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
Genomic Alterations Identification and Resistance Mechanisms Exploration of NSCLC With Central Nervous System Metastases Using Liquid Biopsy of Cerebrospinal Fluid: A Real-World Study.
Frontiers In Oncology
Shen, Fangfang F; Liang, Naixin N; Fan, Zaiwen Z; Zhao, Min M; Kang, Jing J; Wang, Xifang X; Hu, Qun Q; Mu, Yongping Y; Wang, Kai K; Yuan, Mingming M; Chen, Rongrong R; Guo, Wei W; Dong, Guilan G; Zhao, Jun J; Bai, Jun J
Publication Date: 2022
Variant appearance in text: CTNNB1: 1004A>C; K335T
Hepatocellular carcinoma patients with high circulating cytotoxic T cells and intra-tumoral immune signature benefit from pembrolizumab: results from a single-arm phase 2 trial.
Genome Medicine
Hong, Jung Yong JY; Cho, Hee Jin HJ; Sa, Jason K JK; Liu, Xiaoqiao X; Ha, Sang Yun SY; Lee, Taehyang T; Kim, Hajung H; Kang, Wonseok W; Sinn, Dong Hyun DH; Gwak, Geum-Youn GY; Choi, Moon Seok MS; Lee, Joon Hyeok JH; Koh, Kwang Cheol KC; Paik, Seung Woon SW; Park, Hee Chul HC; Kang, Tae Wook TW; Rhim, Hyunchul H; Lee, Su Jin SJ; Cristescu, Razvan R; Lee, Jeeyun J; Paik, Yong Han YH; Lim, Ho Yeong HY
Publication Date: 2022-01-06
Variant appearance in text: CTNNB1: 1004A>C; K335T
Hepatocellular carcinoma patients with high circulating cytotoxic T cells and intra-tumoral immune signature benefit from pembrolizumab: results from a single-arm phase 2 trial.
Genome Medicine
Hong, Jung Yong JY; Cho, Hee Jin HJ; Sa, Jason K JK; Liu, Xiaoqiao X; Ha, Sang Yun SY; Lee, Taehyang T; Kim, Hajung H; Kang, Wonseok W; Sinn, Dong Hyun DH; Gwak, Geum-Youn GY; Choi, Moon Seok MS; Lee, Joon Hyeok JH; Koh, Kwang Cheol KC; Paik, Seung Woon SW; Park, Hee Chul HC; Kang, Tae Wook TW; Rhim, Hyunchul H; Lee, Su Jin SJ; Cristescu, Razvan R; Lee, Jeeyun J; Paik, Yong Han YH; Lim, Ho Yeong HY
Publication Date: 2022-01-06
Variant appearance in text: CTNNB1: 1004A>C; K335T
Targeted Next-Generation Sequencing Combined With Circulating-Free DNA Deciphers Spatial Heterogeneity of Resected Multifocal Hepatocellular Carcinoma.
Frontiers In Immunology
Lin, Jianzhen J; Zhao, Songhui S; Wang, Dongxu D; Song, Yang Y; Che, Yue Y; Yang, Xu X; Mao, Jinzhu J; Xie, Fucun F; Long, Junyu J; Bai, Yi Y; Yang, Xiaobo X; Zhang, Lei L; Bian, Jin J; Lu, Xin X; Sang, Xinting X; Pan, Jie J; Wang, Kai K; Zhao, Haitao H
Spatially interacting phosphorylation sites and mutations in cancer.
Nature Communications
Huang, Kuan-Lin KL; Scott, Adam D AD; Zhou, Daniel Cui DC; Wang, Liang-Bo LB; Weerasinghe, Amila A; Elmas, Abdulkadir A; Liu, Ruiyang R; Wu, Yige Y; Wendl, Michael C MC; Wyczalkowski, Matthew A MA; Baral, Jessika J; Sengupta, Sohini S; Lai, Chin-Wen CW; Ruggles, Kelly K; Payne, Samuel H SH; Raphael, Benjamin B; Fenyö, David D; Chen, Ken K; Mills, Gordon G; Ding, Li L
Chromosome 2q gain and epigenetic silencing of GATA3 in microglandular adenosis of the breast.
The Journal Of Pathology. Clinical Research
Radner, Martin M; van Luttikhuizen, Jana Lisa JL; Bartels, Stephan S; Bublitz, Janin J; Grote, Isabel I; Rieger, Luisa L; Christgen, Henriette H; Stark, Helge H; Werlein, Christopher C; Lafos, Marcel M; Steinemann, Doris D; Lehmann, Ulrich U; Christgen, Matthias M; Kreipe, Hans H
Chromosome 2q gain and epigenetic silencing of GATA3 in microglandular adenosis of the breast.
The Journal Of Pathology. Clinical Research
Radner, Martin M; van Luttikhuizen, Jana Lisa JL; Bartels, Stephan S; Bublitz, Janin J; Grote, Isabel I; Rieger, Luisa L; Christgen, Henriette H; Stark, Helge H; Werlein, Christopher C; Lafos, Marcel M; Steinemann, Doris D; Lehmann, Ulrich U; Christgen, Matthias M; Kreipe, Hans H
A risk-associated Active transcriptome phenotype expressed by histologically normal human breast tissue and linked to a pro-tumorigenic adipocyte population.
