599 results on '"Rossi, Davide"'
Search Results
2. The VLA-4 integrin is constitutively active in circulating chronic lymphocytic leukemia cells via BCR autonomous signaling: a novel anchor-independent mechanism exploiting soluble blood-borne ligands
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Tissino, Erika, Gaglio, Annalisa, Nicolò, Antonella, Pozzo, Federico, Bittolo, Tamara, Rossi, Francesca Maria, Bomben, Riccardo, Nanni, Paola, Cattarossi, Ilaria, Zaina, Eva, Zimbo, Anna Maria, Ianna, Giulia, Capasso, Guido, Forestieri, Gabriela, Moia, Riccardo, Datta, Moumita, Härzschel, Andrea, Olivieri, Jacopo, D’Arena, Giovanni, Laurenti, Luca, Zaja, Francesco, Chiarenza, Annalisa, Palumbo, Giuseppe A., Martino, Enrica Antonia, Gentile, Massimo, Rossi, Davide, Gaidano, Gianluca, Del Poeta, Giovanni, Laureana, Roberta, Del Principe, Maria Ilaria, Maity, Palash C., Jumaa, Hassan, Hartmann, Tanja Nicole, Zucchetto, Antonella, and Gattei, Valter
- Abstract
In chronic lymphocytic leukemia (CLL), survival of neoplastic cells depends on microenvironmental signals at lymphoid sites where the crosstalk between the integrin VLA-4 (CD49d/CD29), expressed in ~40% of CLL, and the B-cell receptor (BCR) occurs. Here, BCR engagement inside–out activates VLA-4, thus enhancing VLA-4-mediated adhesion of CLL cells, which in turn obtain pro-survival signals from the surrounding microenvironment. We report that the BCR is also able to effectively inside–out activate the VLA-4 integrin in circulating CD49d-expressing CLL cells through an autonomous antigen-independent BCR signaling. As a consequence, circulating CLL cells exhibiting activated VLA-4 express markers of BCR pathway activation (phospho-BTK and phospho-PLC-γ2) along with higher levels of phospho-ERK and phospho-AKT indicating parallel activation of downstream pathways. Moreover, circulating CLL cells expressing activated VLA-4 bind soluble blood-borne VCAM-1 leading to increased VLA-4-dependent actin polymerization/re-organization and ERK phosphorylation. Finally, evidence is provided that ibrutinib treatment, by affecting autonomous BCR signaling, impairs the constitutive VLA-4 activation eventually decreasing soluble VCAM-1 binding and reducing downstream ERK phosphorylation by circulating CLL cells. This study describes a novel anchor-independent mechanism occurring in circulating CLL cells involving the BCR and the VLA-4 integrin, which help to unravel the peculiar biological and clinical features of CD49d+ CLL.
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- 2024
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3. ERIC recommendations for TP53mutation analysis in chronic lymphocytic leukemia—2024 update
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Malcikova, Jitka, Pavlova, Sarka, Baliakas, Panagiotis, Chatzikonstantinou, Thomas, Tausch, Eugen, Catherwood, Mark, Rossi, Davide, Soussi, Thierry, Tichy, Boris, Kater, Arnon P., Niemann, Carsten U., Davi, Frederic, Gaidano, Gianluca, Stilgenbauer, Stephan, Rosenquist, Richard, Stamatopoulos, Kostas, Ghia, Paolo, and Pospisilova, Sarka
- Abstract
In chronic lymphocytic leukemia (CLL), analysis of TP53aberrations (deletion and/or mutation) is a crucial part of treatment decision-making algorithms. Technological and treatment advances have resulted in the need for an update of the last recommendations for TP53analysis in CLL, published by ERIC, the European Research Initiative on CLL, in 2018. Based on the current knowledge of the relevance of low-burden TP53-mutated clones, a specific variant allele frequency (VAF) cut-off for reporting TP53mutations is no longer recommended, but instead, the need for thorough method validation by the reporting laboratory is emphasized. The result of TP53analyses should always be interpreted within the context of available laboratory and clinical information, treatment indication, and therapeutic options. Methodological aspects of introducing next-generation sequencing (NGS) in routine practice are discussed with a focus on reliable detection of low-burden clones. Furthermore, potential interpretation challenges are presented, and a simplified algorithm for the classification of TP53variants in CLL is provided, representing a consensus based on previously published guidelines. Finally, the reporting requirements are highlighted, including a template for clinical reports of TP53aberrations. These recommendations are intended to assist diagnosticians in the correct assessment of TP53mutation status, but also physicians in the appropriate understanding of the lab reports, thus decreasing the risk of misinterpretation and incorrect management of patients in routine practice whilst also leading to improved stratification of patients with CLL in clinical trials.
