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
Circulating Tumor DNA Monitoring Reveals Molecular Progression before Radiologic Progression in a Real-life Cohort of Patients with Advanced Non-small Cell Lung Cancer.
Cancer Research Communications
Frank, Malene S MS; Andersen, Christina S A CSA; Ahlborn, Lise B LB; Pallisgaard, Niels N; Bodtger, Uffe U; Gehl, Julie J
Whole-exome Sequencing of Nigerian Prostate Tumors from the Prostate Cancer Transatlantic Consortium (CaPTC) Reveals DNA Repair Genes Associated with African Ancestry.
Cancer Research Communications
White, Jason A JA; Kaninjing, Ernest T ET; Adeniji, Kayode A KA; Jibrin, Paul P; Obafunwa, John O JO; Ogo, Chidiebere N CN; Mohammed, Faruk F; Popoola, Ademola A; Fatiregun, Omolara A OA; Oluwole, Olabode P OP; Karanam, Balasubramanyam B; Elhussin, Isra I; Ambs, Stefan S; Tang, Wei W; Davis, Melissa M; Polak, Paz P; Campbell, Moray J MJ; Brignole, Kathryn R KR; Rotimi, Solomon O SO; Dean-Colomb, Windy W; Odedina, Folake T FT; Martin, Damali N DN; Yates, Clayton C
Publication Date: 2022-09
Variant appearance in text: BRAF: 1803A>C; Lys601Asn; rs121913365
Network expansion of genetic associations defines a pleiotropy map of human cell biology.
Nature Genetics
Barrio-Hernandez, Inigo I; Schwartzentruber, Jeremy J; Shrivastava, Anjali A; Del-Toro, Noemi N; Gonzalez, Asier A; Zhang, Qian Q; Mountjoy, Edward E; Suveges, Daniel D; Ochoa, David D; Ghoussaini, Maya M; Bradley, Glyn G; Hermjakob, Henning H; Orchard, Sandra S; Dunham, Ian I; Anderson, Carl A CA; Porras, Pablo P; Beltrao, Pedro P
Publication Date: 2023-02-23
Variant appearance in text: BRAF: 1803A>C; Lys601Asn
The mutational landscape of cancer's vulnerability to ionizing radiation.
Clinical Cancer Research : An Official Journal Of The American Association For Cancer Research
Gopal, Priyanka P; Yard, Brian D BD; Petty, Aaron A; Lal, Jessica C JC; Bera, Titas K TK; Hoang, Trung Q TQ; Buhimschi, Alexandru B AB; Abazeed, Mohamed E ME
Case report: Spindle cell neoplasm presenting as a spontaneous intestinal perforation in a term infant.
Frontiers In Pediatrics
Callaghan, Lauren T LT; Lafreniere, Anthea A; Onwuka, Ekene A EA; Beckman, Ross M RM; Foster, Jennifer H JH; Quintanilla, Norma N; Guillory, Charleta C; Lee, Timothy C TC; Cheng, Lily S LS
Genome-wide analyses of 200,453 individuals yield new insights into the causes and consequences of clonal hematopoiesis.
Nature Genetics
Kar, Siddhartha P SP; Quiros, Pedro M PM; Gu, Muxin M; Jiang, Tao T; Mitchell, Jonathan J; Langdon, Ryan R; Iyer, Vivek V; Barcena, Clea C; Vijayabaskar, M S MS; Fabre, Margarete A MA; Carter, Paul P; Petrovski, Slavé S; Burgess, Stephen S; Vassiliou, George S GS
Clinical genomic profiling in the management of patients with soft tissue and bone sarcoma.
