Iris, Banzhaf, Manuel, Yu, Anan, Zeeh, Jean Christophe, Kirchhausen, Tom

“…Clathrin-coated vesicles are major carriers of vesicular traffic in eukaryotic cells. This endocytic pathway relies on cycles of clathrin coat assembly and…”
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RNA sequence analysis reveals macroscopic somatic clonal expansion across normal tissues by Yizhak, Keren, Aguet, François, Kim, Jaegil, Hess, Julian M, Kübler, Kirsten, Grimsby, Jonna, Frazer, Ruslana, Zhang, Hailei, Haradhvala, Nicholas J, Rosebrock, Daniel, Livitz, Dimitri, Li, Xiao, Arich-Landkof, Eila, Shoresh, Noam, Stewart, Chip, Segrè, Ayellet V, Branton, Philip A, Polak, Paz, Ardlie, Kristin G, Getz, Gad

“…How somatic mutations accumulate in normal cells is poorly understood. A comprehensive analysis of RNA sequencing data from ~6700 samples across 29 normal…”
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