Workflow enabling deepscale immunopeptidome, proteome, ubiquitylome, phosphoproteome, and acetylome analyses of sample-limited tissues.
Nature Communications
Abelin, Jennifer G JG; Bergstrom, Erik J EJ; Rivera, Keith D KD; Taylor, Hannah B HB; Klaeger, Susan S; Xu, Charles C; Verzani, Eva K EK; Jackson White, C C; Woldemichael, Hilina B HB; Virshup, Maya M; Olive, Meagan E ME; Maynard, Myranda M; Vartany, Stephanie A SA; Allen, Joseph D JD; Phulphagar, Kshiti K; Harry Kane, M M; Rachimi, Suzanna S; Mani, D R DR; Gillette, Michael A MA; Satpathy, Shankha S; Clauser, Karl R KR; Udeshi, Namrata D ND; Carr, Steven A SA
Integrated gene analyses of de novo variants from 46,612 trios with autism and developmental disorders.
Proceedings Of The National Academy Of Sciences Of The United States Of America
Wang, Tianyun T; Kim, Chang N CN; Bakken, Trygve E TE; Gillentine, Madelyn A MA; Henning, Barbara B; Mao, Yafei Y; Gilissen, Christian C; , ; Nowakowski, Tomasz J TJ; Eichler, Evan E EE
Publication Date: 2022-11-15
Variant appearance in text: NRAS: 176C>G; Ala59Gly
Integrating de novo and inherited variants in 42,607 autism cases identifies mutations in new moderate-risk genes.
Nature Genetics
Zhou, Xueya X; Feliciano, Pamela P; Shu, Chang C; Wang, Tianyun T; Astrovskaya, Irina I; Hall, Jacob B JB; Obiajulu, Joseph U JU; Wright, Jessica R JR; Murali, Shwetha C SC; Xu, Simon Xuming SX; Brueggeman, Leo L; Thomas, Taylor R TR; Marchenko, Olena O; Fleisch, Christopher C; Barns, Sarah D SD; Snyder, LeeAnne Green LG; Han, Bing B; Chang, Timothy S TS; Turner, Tychele N TN; Harvey, William T WT; Nishida, Andrew A; O'Roak, Brian J BJ; Geschwind, Daniel H DH; , ; Michaelson, Jacob J JJ; Volfovsky, Natalia N; Eichler, Evan E EE; Shen, Yufeng Y; Chung, Wendy K WK
The Landscape of Actionable Genomic Alterations by Next-Generation Sequencing in Tumor Tissue Versus Circulating Tumor DNA in Chinese Patients With Non-Small Cell Lung Cancer.
TERT promoter hotspot mutations and gene amplification in metaplastic breast cancer.
Npj Breast Cancer
da Silva, Edaise M EM; Selenica, Pier P; Vahdatinia, Mahsa M; Pareja, Fresia F; Da Cruz Paula, Arnaud A; Ferrando, Lorenzo L; Gazzo, Andrea M AM; Dopeso, Higinio H; Ross, Dara S DS; Bakhteri, Ariya A; Riaz, Nadeem N; Chandarlapaty, Sarat S; Razavi, Pedram P; Norton, Larry L; Wen, Hannah Y HY; Brogi, Edi E; Weigelt, Britta B; Zhang, Hong H; Reis-Filho, Jorge S JS
Outcomes in oncogenic-addicted advanced NSCLC patients with actionable mutations identified by liquid biopsy genomic profiling using a tagged amplicon-based NGS assay.
Plos One
Remon, Jordi J; Swalduz, Aurelie A; Planchard, David D; Ortiz-Cuaran, Sandra S; Mezquita, Laura L; Lacroix, Ludovic L; Jovelet, Cecile C; Rouleau, Etienne E; Leonce, Camille C; De Kievit, Frank F; Morris, Clive C; Jones, Greg G; Mercier, Kelly K; Howarth, Karen K; Green, Emma E; Pérol, Maurice M; Saintigny, Pierre P; Besse, Benjamin B
A large peptidome dataset improves HLA class I epitope prediction across most of the human population.
Nature Biotechnology
Sarkizova, Siranush S; Klaeger, Susan S; Le, Phuong M PM; Li, Letitia W LW; Oliveira, Giacomo G; Keshishian, Hasmik H; Hartigan, Christina R CR; Zhang, Wandi W; Braun, David A DA; Ligon, Keith L KL; Bachireddy, Pavan P; Zervantonakis, Ioannis K IK; Rosenbluth, Jennifer M JM; Ouspenskaia, Tamara T; Law, Travis T; Justesen, Sune S; Stevens, Jonathan J; Lane, William J WJ; Eisenhaure, Thomas T; Lan Zhang, Guang G; Clauser, Karl R KR; Hacohen, Nir N; Carr, Steven A SA; Wu, Catherine J CJ; Keskin, Derin B DB
Clinical validation of the next-generation sequencing-based Extended RAS Panel assay using metastatic colorectal cancer patient samples from the phase 3 PRIME study.
Journal Of Cancer Research And Clinical Oncology
Udar, Nitin N; Lofton-Day, Catherine C; Dong, Jun J; Vavrek, Darcy D; Jung, A Scott AS; Meier, Kristen K; Iyer, Anita A; Slaughter, Ryan R; Gutekunst, Karen K; Bach, Bruce A BA; Peeters, Marc M; Douillard, Jean-Yves JY
Analytical Validation of a Hybrid Capture-Based Next-Generation Sequencing Clinical Assay for Genomic Profiling of Cell-Free Circulating Tumor DNA.
The Journal Of Molecular Diagnostics : Jmd
Clark, Travis A TA; Chung, Jon H JH; Kennedy, Mark M; Hughes, Jason D JD; Chennagiri, Niru N; Lieber, Daniel S DS; Fendler, Bernard B; Young, Lauren L; Zhao, Mandy M; Coyne, Michael M; Breese, Virginia V; Young, Geneva G; Donahue, Amy A; Pavlick, Dean D; Tsiros, Alyssa A; Brennan, Timothy T; Zhong, Shan S; Mughal, Tariq T; Bailey, Mark M; He, Jie J; Roels, Steven S; Frampton, Garrett M GM; Spoerke, Jill M JM; Gendreau, Steven S; Lackner, Mark M; Schleifman, Erica E; Peters, Eric E; Ross, Jeffrey S JS; Ali, Siraj M SM; Miller, Vincent A VA; Gregg, Jeffrey P JP; Stephens, Philip J PJ; Welsh, Allison A; Otto, Geoff A GA; Lipson, Doron D
Integrated genomic analyses reveal frequent TERT aberrations in acral melanoma.
Genome Research
Liang, Winnie S WS; Hendricks, William W; Kiefer, Jeffrey J; Schmidt, Jessica J; Sekar, Shobana S; Carpten, John J; Craig, David W DW; Adkins, Jonathan J; Cuyugan, Lori L; Manojlovic, Zarko Z; Halperin, Rebecca F RF; Helland, Adrienne A; Nasser, Sara S; Legendre, Christophe C; Hurley, Laurence H LH; Sivaprakasam, Karthigayini K; Johnson, Douglas B DB; Crandall, Holly H; Busam, Klaus J KJ; Zismann, Victoria V; Deluca, Valerie V; Lee, Jeeyun J; Sekulic, Aleksandar A; Ariyan, Charlotte E CE; Sosman, Jeffrey J; Trent, Jeffrey J