Nature Communications
Gounder, Mrinal M MM; Agaram, Narasimhan P NP; Trabucco, Sally E SE; Robinson, Victoria V; Ferraro, Richard A RA; Millis, Sherri Z SZ; Krishnan, Anita A; Lee, Jessica J; Attia, Steven S; Abida, Wassim W; Drilon, Alexander A; Chi, Ping P; Angelo, Sandra P D' SP; Dickson, Mark A MA; Keohan, Mary Lou ML; Kelly, Ciara M CM; Agulnik, Mark M; Chawla, Sant P SP; Choy, Edwin E; Chugh, Rashmi R; Meyer, Christian F CF; Myer, Parvathi A PA; Moore, Jessica L JL; Okimoto, Ross A RA; Pollock, Raphael E RE; Ravi, Vinod V; Singh, Arun S AS; Somaiah, Neeta N; Wagner, Andrew J AJ; Healey, John H JH; Frampton, Garrett M GM; Venstrom, Jeffrey M JM; Ross, Jeffrey S JS; Ladanyi, Marc M; Singer, Samuel S; Brennan, Murray F MF; Schwartz, Gary K GK; Lazar, Alexander J AJ; Thomas, David M DM; Maki, Robert G RG; Tap, William D WD; Ali, Siraj M SM; Jin, Dexter X DX
Combined exome and transcriptome sequencing of non-muscle-invasive bladder cancer: associations between genomic changes, expression subtypes, and clinical outcomes.
Genome Medicine
Goel, Anshita A; Ward, Douglas G DG; Noyvert, Boris B; Yu, Minghao M; Gordon, Naheema S NS; Abbotts, Ben B; Colbourne, John K JK; Kissane, Stephen S; James, Nicholas D ND; Zeegers, Maurice P MP; Cheng, Kar Keung KK; Cazier, Jean-Baptiste JB; Whalley, Celina M CM; Beggs, Andrew D AD; Palles, Claire C; Arnold, Roland R; Bryan, Richard T RT
Publication Date: 2022-06-03
Variant appearance in text: BRAF: 1803A>C; Lys601Asn; rs121913365
Results of screening in early and advanced thoracic malignancies in the EORTC pan-European SPECTAlung platform.
Scientific Reports
Morfouace, M M; Novello, S S; Stevovic, A A; Dooms, C C; Janžič, U U; Berghmans, T T; Dziadziuszko, R R; Gorlia, T T; Felip, E E; Paz-Ares, L L; Mazieres, J J; O'Brien, M M; Bironzo, P P; Vansteenkiste, J J; Lacroix, L L; Dingemans, A C AC; Golfinopoulos, V V; Besse, B B
Identification of FDA-approved bifonazole as a SARS-CoV-2 blocking agent following a bioreporter drug screen.
Molecular Therapy : The Journal Of The American Society Of Gene Therapy
Taha, Zaid Z; Arulanandam, Rozanne R; Maznyi, Glib G; Godbout, Elena E; Carter-Timofte, Madalina E ME; Kurmasheva, Naziia N; Reinert, Line S LS; Chen, Andrew A; Crupi, Mathieu J F MJF; Boulton, Stephen S; Laroche, Geneviève G; Phan, Alexandra A; Rezaei, Reza R; Alluqmani, Nouf N; Jirovec, Anna A; Acal, Alexandra A; Brown, Emily E F EEF; Singaravelu, Ragunath R; Petryk, Julia J; Idorn, Manja M; Potts, Kyle G KG; Todesco, Hayley H; John, Cini C; Mahoney, Douglas J DJ; Ilkow, Carolina S CS; Giguère, Patrick P; Alain, Tommy T; Côté, Marceline M; Paludan, Søren R SR; Olagnier, David D; Bell, John C JC; Azad, Taha T; Diallo, Jean-Simon JS
Monitoring of Leukemia Clones in B-cell Acute Lymphoblastic Leukemia at Diagnosis and During Treatment by Single-cell DNA Amplicon Sequencing.
