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
Publication Date: 2023-04-03
Variant appearance in text: NOTCH1: 7541_7542delCT; P2514fs
Research Topic: Measurable Residual Disease in Hematologic Malignancies. Can digital droplet PCR improve measurable residual disease monitoring in chronic lymphoid malignancies?
Frontiers In Oncology
Assanto, Giovanni Manfredi GM; Del Giudice, Ilaria I; Della Starza, Irene I; Soscia, Roberta R; Cavalli, Marzia M; Cola, Mattia M; Bellomarino, Vittorio V; Di Trani, Mariangela M; Guarini, Anna A; Foà, Robin R
Publication Date: 2023
Variant appearance in text: NOTCH1: 7541_7542delCT
Characterization of clonal immunoglobulin heavy V-D-J gene rearrangements in Chinese patients with chronic lymphocytic leukemia: Clinical features and molecular profiles.
Frontiers In Oncology
Deng, Xinyue X; Zhang, Meilan M; Wang, Jiachen J; Zhou, Xiaoxi X; Xiao, Min M
Circulating tumor DNA mutation profile is associated with the prognosis and treatment response of Chinese patients with newly diagnosed diffuse large B-cell lymphoma.
Frontiers In Oncology
Guan, Tao T; Zhang, Min M; Liu, Xiaolan X; Li, Jing J; Xin, Beibei B; Ren, Yanxin Y; Yang, Yuchao Y; Wang, Hui H; Zhao, Mengjing M; Huang, Yunpeng Y; Guo, Xiaojing X; Du, Jun J; Qian, Wenbin W; Su, Liping L
Publication Date: 2022
Variant appearance in text: NOTCH1: 7541_7542del; P2514fs
Clonally unrelated Richter syndrome are truly de novo diffuse large B-cell lymphomas with a mutational profile reminiscent of clonally related Richter syndrome.
British Journal Of Haematology
Favini, Chiara C; Talotta, Donatella D; Almasri, Mohammad M; Andorno, Annalisa A; Rasi, Silvia S; Adhinaveni, Ramesh R; Kogila, Sreekar S; Awikeh, Bassel B; Schipani, Mattia M; Boggione, Paola P; Mouhssine, Samir S; Ghanej, Joseph J; Al Essa, Wael W; Mahmoud, Abdurraouf Mokhtar AM; Dondolin, Riccardo R; Alessa, Nariman N; Margiotta Casaluci, Gloria G; Boldorini, Renzo R; Gattei, Valter V; Gaidano, Gianluca G; Moia, Riccardo R
Publication Date: 2022-09
Variant appearance in text: NOTCH1: 7541_7542delCT; P2514Rfs*4
Clinical relevance of molecular characteristics in Burkitt lymphoma differs according to age.
Nature Communications
Burkhardt, Birgit B; Michgehl, Ulf U; Rohde, Jonas J; Erdmann, Tabea T; Berning, Philipp P; Reutter, Katrin K; Rohde, Marius M; Borkhardt, Arndt A; Burmeister, Thomas T; Dave, Sandeep S; Tzankov, Alexandar A; Dugas, Martin M; Sandmann, Sarah S; Fend, Falko F; Finger, Jasmin J; Mueller, Stephanie S; Gökbuget, Nicola N; Haferlach, Torsten T; Kern, Wolfgang W; Hartmann, Wolfgang W; Klapper, Wolfram W; Oschlies, Ilske I; Richter, Julia J; Kontny, Udo U; Lutz, Mathias M; Maecker-Kolhoff, Britta B; Ott, German G; Rosenwald, Andreas A; Siebert, Reiner R; von Stackelberg, Arend A; Strahm, Brigitte B; Woessmann, Wilhelm W; Zimmermann, Martin M; Zapukhlyak, Myroslav M; Grau, Michael M; Lenz, Georg G
Publication Date: 2022-07-06
Variant appearance in text: NOTCH1: 7541_7542delCT; P2514Rfs*4
Pediatric T-ALL type-1 and type-2 relapses develop along distinct pathways of clonal evolution.