Breast Cancer Research : Bcr
Kang, Taekyu T; Yau, Christina C; Wong, Christopher K CK; Sanborn, John Z JZ; Newton, Yulia Y; Vaske, Charlie C; Benz, Stephen C SC; Krings, Gregor G; Camarda, Roman R; Henry, Jill E JE; Stuart, Josh J; Powell, Mark M; Benz, Christopher C CC
Publication Date: 2020-07-31
Variant appearance in text: CTNNB1: 1004A>C; K335T
Landscape of somatic single nucleotide variants and indels in colorectal cancer and impact on survival.
Nature Communications
Zaidi, Syed H SH; Harrison, Tabitha A TA; Phipps, Amanda I AI; Steinfelder, Robert R; Trinh, Quang M QM; Qu, Conghui C; Banbury, Barbara L BL; Georgeson, Peter P; Grasso, Catherine S CS; Giannakis, Marios M; Adams, Jeremy B JB; Alwers, Elizabeth E; Amitay, Efrat L EL; Barfield, Richard T RT; Berndt, Sonja I SI; Borozan, Ivan I; Brenner, Hermann H; Brezina, Stefanie S; Buchanan, Daniel D DD; Cao, Yin Y; Chan, Andrew T AT; Chang-Claude, Jenny J; Connolly, Charles M CM; Drew, David A DA; Farris, Alton Brad AB; Figueiredo, Jane C JC; French, Amy J AJ; Fuchs, Charles S CS; Garraway, Levi A LA; Gruber, Steve S; Guinter, Mark A MA; Hamilton, Stanley R SR; Harlid, Sophia S; Heisler, Lawrence E LE; Hidaka, Akihisa A; Hopper, John L JL; Huang, Wen-Yi WY; Huyghe, Jeroen R JR; Jenkins, Mark A MA; Krzyzanowski, Paul M PM; Lemire, Mathieu M; Lin, Yi Y; Luo, Xuemei X; Mardis, Elaine R ER; McPherson, John D JD; Miller, Jessica K JK; Moreno, Victor V; Mu, Xinmeng Jasmine XJ; Nishihara, Reiko R; Papadopoulos, Nickolas N; Pasternack, Danielle D; Quist, Michael J MJ; Rafikova, Adilya A; Reid, Emma E G EEG; Shinbrot, Eve E; Shirts, Brian H BH; Stein, Lincoln D LD; Teney, Cherie D CD; Timms, Lee L; Um, Caroline Y CY; Van Guelpen, Bethany B; Van Tassel, Megan M; Wang, Xiaolong X; Wheeler, David A DA; Yung, Christina K CK; Hsu, Li L; Ogino, Shuji S; Gsur, Andrea A; Newcomb, Polly A PA; Gallinger, Steven S; Hoffmeister, Michael M; Campbell, Peter T PT; Thibodeau, Stephen N SN; Sun, Wei W; Hudson, Thomas J TJ; Peters, Ulrike U
mTOR Signaling and SREBP Activity Increase FADS2 Expression and Can Activate Sapienate Biosynthesis.
Cell Reports
Triki, Mouna M; Rinaldi, Gianmarco G; Planque, Melanie M; Broekaert, Dorien D; Winkelkotte, Alina M AM; Maier, Carina R CR; Janaki Raman, Sudha S; Vandekeere, Anke A; Van Elsen, Joke J; Orth, Martin F MF; Grünewald, Thomas G P TGP; Schulze, Almut A; Fendt, Sarah-Maria SM
Oncogenic Mutations in Armadillo Repeats 5 and 6 of β-Catenin Reduce Binding to APC, Increasing Signaling and Transcription of Target Genes.
Gastroenterology
Liu, Pengyu P; Liang, Binyong B; Liu, Menggang M; Lebbink, Joyce H G JHG; Li, Shan S; Qian, Manning M; Lavrijsen, Marla M; Peppelenbosch, Maikel P MP; Chen, Xin X; Smits, Ron R
An integrated genomic analysis of anaplastic meningioma identifies prognostic molecular signatures.
Scientific Reports
Collord, Grace G; Tarpey, Patrick P; Kurbatova, Natalja N; Martincorena, Inigo I; Moran, Sebastian S; Castro, Manuel M; Nagy, Tibor T; Bignell, Graham G; Maura, Francesco F; Young, Matthew D MD; Berna, Jorge J; Tubio, Jose M C JMC; McMurran, Chris E CE; Young, Adam M H AMH; Sanders, Mathijs M; Noorani, Imran I; Price, Stephen J SJ; Watts, Colin C; Leipnitz, Elke E; Kirsch, Matthias M; Schackert, Gabriele G; Pearson, Danita D; Devadass, Abel A; Ram, Zvi Z; Collins, V Peter VP; Allinson, Kieren K; Jenkinson, Michael D MD; Zakaria, Rasheed R; Syed, Khaja K; Hanemann, C Oliver CO; Dunn, Jemma J; McDermott, Michael W MW; Kirollos, Ramez W RW; Vassiliou, George S GS; Esteller, Manel M; Behjati, Sam S; Brazma, Alvis A; Santarius, Thomas T; McDermott, Ultan U
Applied diagnostics in liver cancer. Efficient combinations of sorafenib with targeted inhibitors blocking AKT/mTOR.