Hemasphere
Meyers, Sarah S; Alberti-Servera, Llucia L; Gielen, Olga O; Erard, Margot M; Swings, Toon T; De Bie, Jolien J; Michaux, Lucienne L; Dewaele, Barbara B; Boeckx, Nancy N; Uyttebroeck, Anne A; De Keersmaecker, Kim K; Maertens, Johan J; Segers, Heidi H; Cools, Jan J; Demeyer, Sofie S
Publication Date: 2022-04
Variant appearance in text: BRAF: 1803A>C; K601N; rs121913365
Combined MEK/MDM2 inhibition demonstrates antitumor efficacy in TP53 wild-type thyroid and colorectal cancers with MAPK alterations.
Scientific Reports
Pairawan, Seyed S; Akcakanat, Argun A; Kopetz, Scott S; Tapia, Coya C; Zheng, Xiaofeng X; Chen, Huiqin H; Ha, Min Jin MJ; Rizvi, Yasmeen Y; Holla, Vijaykumar V; Wang, Jing J; Evans, Kurt W KW; Zhao, Ming M; Busaidy, Naifa N; Fang, Bingliang B; Roth, Jack A JA; Dumbrava, Ecaterina Ileana EI; Meric-Bernstam, Funda F
Combined MEK/MDM2 inhibition demonstrates antitumor efficacy in TP53 wild-type thyroid and colorectal cancers with MAPK alterations.
Scientific Reports
Pairawan, Seyed S; Akcakanat, Argun A; Kopetz, Scott S; Tapia, Coya C; Zheng, Xiaofeng X; Chen, Huiqin H; Ha, Min Jin MJ; Rizvi, Yasmeen Y; Holla, Vijaykumar V; Wang, Jing J; Evans, Kurt W KW; Zhao, Ming M; Busaidy, Naifa N; Fang, Bingliang B; Roth, Jack A JA; Dumbrava, Ecaterina Ileana EI; Meric-Bernstam, Funda F
Molecular characterization of Kita-Kyushu lung cancer antigen (KK-LC-1) expressing carcinomas.
Oncotarget
Hsu, Robert R; Baca, Yasmine Y; Xiu, Joanne J; Wang, Rongfu R; Bodor, J Nicholas JN; Kim, Chul C; Khan, Hina H; Mamdani, Hirva H; Nagasaka, Misako M; Puri, Sonam S; Liu, Stephen V SV; Korn, W Michael WM; Nieva, Jorge J JJ
BRAF Signaling Inhibition in Glioblastoma: Which Clinical Perspectives?
Frontiers In Oncology
Bouchè, Victoria V; Aldegheri, Giovanni G; Donofrio, Carmine Antonio CA; Fioravanti, Antonio A; Roberts-Thomson, Samuel S; Fox, Stephen B SB; Schettini, Francesco F; Generali, Daniele D
Grade 4 Neutropenia Secondary to Immune Checkpoint Inhibition - A Descriptive Observational Retrospective Multicenter Analysis.
Frontiers In Oncology
Zaremba, Anne A; Kramer, Rafaela R; De Temple, Viola V; Bertram, Stefanie S; Salzmann, Martin M; Gesierich, Anja A; Reinhardt, Lydia L; Baroudjian, Barouyr B; Sachse, Michael M MM; Mechtersheimer, Gunhild G; Johnson, Douglas B DB; Weppler, Alison M AM; Spain, Lavinia L; Loquai, Carmen C; Dudda, Milena M; Pföhler, Claudia C; Hepner, Adriana A; Long, Georgina V GV; Menzies, Alexander M AM; Carlino, Matteo S MS; Lebbé, Céleste C; Enokida, Tomohiro T; Tahara, Makoto M; Bröckelmann, Paul J PJ; Eigentler, Thomas T; Kähler, Katharina C KC; Gutzmer, Ralf R; Berking, Carola C; Ugurel, Selma S; Stadtler, Nadine N; Sucker, Antje A; Becker, Jürgen C JC; Livingstone, Elisabeth E; Meier, Friedegund F; Hassel, Jessica C JC; Schadendorf, Dirk D; Hanoun, Maher M; Heinzerling, Lucie L; Zimmer, Lisa L
RAC1 Alterations Induce Acquired Dabrafenib Resistance in Association with Anaplastic Transformation in a Papillary Thyroid Cancer Patient.