Leukemia
Richter-Pechańska, Paulina P; Kunz, Joachim B JB; Rausch, Tobias T; Erarslan-Uysal, Büşra B; Bornhauser, Beat B; Frismantas, Viktoras V; Assenov, Yassen Y; Zimmermann, Martin M; Happich, Margit M; von Knebel-Doeberitz, Caroline C; von Neuhoff, Nils N; Köhler, Rolf R; Stanulla, Martin M; Schrappe, Martin M; Cario, Gunnar G; Escherich, Gabriele G; Kirschner-Schwabe, Renate R; Eckert, Cornelia C; Avigad, Smadar S; Pfister, Stefan M SM; Muckenthaler, Martina U MU; Bourquin, Jean-Pierre JP; Korbel, Jan O JO; Kulozik, Andreas E AE
JAK3 mutations and mitochondrial apoptosis resistance in T-cell acute lymphoblastic leukemia.
Leukemia
Bodaar, Kimberly K; Yamagata, Natsuko N; Barthe, Anais A; Landrigan, Jack J; Chonghaile, Triona Ni TN; Burns, Melissa M; Stevenson, Kristen E KE; Devidas, Meenakshi M; Loh, Mignon L ML; Hunger, Stephen P SP; Wood, Brent B; Silverman, Lewis B LB; Teachey, David T DT; Meijerink, Jules P JP; Letai, Anthony A; Gutierrez, Alejandro A
Publication Date: 2022-06
Variant appearance in text: NOTCH1: 7541_7542delCT; P2514Rfs*4
Genetic Landscape of Relapsed and Refractory Diffuse Large B-Cell Lymphoma: A Systemic Review and Association Analysis With Next-Generation Sequencing.
Frontiers In Genetics
Gao, Fan F; Tian, Lei L; Shi, Hui H; Zheng, Peihao P; Wang, Jing J; Dong, Fei F; Hu, Kai K; Ke, Xiaoyan X
Publication Date: 2021
Variant appearance in text: NOTCH1: 7541_7542del; P2514Rfs*4
Single-cell sequencing demonstrates complex resistance landscape in CLL and MCL treated with BTK and BCL2 inhibitors.
Blood Advances
Thompson, Ella R ER; Nguyen, Tamia T; Kankanige, Yamuna Y; Markham, John F JF; Anderson, Mary Ann MA; Handunnetti, Sasanka M SM; Thijssen, Rachel R; Yeh, Paul Sung-Hao PS; Tam, Constantine S CS; Seymour, John F JF; Roberts, Andrew W AW; Westerman, David A DA; Blombery, Piers P
Publication Date: 2022-01-25
Variant appearance in text: NOTCH1: 7541_7542del; Pro2514Argfs*4
Single-Cell Sequencing Demonstrates Complex Resistance Landscape in CLL and MCL Treated with BTK and BCL2 Inhibitors.
Blood Advances
Thompson, Ella R ER; Nguyen, Tamia T; Kankanige, Yamuna Y; Markham, John F JF; Anderson, Mary Ann MA; Handunnetti, Sasanka M SM; Thijssen, Rachel R; Yeh, Paul Sung-Hao PS; Tam, Constantine S CS; Seymour, John F JF; Roberts, Andrew W AW; Westerman, David A DA; Blombery, Piers P
Publication Date: 2021-12-03
Variant appearance in text: NOTCH1: 7541_7542del; Pro2514Argfs*4
Identification of copy number variation-driven molecular subtypes informative for prognosis and treatment in pancreatic adenocarcinoma of a Chinese cohort.
Identification of copy number variation-driven molecular subtypes informative for prognosis and treatment in pancreatic adenocarcinoma of a Chinese cohort.
Incorporation of next-generation sequencing in clinical practice using solid and liquid biopsy for patients with non-Hodgkin's lymphoma.