Oncotarget
Llerena, Susana S; García-Díaz, Nuria N; Curiel-Olmo, Soraya S; Agraz-Doblas, Antonio A; García-Blanco, Agustín A; Pisonero, Helena H; Varela, María M; Santibáñez, Miguel M; Almaraz, Carmen C; Cereceda, Laura L; Martínez, Nerea N; Arias-Loste, María Teresa MT; Puente, Ángela Á; Martín-Ramos, Luis L; de Lope, Carlos Rodríguez CR; Castillo-Suescun, Federico F; Cagigas-Fernandez, Carmen C; Isidro, Pablo P; Lopez-López, Carlos C; Lopez-Hoyos, Marcos M; Llorca, Javier J; Agüero, Jesús J; Crespo-Facorro, Benedicto B; Varela, Ignacio I; Piris, Miguel Ángel MÁ; Crespo, Javier J; Vaqué, José Pedro JP
Pan-cancer genome and transcriptome analyses of 1,699 paediatric leukaemias and solid tumours.
Nature
Ma, Xiaotu X; Liu, Yu Y; Liu, Yanling Y; Alexandrov, Ludmil B LB; Edmonson, Michael N MN; Gawad, Charles C; Zhou, Xin X; Li, Yongjin Y; Rusch, Michael C MC; Easton, John J; Huether, Robert R; Gonzalez-Pena, Veronica V; Wilkinson, Mark R MR; Hermida, Leandro C LC; Davis, Sean S; Sioson, Edgar E; Pounds, Stanley S; Cao, Xueyuan X; Ries, Rhonda E RE; Wang, Zhaoming Z; Chen, Xiang X; Dong, Li L; Diskin, Sharon J SJ; Smith, Malcolm A MA; Guidry Auvil, Jaime M JM; Meltzer, Paul S PS; Lau, Ching C CC; Perlman, Elizabeth J EJ; Maris, John M JM; Meshinchi, Soheil S; Hunger, Stephen P SP; Gerhard, Daniela S DS; Zhang, Jinghui J
Comprehensive screening of target molecules by next-generation sequencing in patients with malignant solid tumors: guiding entry into phase I clinical trials.
Genetic analysis of microglandular adenosis and acinic cell carcinomas of the breast provides evidence for the existence of a low-grade triple-negative breast neoplasia family.
Modern Pathology : An Official Journal Of The United States And Canadian Academy Of Pathology, Inc
Geyer, Felipe C FC; Berman, Samuel H SH; Marchiò, Caterina C; Burke, Kathleen A KA; Guerini-Rocco, Elena E; Piscuoglio, Salvatore S; Ng, Charlotte Ky CK; Pareja, Fresia F; Wen, Hannah Y HY; Hodi, Zoltan Z; Schnitt, Stuart J SJ; Rakha, Emad A EA; Ellis, Ian O IO; Norton, Larry L; Weigelt, Britta B; Reis-Filho, Jorge S JS
Genomic Correlates of Immune-Cell Infiltrates in Colorectal Carcinoma.
Cell Reports
Giannakis, Marios M; Mu, Xinmeng Jasmine XJ; Shukla, Sachet A SA; Qian, Zhi Rong ZR; Cohen, Ofir O; Nishihara, Reiko R; Bahl, Samira S; Cao, Yin Y; Amin-Mansour, Ali A; Yamauchi, Mai M; Sukawa, Yasutaka Y; Stewart, Chip C; Rosenberg, Mara M; Mima, Kosuke K; Inamura, Kentaro K; Nosho, Katsuhiko K; Nowak, Jonathan A JA; Lawrence, Michael S MS; Giovannucci, Edward L EL; Chan, Andrew T AT; Ng, Kimmie K; Meyerhardt, Jeffrey A JA; Van Allen, Eliezer M EM; Getz, Gad G; Gabriel, Stacey B SB; Lander, Eric S ES; Wu, Catherine J CJ; Fuchs, Charles S CS; Ogino, Shuji S; Garraway, Levi A LA
The repertoire of somatic genetic alterations of acinic cell carcinomas of the breast: an exploratory, hypothesis-generating study.
The Journal Of Pathology
Guerini-Rocco, Elena E; Hodi, Zsolt Z; Piscuoglio, Salvatore S; Ng, Charlotte K Y CK; Rakha, Emad A EA; Schultheis, Anne M AM; Marchiò, Caterina C; da Cruz Paula, Arnaud A; De Filippo, Maria R MR; Martelotto, Luciano G LG; De Mattos-Arruda, Leticia L; Edelweiss, Marcia M; Jungbluth, Achim A AA; Fusco, Nicola N; Norton, Larry L; Weigelt, Britta B; Ellis, Ian O IO; Reis-Filho, Jorge S JS