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- 2024
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4. Marsellus: A Heterogeneous RISC-V AI-IoT End-Node SoC With 2–8 b DNN Acceleration and 30%-Boost Adaptive Body Biasing
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Conti, Francesco, Paulin, Gianna, Garofalo, Angelo, Rossi, Davide, Di Mauro, Alfio, Rutishauser, Georg, Ottavi, Gianmarco, Eggiman, Manuel, Okuhara, Hayate, and Benini, Luca
- Abstract
Emerging artificial intelligence-enabled Internet-of-Things (AI-IoT) system-on-chip (SoC) for augmented reality, personalized healthcare, and nanorobotics need to run many diverse tasks within a power envelope of a few tens of mW over a wide range of operating conditions: compute-intensive but strongly quantized deep neural network (DNN) inference, as well as signal processing and control requiring high-precision floating point. We present MARSELLUS, an all-digital heterogeneous SoC for AI-IoT end-nodes fabricated in GlobalFoundries 22 nm FDX that combines: 1) a general-purpose cluster of 16 RISC-V digital signal processing (DSP) cores attuned for the execution of a diverse range of workloads exploiting 4- and 2-bit arithmetic extensions (
XpulpNN ), combined with fused multiply accumulate (MAC) and LOAD operations and floating-point support; 2) a 2–8 bit reconfigurable binary engine (RBE) to accelerate$A3 3$ $A1 1$ - Published
- 2024
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5. Siracusa: A 16 nm Heterogenous RISC-V SoC for Extended Reality With At-MRAM Neural Engine
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Prasad, Arpan Suravi, Scherer, Moritz, Conti, Francesco, Rossi, Davide, Di Mauro, Alfio, Eggimann, Manuel, Gomez, Jorge Tomas, Li, Ziyun, Sarwar, Syed Shakib, Wang, Zhao, De Salvo, Barbara, and Benini, Luca
- Abstract
Extended reality (XR) applications are machine learning (ML)-intensive, featuring deep neural networks (DNNs) with millions of weights, tightly latency-bound (10–20 ms end-to-end), and power-constrained (low tens of mW average power). While ML performance and efficiency can be achieved by introducing neural engines within low-power systems-on-chip (SoCs), system-level power for nontrivial DNNs depends strongly on the energy of non-volatile memory (NVM) access for network weights. This work introduces Siracusa, a near-sensor heterogeneous SoC for next-generation XR devices manufactured in 16 nm CMOS. Siracusa couples an octa-core cluster of RISC-V digital signal processing (DSP) cores with a novel tightly coupled “At-Memory” integration between a state-of-the-art digital neural engine called N-EUREKA and an on-chip NVM based on magnetoresistive random access memory (MRAM), achieving 1.7
$\times $ $\times $ - Published
- 2024
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6. Early reappearance of intraclonal proliferative subpopulations in ibrutinib-resistant chronic lymphocytic leukemia
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Pozzo, Federico, Forestieri, Gabriela, Vit, Filippo, Ianna, Giulia, Tissino, Erika, Bittolo, Tamara, Papotti, Robel, Gaglio, Annalisa, Terzi di Bergamo, Lodovico, Steffan, Agostino, Polesel, Jerry, Bulian, Pietro, Laureana, Roberta, Tafuri, Agostino, Chiarenza, Annalisa, Di Raimondo, Francesco, Olivieri, Jacopo, Zaja, Francesco, Laurenti, Luca, Del Principe, Maria Ilaria, Postorino, Massimiliano, Del Poeta, Giovanni, Bomben, Riccardo, Zucchetto, Antonella, Rossi, Davide, and Gattei, Valter
- Abstract
The Bruton’s tyrosine kinase (BTK) inhibitor ibrutinib represents an effective strategy for treatment of chronic lymphocytic leukemia (CLL), nevertheless about 30% of patients eventually undergo disease progression. Here we investigated by flow cytometry the long-term modulation of the CLL CXCR4dim/CD5brightproliferative fraction (PF), its correlation with therapeutic outcome and emergence of ibrutinib resistance. By longitudinal tracking, the PF, initially suppressed by ibrutinib, reappeared upon early disease progression, without association with lymphocyte count or serum beta-2-microglobulin. Somatic mutations of BTK/PLCG2, detected in 57% of progressing cases, were significantly enriched in PF with a 3-fold greater allele frequency than the non-PF fraction, suggesting a BTK/PLCG2-mutated reservoir resident within the proliferative compartments. PF increase was also present in BTK/PLCG2-unmutated cases at progression, indicating that PF evaluation could represent a marker of CLL progression under ibrutinib. Furthermore, we evidence different transcriptomic profiles of PF at progression in cases with or without BTK/PLCG2mutations, suggestive of a reactivation of B-cell receptor signaling or the emergence of bypass signaling through MYC and/or Toll-Like-Receptor-9. Clinically, longitudinal monitoring of the CXCR4dim/CD5brightPF by flow cytometry may provide a simple tool helping to intercept CLL progression under ibrutinib therapy.