Cancers
Bagheri-Yarmand, Rozita R; Busaidy, Naifa L NL; McBeath, Elena E; Danysh, Brian P BP; Evans, Kurt W KW; Moss, Tyler J TJ; Akcakanat, Argun A; Ng, Patrick K S PKS; Knippler, Christina M CM; Golden, Jalyn A JA; Williams, Michelle D MD; Multani, Asha S AS; Cabanillas, Maria E ME; Shaw, Kenna R KR; Meric-Bernstam, Funda F; Shah, Manisha H MH; Ringel, Matthew D MD; Hofmann, Marie Claude MC
Targeted Therapy of Papillary Thyroid Cancer: A Comprehensive Genomic Analysis.
Frontiers In Endocrinology
Hescheler, Daniel A DA; Riemann, Burkhard B; Hartmann, Milan J M MJM; Michel, Maximilian M; Faust, Michael M; Bruns, Christiane J CJ; Alakus, Hakan H; Chiapponi, Costanza C
BRAF mutation correlates with worse local-regional control following radiation therapy in patients with stage III melanoma.
Radiation Oncology (London, England)
Wolfe, Adam R AR; Chablani, Priyanka P; Siedow, Michael R MR; Miller, Eric D ED; Walston, Steve S; Kendra, Kari L KL; Wuthrick, Evan E; Williams, Terence M TM
Retrospective Case Series Analysis of RAF Family Alterations in Pancreatic Cancer: Real-World Outcomes From Targeted and Standard Therapies.
Jco Precision Oncology
Hendifar, Andrew A; Blais, Edik M EM; Wolpin, Brian B; Subbiah, Vivek V; Collisson, Eric E; Singh, Isha I; Cannon, Timothy T; Shaw, Kenna K; Petricoin, Emanuel F EF; Klempner, Samuel S; Lyons, Emily E; Wang-Gillam, Andrea A; Pishvaian, Michael J MJ; O'Reilly, Eileen M EM
Early plasma circulating tumor DNA (ctDNA) changes predict response to first-line pembrolizumab-based therapy in non-small cell lung cancer (NSCLC).
Journal For Immunotherapy Of Cancer
Ricciuti, Biagio B; Jones, Greg G; Severgnini, Mariano M; Alessi, Joao V JV; Recondo, Gonzalo G; Lawrence, Marissa M; Forshew, Tim T; Lydon, Christine C; Nishino, Mizuki M; Cheng, Michael M; Awad, Mark M
Assessment of RAS Dependency for BRAF Alterations Using Cancer Genomic Databases.
Jama Network Open
Zhao, Yiqing Y; Yu, Hanzhong H; Ida, Cris M CM; Halling, Kevin C KC; Kipp, Benjamin R BR; Geiersbach, Katherine K; Rumilla, Kandelaria M KM; Gupta, Sounak S; Lin, Ming-Tseh MT; Zheng, Gang G
Effectiveness of Molecular Testing Techniques for Diagnosis of Indeterminate Thyroid Nodules: A Randomized Clinical Trial.
Jama Oncology
Livhits, Masha J MJ; Zhu, Catherine Y CY; Kuo, Eric J EJ; Nguyen, Dalena T DT; Kim, Jiyoon J; Tseng, Chi-Hong CH; Leung, Angela M AM; Rao, Jianyu J; Levin, Mary M; Douek, Michael L ML; Beckett, Katrina R KR; Cheung, Dianne S DS; Gofnung, Yaroslav A YA; Smooke-Praw, Stephanie S; Yeh, Michael W MW
Inherited causes of clonal haematopoiesis in 97,691 whole genomes.