Scientific Reports
Bastos-Oreiro, Mariana M; Suárez-González, Julia J; Andrés-Zayas, Cristina C; Carrión, Natalia Carolina NC; Moreno, Solsiré S; Carbonell, Diego D; Chicano, María M; Muñiz, Paula P; Sanz, Laura L; Diaz-Crespo, Francisco Javier FJ; Menarguez, Javier J; Diez-Martín, José Luis JL; Buño, Ismael I; Martínez-Laperche, Carolina C
Publication Date: 2021-11-24
Variant appearance in text: NOTCH1: 7541_7542delCT; Pro2514Argfs*4
Consistent B Cell Receptor Immunoglobulin Features Between Siblings in Familial Chronic Lymphocytic Leukemia.
Frontiers In Oncology
Kolijn, P Martijn PM; Muggen, Alice F AF; Ljungström, Viktor V; Agathangelidis, Andreas A; Wolvers-Tettero, Ingrid L M ILM; Beverloo, H Berna HB; Pál, Karol K; Hengeveld, Paul J PJ; Darzentas, Nikos N; Hendriks, Rudi W RW; van Dongen, Jacques J M JJM; Rosenquist, Richard R; Langerak, Anton W AW
Publication Date: 2021
Variant appearance in text: NOTCH1: 7541_7542del; P2514Rfs*4; rs763016003
Genomic mutation profile in progressive chronic lymphocytic leukemia patients prior to first-line chemoimmunotherapy with FCR and rituximab maintenance (REM).
Plos One
González-Rincón, Julia J; Garcia-Vela, José A JA; Gómez, Sagrario S; Fernández-Cuevas, Belén B; Nova-Gurumeta, Sara S; Pérez-Sanz, Nuria N; Alcoceba, Miguel M; González, Marcos M; Anguita, Eduardo E; López-Jiménez, Javier J; González-Barca, Eva E; Yáñez, Lucrecia L; Pérez-Persona, Ernesto E; de la Serna, Javier J; Fernández-Zarzoso, Miguel M; Deben, Guillermo G; Peñalver, Francisco J FJ; Fernández, María C MC; de Oteyza, Jaime Pérez JP; Andreu, M Ángeles MÁ; Ruíz-Guinaldo, M Ángeles MÁ; Paz-Arias, Raquel R; García-Malo, M Dolores MD; Recasens, Valle V; Collado, Rosa R; Córdoba, Raúl R; Navarro-Matilla, Belén B; Sánchez-Beato, Margarita M; García-Marco, José A JA
Mutational landscape of marginal zone B-cell lymphomas of various origin: organotypic alterations and diagnostic potential for assignment of organ origin.
Virchows Archiv : An International Journal Of Pathology
Vela, Visar V; Juskevicius, Darius D; Dirnhofer, Stefan S; Menter, Thomas T; Tzankov, Alexandar A
Publication Date: 2022-02
Variant appearance in text: NOTCH1: 7541_7542del; rs763016003
Multiregional sequencing and circulating tumour DNA analysis provide complementary approaches for comprehensive disease profiling of small lymphocytic lymphoma.
British Journal Of Haematology
Moia, Riccardo R; Favini, Chiara C; Ferri, Valentina V; Forestieri, Gabriela G; Terzi Di Bergamo, Lodovico L; Schipani, Mattia M; Sagiraju, Sruthi S; Andorno, Annalisa A; Rasi, Silvia S; Adhinaveni, Ramesh R; Talotta, Donatella D; Al Essa, Wael W; De Paoli, Lorenzo L; Margiotta Casaluci, Gloria G; Patriarca, Andrea A; Boldorini, Renzo L RL; Rossi, Davide D; Gaidano, Gianluca G
Publication Date: 2021-10
Variant appearance in text: NOTCH1: 7541_7542delCT
Twists and turns from "tumor in tumor" profiling: surveillance of chronic lymphocytic leukemia (CLL) leads to detection of a lung adenocarcinoma, whose genomic characterization alters the original hematologic diagnosis.
Cold Spring Harbor Molecular Case Studies
Terraf, Panieh P; Sholl, Lynette M LM; Davids, Matthew S MS; Awad, Mark M MM; Garcia, Elizabeth P EP; MacConaill, Laura E LE; Dal Cin, Paola P; Kim, Annette A; Lindeman, Neal I NI; Stachler, Matthew M; Hwang, David H DH; Dubuc, Adrian M AM
Publication Date: 2021-08
Variant appearance in text: NOTCH1: 7541_7542delCT
Comprehensive omic characterization of breast cancer in Mexican-Hispanic women.