- Published
- 2024
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7. A Heterogeneous RISC-V Based SoC for Secure Nano-UAV Navigation
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Valente, Luca, Nadalini, Alessandro, Veeran, Asif Hussain Chiralil, Sinigaglia, Mattia, Sa, Bruno, Wistoff, Nils, Tortorella, Yvan, Benatti, Simone, Psiakis, Rafail, Kulmala, Ari, Mohammad, Baker, Pinto, Sandro, Palossi, Daniele, Benini, Luca, and Rossi, Davide
- Abstract
The rapid advancement of energy-efficient parallel ultra-low-power (ULP)
$\mu $ $\mu $ $^{\textbf {2}}~200$ - Published
- 2024
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8. Distinct Hodgkin lymphoma subtypes defined by noninvasive genomic profiling
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Alig, Stefan K., Shahrokh Esfahani, Mohammad, Garofalo, Andrea, Li, Michael Yu, Rossi, Cédric, Flerlage, Tim, Flerlage, Jamie E., Adams, Ragini, Binkley, Michael S., Shukla, Navika, Jin, Michael C., Olsen, Mari, Telenius, Adèle, Mutter, Jurik A., Schroers-Martin, Joseph G., Sworder, Brian J., Rai, Shinya, King, Daniel A., Schultz, Andre, Bögeholz, Jan, Su, Shengqin, Kathuria, Karan R., Liu, Chih Long, Kang, Xiaoman, Strohband, Maya J., Langfitt, Deanna, Pobre-Piza, Kristine Faye, Surman, Sherri, Tian, Feng, Spina, Valeria, Tousseyn, Thomas, Buedts, Lieselot, Hoppe, Richard, Natkunam, Yasodha, Fornecker, Luc-Matthieu, Castellino, Sharon M., Advani, Ranjana, Rossi, Davide, Lynch, Ryan, Ghesquières, Hervé, Casasnovas, Olivier, Kurtz, David M., Marks, Lianna J., Link, Michael P., André, Marc, Vandenberghe, Peter, Steidl, Christian, Diehn, Maximilian, and Alizadeh, Ash A.
- Abstract
The scarcity of malignant Hodgkin and Reed–Sternberg cells hampers tissue-based comprehensive genomic profiling of classic Hodgkin lymphoma (cHL). By contrast, liquid biopsies show promise for molecular profiling of cHL due to relatively high circulating tumour DNA (ctDNA) levels1–4. Here we show that the plasma representation of mutations exceeds the bulk tumour representation in most cases, making cHL particularly amenable to noninvasive profiling. Leveraging single-cell transcriptional profiles of cHL tumours, we demonstrate Hodgkin and Reed–Sternberg ctDNA shedding to be shaped by DNASE1L3, whose increased tumour microenvironment-derived expression drives high ctDNA concentrations. Using this insight, we comprehensively profile 366 patients, revealing two distinct cHL genomic subtypes with characteristic clinical and prognostic correlates, as well as distinct transcriptional and immunological profiles. Furthermore, we identify a novel class of truncating IL4Rmutations that are dependent on IL-13 signalling and therapeutically targetable with IL-4Rα-blocking antibodies. Finally, using PhasED-seq5, we demonstrate the clinical value of pretreatment and on-treatment ctDNA levels for longitudinally refining cHL risk prediction and for detection of radiographically occult minimal residual disease. Collectively, these results support the utility of noninvasive strategies for genotyping and dynamic monitoring of cHL, as well as capturing molecularly distinct subtypes with diagnostic, prognostic and therapeutic potential.