Nature
Bick, Alexander G AG; Weinstock, Joshua S JS; Nandakumar, Satish K SK; Fulco, Charles P CP; Bao, Erik L EL; Zekavat, Seyedeh M SM; Szeto, Mindy D MD; Liao, Xiaotian X; Leventhal, Matthew J MJ; Nasser, Joseph J; Chang, Kyle K; Laurie, Cecelia C; Burugula, Bala Bharathi BB; Gibson, Christopher J CJ; Lin, Amy E AE; Taub, Margaret A MA; Aguet, Francois F; Ardlie, Kristin K; Mitchell, Braxton D BD; Barnes, Kathleen C KC; Moscati, Arden A; Fornage, Myriam M; Redline, Susan S; Psaty, Bruce M BM; Silverman, Edwin K EK; Weiss, Scott T ST; Palmer, Nicholette D ND; Vasan, Ramachandran S RS; Burchard, Esteban G EG; Kardia, Sharon L R SLR; He, Jiang J; Kaplan, Robert C RC; Smith, Nicholas L NL; Arnett, Donna K DK; Schwartz, David A DA; Correa, Adolfo A; de Andrade, Mariza M; Guo, Xiuqing X; Konkle, Barbara A BA; Custer, Brian B; Peralta, Juan M JM; Gui, Hongsheng H; Meyers, Deborah A DA; McGarvey, Stephen T ST; Chen, Ida Yii-Der IY; Shoemaker, M Benjamin MB; Peyser, Patricia A PA; Broome, Jai G JG; Gogarten, Stephanie M SM; Wang, Fei Fei FF; Wong, Quenna Q; Montasser, May E ME; Daya, Michelle M; Kenny, Eimear E EE; North, Kari E KE; Launer, Lenore J LJ; Cade, Brian E BE; Bis, Joshua C JC; Cho, Michael H MH; Lasky-Su, Jessica J; Bowden, Donald W DW; Cupples, L Adrienne LA; Mak, Angel C Y ACY; Becker, Lewis C LC; Smith, Jennifer A JA; Kelly, Tanika N TN; Aslibekyan, Stella S; Heckbert, Susan R SR; Tiwari, Hemant K HK; Yang, Ivana V IV; Heit, John A JA; Lubitz, Steven A SA; Johnsen, Jill M JM; Curran, Joanne E JE; Wenzel, Sally E SE; Weeks, Daniel E DE; Rao, Dabeeru C DC; Darbar, Dawood D; Moon, Jee-Young JY; Tracy, Russell P RP; Buth, Erin J EJ; Rafaels, Nicholas N; Loos, Ruth J F RJF; Durda, Peter P; Liu, Yongmei Y; Hou, Lifang L; Lee, Jiwon J; Kachroo, Priyadarshini P; Freedman, Barry I BI; Levy, Daniel D; Bielak, Lawrence F LF; Hixson, James E JE; Floyd, James S JS; Whitsel, Eric A EA; Ellinor, Patrick T PT; Irvin, Marguerite R MR; Fingerlin, Tasha E TE; Raffield, Laura M LM; Armasu, Sebastian M SM; Wheeler, Marsha M MM; Sabino, Ester C EC; Blangero, John J; Williams, L Keoki LK; Levy, Bruce D BD; Sheu, Wayne Huey-Herng WH; Roden, Dan M DM; Boerwinkle, Eric E; Manson, JoAnn E JE; Mathias, Rasika A RA; Desai, Pinkal P; Taylor, Kent D KD; Johnson, Andrew D AD; , ; Auer, Paul L PL; Kooperberg, Charles C; Laurie, Cathy C CC; Blackwell, Thomas W TW; Smith, Albert V AV; Zhao, Hongyu H; Lange, Ethan E; Lange, Leslie L; Rich, Stephen S SS; Rotter, Jerome I JI; Wilson, James G JG; Scheet, Paul P; Kitzman, Jacob O JO; Lander, Eric S ES; Engreitz, Jesse M JM; Ebert, Benjamin L BL; Reiner, Alexander P AP; Jaiswal, Siddhartha S; Abecasis, Gonçalo G; Sankaran, Vijay G VG; Kathiresan, Sekar S; Natarajan, Pradeep P