Nature Communications
Romero-Cordoba, Sandra L SL; Salido-Guadarrama, Ivan I; Rebollar-Vega, Rosa R; Bautista-Piña, Veronica V; Dominguez-Reyes, Carlos C; Tenorio-Torres, Alberto A; Villegas-Carlos, Felipe F; Fernández-López, Juan C JC; Uribe-Figueroa, Laura L; Alfaro-Ruiz, Luis L; Hidalgo-Miranda, Alfredo A
Somatic mutations in lymphocytes in patients with immune-mediated aplastic anemia.
Leukemia
Lundgren, Sofie S; Keränen, Mikko A I MAI; Kankainen, Matti M; Huuhtanen, Jani J; Walldin, Gunilla G; Kerr, Cassandra M CM; Clemente, Michael M; Ebeling, Freja F; Rajala, Hanna H; Brück, Oscar O; Lähdesmäki, Harri H; Hannula, Sari S; Hannunen, Tiina T; Ellonen, Pekka P; Young, Neal S NS; Ogawa, Seishi S; Maciejewski, Jaroslaw P JP; Hellström-Lindberg, Eva E; Mustjoki, Satu S
Integrated molecular drivers coordinate biological and clinical states in melanoma.
Nature Genetics
Conway, Jake R JR; Dietlein, Felix F; Taylor-Weiner, Amaro A; AlDubayan, Saud S; Vokes, Natalie N; Keenan, Tanya T; Reardon, Brendan B; He, Meng Xiao MX; Margolis, Claire A CA; Weirather, Jason L JL; Haq, Rizwan R; Schilling, Bastian B; Stephen Hodi, F F; Schadendorf, Dirk D; Liu, David D; Van Allen, Eliezer M EM
Publication Date: 2020-12
Variant appearance in text: NOTCH1: 7541_7542delCT; P2514fs
Targeted genomic analysis of cutaneous T cell lymphomas identifies a subset with aggressive clinicopathological features.
Blood Cancer Journal
Argyropoulos, Kimon V KV; Pulitzer, Melissa M; Maura, Francesco F; Mohanty, Abhinita A; Mondello, Patrizia P; Horwitz, Steven M SM; Myskowski, Patricia P; Moskowitz, Alison A; Dogan, Ahmet A; Querfeld, Christiane C; Rapaport, Franck F; Siakantaris, Marina M; Louis, Peter C PC; Galasso, Natasha N; van den Brink, Marcel R M MRM; Palomba, M Lia ML
Publication Date: 2020-11-09
Variant appearance in text: NOTCH1: 7541_7542delCT; P2514fs*4
<i>SF3B1</i>-mutated chronic lymphocytic leukemia shows evidence of NOTCH1 pathway activation including CD20 downregulation
Haematologica
Pozzo, Federico F; Bittolo, Tamara T; Tissino, Erika E; Vit, Filippo F; Vendramini, Elena E; Laurenti, Luca L; D'Arena, Giovanni G; Olivieri, Jacopo J; Pozzato, Gabriele G; Zaja, Francesco F; Chiarenza, Annalisa A; Di Raimondo, Francesco F; Zucchetto, Antonella A; Bomben, Riccardo R; Rossi, Francesca Maria FM; Del Poeta, Giovanni G; Dal Bo, Michele M; Gattei, Valter V
Phase and context shape the function of composite oncogenic mutations.
Nature
Gorelick, Alexander N AN; Sánchez-Rivera, Francisco J FJ; Cai, Yanyan Y; Bielski, Craig M CM; Biederstedt, Evan E; Jonsson, Philip P; Richards, Allison L AL; Vasan, Neil N; Penson, Alexander V AV; Friedman, Noah D ND; Ho, Yu-Jui YJ; Baslan, Timour T; Bandlamudi, Chaitanya C; Scaltriti, Maurizio M; Schultz, Nikolaus N; Lowe, Scott W SW; Reznik, Ed E; Taylor, Barry S BS
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