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- 2024
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9. CVA6 RISC-V Virtualization: Architecture, Microarchitecture, and Design Space Exploration
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Sa, Bruno, Valente, Luca, Martins, Jose, Rossi, Davide, Benini, Luca, and Pinto, Sandro
- Abstract
Virtualization is a key technology used in a wide range of applications, from cloud computing to embedded systems. Over the last few years, mainstream computer architectures were extended with hardware virtualization support, giving rise to a set of virtualization technologies (e.g., Intel VT and Arm VE) that are now proliferating in modern processors and systems on chip (SoCs). In this article, we describe our work on hardware virtualization support in the RISC-V CVA6 core. Our contribution is multifold and encompasses architecture, microarchitecture, and design space exploration (DSE). In particular, we highlight the design of a set of microarchitectural enhancements [i.e., G-stage translation lookaside buffer (GTLB) and second-level TLB (L2 TLB)] to alleviate the virtualization performance overhead. We also perform a DSE and accompanying postlayout simulations (based on 22-nm FDX technology) to assess performance, power, and area (PPA). Furthermore, we map design variants on a field-programmable gate array (FPGA) platform (Genesys 2) to assess the functional performance–area tradeoff. Based on the DSE, we select an optimal design point for the CVA6 with hardware virtualization support. For this optimal hardware configuration, we collected functional performance results by running the MiBench benchmark on Linux atop Bao hypervisor for a single-core configuration. We observed a performance speedup of up to 16% (approximately 12.5% on average) compared with virtualization-aware nonoptimized design at the minimal cost of 0.78% in area and 0.33% in power. Finally, all works described in this article are publicly available and open-sourced for the community to further evaluate additional design configurations and software stacks.
- Published
- 2023
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10. Special issue on circulating tumor DNA: Introductory editorial
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Condoluci, Adalgisa and Rossi, Davide
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- 2023
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11. Different prognostic impact of recurrent gene mutations in chronic lymphocytic leukemia depending on IGHV gene somatic hypermutation status: a study by ERIC in HARMONY
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Mansouri, Larry, Thorvaldsdottir, Birna, Sutton, Lesley-Ann, Karakatsoulis, Georgios, Meggendorfer, Manja, Parker, Helen, Nadeu, Ferran, Brieghel, Christian, Laidou, Stamatia, Moia, Riccardo, Rossi, Davide, Catherwood, Mark, Kotaskova, Jana, Delgado, Julio, Rodríguez-Vicente, Ana E., Benito, Rocío, Rigolin, Gian Matteo, Bonfiglio, Silvia, Scarfo, Lydia, Mattsson, Mattias, Davis, Zadie, Gogia, Ajay, Rani, Lata, Baliakas, Panagiotis, Foroughi-Asl, Hassan, Jylhä, Cecilia, Skaftason, Aron, Rapado, Inmaculada, Miras, Fatima, Martinez-Lopez, Joaquín, de la Serna, Javier, Rivas, Jesús María Hernández, Thornton, Patrick, Larráyoz, María José, Calasanz, María José, Fésüs, Viktória, Mátrai, Zoltán, Bödör, Csaba, Smedby, Karin E., Espinet, Blanca, Puiggros, Anna, Gupta, Ritu, Bullinger, Lars, Bosch, Francesc, Tazón-Vega, Bárbara, Baran-Marszak, Fanny, Oscier, David, Nguyen-Khac, Florence, Zenz, Thorsten, Terol, Maria Jose, Cuneo, Antonio, Hernández-Sánchez, María, Pospisilova, Sarka, Mills, Ken, Gaidano, Gianluca, Niemann, Carsten U., Campo, Elias, Strefford, Jonathan C., Ghia, Paolo, Stamatopoulos, Kostas, and Rosenquist, Richard
- Abstract
Recent evidence suggests that the prognostic impact of gene mutations in patients with chronic lymphocytic leukemia (CLL) may differ depending on the immunoglobulin heavy variable (IGHV) gene somatic hypermutation (SHM) status. In this study, we assessed the impact of nine recurrently mutated genes (BIRC3, EGR2, MYD88, NFKBIE, NOTCH1, POT1, SF3B1, TP53, and XPO1) in pre-treatment samples from 4580 patients with CLL, using time-to-first-treatment (TTFT) as the primary end-point in relation to IGHV gene SHM status. Mutations were detected in 1588 (34.7%) patients at frequencies ranging from 2.3–9.8% with mutations in NOTCH1being the most frequent. In both univariate and multivariate analyses, mutations in all genes except MYD88were associated with a significantly shorter TTFT. In multivariate analysis of Binet stage A patients, performed separately for IGHV-mutated (M-CLL) and unmutated CLL (U-CLL), a different spectrum of gene alterations independently predicted short TTFT within the two subgroups. While SF3B1and XPO1mutations were independent prognostic variables in both U-CLL and M-CLL, TP53, BIRC3and EGR2aberrations were significant predictors only in U-CLL, and NOTCH1and NFKBIEonly in M-CLL. Our findings underscore the need for a compartmentalized approach to identify high-risk patients, particularly among M-CLL patients, with potential implications for stratified management.
