Sensitive and specific multi-cancer detection and localization using methylation signatures in cell-free DNA

Autor: M.C. Liu, G.R. Oxnard, E.A. Klein, C. Swanton, M.V. Seiden, Minetta C. Liu, Geoffrey R. Oxnard, Eric A. Klein, David Smith, Donald Richards, Timothy J. Yeatman, Allen L. Cohn, Rosanna Lapham, Jessica Clement, Alexander S. Parker, Mohan K. Tummala, Kristi McIntyre, Mikkael A. Sekeres, Alan H. Bryce, Robert Siegel, Xuezhong Wang, David P. Cosgrove, Nadeem R. Abu-Rustum, Jonathan Trent, David D. Thiel, Carlos Becerra, Manish Agrawal, Lawrence E. Garbo, Jeffrey K. Giguere, Ross M. Michels, Ronald P. Harris, Stephen L. Richey, Timothy A. McCarthy, David M. Waterhouse, Fergus J. Couch, Sharon T. Wilks, Amy K. Krie, Rama Balaraman, Alvaro Restrepo, Michael W. Meshad, Kimberly Rieger-Christ, Travis Sullivan, Christine M. Lee, Daniel R. Greenwald, William Oh, Che-Kai Tsao, Neil Fleshner, Hagen F. Kennecke, Maged F. Khalil, David R. Spigel, Atisha P. Manhas, Brian K. Ulrich, Philip A. Kovoor, Christopher Stokoe, Jay G. Courtright, Habte A. Yimer, Timothy G. Larson, Charles Swanton, Michael V. Seiden, Steven R. Cummings, Farnaz Absalan, Gregory Alexander, Brian Allen, Hamed Amini, Alexander M. Aravanis, Siddhartha Bagaria, Leila Bazargan, John F. Beausang, Jennifer Berman, Craig Betts, Alexander Blocker, Joerg Bredno, Robert Calef, Gordon Cann, Jeremy Carter, Christopher Chang, Hemanshi Chawla, Xiaoji Chen, Tom C. Chien, Daniel Civello, Konstantin Davydov, Vasiliki Demas, Mohini Desai, Zhao Dong, Saniya Fayzullina, Alexander P. Fields, Darya Filippova, Peter Freese, Eric T. Fung, Sante Gnerre, Samuel Gross, Meredith Halks-Miller, Megan P. Hall, Anne-Renee Hartman, Chenlu Hou, Earl Hubbell, Nathan Hunkapiller, Karthik Jagadeesh, Arash Jamshidi, Roger Jiang, Byoungsok Jung, TaeHyung Kim, Richard D. Klausner, Kathryn N. Kurtzman, Mark Lee, Wendy Lin, Jafi Lipson, Hai Liu, Qinwen Liu, Margarita Lopatin, Tara Maddala, M. Cyrus Maher, Collin Melton, Andrea Mich, Shivani Nautiyal, Jonathan Newman, Joshua Newman, Virgil Nicula, Cosmos Nicolaou, Ongjen Nikolic, Wenying Pan, Shilpen Patel, Sarah A. Prins, Richard Rava, Neda Ronaghi, Onur Sakarya, Ravi Vijaya Satya, Jan Schellenberger, Eric Scott, Amy J. Sehnert, Rita Shaknovich, Avinash Shanmugam, K.C. Shashidhar, Ling Shen, Archana Shenoy, Seyedmehdi Shojaee, Pranav Singh, Kristan K. Steffen, Susan Tang, Jonathan M. Toung, Anton Valouev, Oliver Venn, Richard T. Williams, Tony Wu, Hui H. Xu, Christopher Yakym, Xiao Yang, Jessica Yecies, Alexander S. Yip, Jack Youngren, Jeanne Yue, Jingyang Zhang, Lily Zhang, Lori (Quan) Zhang, Nan Zhang, Christina Curtis, Donald A. Berry

Publikováno v: Annals of oncology : official journal of the European Society for Medical Oncology

Background Early cancer detection could identify tumors at a time when outcomes are superior and treatment is less morbid. This prospective case-control sub-study (from NCT02889978 and NCT03085888) assessed the performance of targeted methylation ana