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- 2023
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12. Dustin: A 16-Cores Parallel Ultra-Low-Power Cluster With 2b-to-32b Fully Flexible Bit-Precision and Vector Lockstep Execution Mode
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Ottavi, Gianmarco, Garofalo, Angelo, Tagliavini, Giuseppe, Conti, Francesco, Mauro, Alfio Di, Benini, Luca, and Rossi, Davide
- Abstract
Computationally intensive algorithms such as Deep Neural Networks (DNNs) are becoming killer applications for edge devices. Porting heavily data-parallel algorithms on resource-constrained and battery-powered devices while retaining the flexibility granted by instruction processor-based architectures poses several challenges related to memory footprint, computational throughput, and energy efficiency. Low-bitwidth and mixed-precision arithmetic have been proven to be valid strategies for tackling these problems. We present Dustin, a fully programmable compute cluster integrating 16 RISC-V cores capable of 2- to 32-bit arithmetic and all possible mixed-precision combinations. In addition to a conventional Multiple-Instruction Multiple-Data (MIMD) processing paradigm, Dustin introduces a Vector Lockstep Execution Mode (VLEM) to minimize power consumption in highly data-parallel kernels. In VLEM, a single leader core fetches instructions and broadcasts them to the 15 follower cores. Clock gating Instruction Fetch (IF) stages and private caches of the follower cores leads to 38% power reduction. The cluster, implemented in 65 nm CMOS technology, achieves a peak performance of 58 GOPS and a peak efficiency of 1.15 TOPS/W.
- Published
- 2023
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13. Scalable Hierarchical Instruction Cache for Ultralow-Power Processors Clusters
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Chen, Jie, Loi, Igor, Flamand, Eric, Tagliavini, Giuseppe, Benini, Luca, and Rossi, Davide
- Abstract
High performance and energy efficiency are critical requirements for Internet of Things (IoT) end-nodes. Exploiting tightly coupled clusters of programmable processors (CMPs) has recently emerged as a suitable solution to address this challenge. One of the main bottlenecks limiting the performance and energy efficiency of these systems is the instruction cache architecture due to its criticality in terms of timing (i.e., maximum operating frequency), bandwidth, and power. We propose a hierarchical instruction cache tailored to ultralow-power (ULP) tightly coupled processor clusters where a relatively large cache (L1.5) is shared by L1 private (PR) caches through a two-cycle latency interconnect. To address the performance loss caused by the L1 capacity misses, we introduce a next-line prefetcher with cache probe filtering (CPF) from L1 to L1.5. We optimize the core instruction fetch (IF) stage by removing the critical core-to-L1 combinational path. We present a detailed comparison of instruction cache architectures’ performance and energy efficiency for parallel ULP (PULP) clusters. Focusing on the implementation, our two-level instruction cache provides better scalability than existing shared caches, delivering up to 20% higher operating frequency. On average, the proposed two-level cache improves maximum performance by up to 17% compared to the state-of-the-art while delivering similar energy efficiency for most relevant applications.
- Published
- 2023
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14. Energy Efficiency of Opportunistic Refreshing for Gain-Cell Embedded DRAM
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Frankel, Binyamin, Sarfati, Eyal, Rossi, Davide, and Wimer, Shmuel
- Abstract
On-die memories, which are traditionally implemented by SRAM, stop functioning properly when the supply voltage is scaled down aggressively; hence, embedded DRAMs (eDRAMs) are used instead. Opportunistic refreshing was proved to eliminate the performance loss incurred by the eDRAM refreshing must. We show here that Gain-Cell eDRAM (GCeDRAM) supplemented with opportunistic refreshing consumes significantly smaller power and energy than SRAM. Analysis supported by hardware simulations demonstrate that the same design point achieves maximum performance and minimum energy. Replacement of the data memory in the ultra-low power processor PULPino from SRAM to opportunistically refreshed GCeDRAM yielded 30% energy savings in the memory, which translated into 7% savings in the entire processor.