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7b3b4e6c4dc63db12f3e66da9ddf3798
https://doi.org/10.1016/j.annonc.2020.02.011

Abstract LB-343: Development of plasma cell-free DNA (cfDNA) assays for early cancer detection: first insights from the Circulating Cell-Free Genome Atlas Study (CCGA)

Autor: Arash Jamshidi, Timothy J. Yeatman, Tara Maddala, Daniel Civello, Chenlu Hou, Anne-Renee Hartman, Roger Jiang, Rosanna Lapham, Kristan Steffen, Samuel Gross, Craig Betts, Ling Shen, Donald A. Richards, Byoungsok Jung, Seyedmehdi Shojaee, Collin Melton, Onur Sakarya, Hui Xu, Ravi Vijaya Satya, Konstantin Davydov, Jeanne Yue, Geoffrey R. Oxnard, Jonathan Newman, Robert Tibshirani, Cosmos Nicolaou, Earl Hubbell, José Baselga, Shivani Nautiyal, John A. Beausang, David J. Smith, Christina Curtis, Charles Swanton, Hamed Amini, Sante Gnerre, Michael V. Seiden, Darya Filippova, Oliver Venn, Kathryn N. Kurtzman, Saniya Fazullina, Richard P. Rava, Richard J. Williams, Nan Zhang, Eric A. Klein, Alex Aravanis, Joshua Newman, Minetta C. Liu, Daron G. Davis, Anton Valouev, Sylvia K. Plevritis

Publikováno v: Cancer Research. 78:LB-343

CCGA [NCT02889978] is the largest study of cfDNA-based early cancer detection; the first CCGA learnings from multiple cfDNA assays are reported here. This prospective, multi-center, observational study has enrolled 10,012 of 15,000 demographically-ba

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::0a5bea21a2253fd09d1529ebc5a3a417
https://doi.org/10.1158/1538-7445.am2018-lb-343

Natural selection on protein-coding genes in the human genome

Autor: Scott Williamson, Melissa Todd Hubisz, Michele Cargill, Stephen Glanowski, Thomas J. White, Mark Raymond Adams, Andrew G. Clark, Adi Fledel-Alon, David M. Tanenbaum, Ryan D. Hernandez, Carlos Bustamante, Rasmus Nielsen, John J. Sninsky, Daniel Civello

Publikováno v: Nature. 437:1153-1157

Comparisons of DNA polymorphism within species to divergence between species enables the discovery of molecular adaptation in evolutionarily constrained genes as well as the differentiation of weak from strong purifying selection. The extent to which

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9e7d8221c263df403e7ab76d86ed07f2
https://doi.org/10.1038/nature04240

Abstract 5283: Shangri-Docs: a browser based tool for document exploration and automatic knowledge extraction from unstructured biomedical text

Autor: Chris A. Mattmann, Lauren Intagliata, Michael S. Livstone, Daniel Civello, David Ballard, Giuseppe Totaro, Garth McGrath, Paul Ramirez, Shivika Thapar, Jeffrey Long, Nipurn Doshi, Maureen Cronin, Selina Chu

Publikováno v: Cancer Research. 76:5283-5283

Biomedical information is available to research and development scientists as unstructured text in the form of scientific manuscripts and reports published in the literature and elsewhere. Scientists focused on specific research programs are burdened

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::ce8a65a5cf8b2cdd07f7d1ffc7d85f63
https://doi.org/10.1158/1538-7445.am2016-5283

Detailed genetic characterization of the interleukin-23 receptor in psoriasis

Autor: Kristina Callis-Duffin, Steven J. Schrodi, Mark Leppert, Monica Chang, Veronica Garcia, Charlie Rowland, Daniel Civello, Norisada Matsunami, Rhonda C. Brandon, Gerald G. Krueger, Joseph J. Catanese, Ann B. Begovich, Nam Bui, Yonghong Li

Publikováno v: Genes and immunity. 9(6)

Using a multi-tiered, case-control association design, scanning 25 215 gene-centric SNPs, we previously identified two psoriasis susceptibility genes: IL12B and IL23R. These results have recently been confirmed. To better characterize the IL23R psori

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::532323ec4616219bfee5e51be31ce859
https://pubmed.ncbi.nlm.nih.gov/18650833