- Published
- 2023
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15. Graphene-Based Wireless Agile Interconnects for Massive Heterogeneous Multi-Chip Processors
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Abadal, Sergi, Guirado, Robert, Taghvaee, Hamidreza, Jain, Akshay, de Santana, Elana Pereira, Bolivar, Peter Haring, Saeed, Mohamed, Negra, Renato, Wang, Zhenxing, Wang, Kun-Ta, Lemme, Max C., Klein, Joshua, Zapater, Marina, Levisse, Alexandre, Atienza, David, Rossi, Davide, Conti, Francesco, Dazzi, Martino, Karunaratne, Geethan, Boybat, Irem, and Sebastian, Abu
- Abstract
The main design principles in computer architecture have recently shifted from a monolithic scaling-driven approach to the development of heterogeneous architectures that tightly co-integrate multiple specialized processor and memory chiplets. In such data-hungry multi-chip architectures, current Networks-in-Package (NiPs) may not be enough to cater to their heterogeneous and fast-changing communication demands. This position article makes the case for wireless in-package networking as the enabler of efficient and versatile wired-wireless interconnect fabrics for massive heterogeneous processors. To that end, the use of graphene-based antennas and transceivers with unique frequency-beam reconfigurability in the terahertz band is proposed. The feasibility of such a wireless vision and the main research challenges toward its realization are analyzed from the technological, communications, and computer architecture perspectives.
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- 2023
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16. Genomic profiling for clinical decision making in lymphoid neoplasms
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de Leval, Laurence, Alizadeh, Ash A., Bergsagel, P. Leif, Campo, Elias, Davies, Andrew, Dogan, Ahmet, Fitzgibbon, Jude, Horwitz, Steven M., Melnick, Ari M., Morice, William G., Morin, Ryan D., Nadel, Bertrand, Pileri, Stefano A., Rosenquist, Richard, Rossi, Davide, Salaverria, Itziar, Steidl, Christian, Treon, Steven P., Zelenetz, Andrew D., Advani, Ranjana H., Allen, Carl E., Ansell, Stephen M., Chan, Wing C., Cook, James R., Cook, Lucy B., d’Amore, Francesco, Dirnhofer, Stefan, Dreyling, Martin, Dunleavy, Kieron, Feldman, Andrew L., Fend, Falko, Gaulard, Philippe, Ghia, Paolo, Gribben, John G., Hermine, Olivier, Hodson, Daniel J., Hsi, Eric D., Inghirami, Giorgio, Jaffe, Elaine S., Karube, Kennosuke, Kataoka, Keisuke, Klapper, Wolfram, Kim, Won Seog, King, Rebecca L., Ko, Young H., LaCasce, Ann S., Lenz, Georg, Martin-Subero, José I., Piris, Miguel A., Pittaluga, Stefania, Pasqualucci, Laura, Quintanilla-Martinez, Leticia, Rodig, Scott J., Rosenwald, Andreas, Salles, Gilles A., San-Miguel, Jesus, Savage, Kerry J., Sehn, Laurie H., Semenzato, Gianpietro, Staudt, Louis M., Swerdlow, Steven H., Tam, Constantine S., Trotman, Judith, Vose, Julie M., Weigert, Oliver, Wilson, Wyndham H., Winter, Jane N., Wu, Catherine J., Zinzani, Pier L., Zucca, Emanuele, Bagg, Adam, and Scott, David W.
- Abstract
With the introduction of large-scale molecular profiling methods and high-throughput sequencing technologies, the genomic features of most lymphoid neoplasms have been characterized at an unprecedented scale. Although the principles for the classification and diagnosis of these disorders, founded on a multidimensional definition of disease entities, have been consolidated over the past 25 years, novel genomic data have markedly enhanced our understanding of lymphomagenesis and enriched the description of disease entities at the molecular level. Yet, the current diagnosis of lymphoid tumors is largely based on morphological assessment and immunophenotyping, with only few entities being defined by genomic criteria. This paper, which accompanies the International Consensus Classification of mature lymphoid neoplasms, will address how established assays and newly developed technologies for molecular testing already complement clinical diagnoses and provide a novel lens on disease classification. More specifically, their contributions to diagnosis refinement, risk stratification, and therapy prediction will be considered for the main categories of lymphoid neoplasms. The potential of whole-genome sequencing, circulating tumor DNA analyses, single-cell analyses, and epigenetic profiling will be discussed because these will likely become important future tools for implementing precision medicine approaches in clinical decision making for patients with lymphoid malignancies.
- Published
- 2022
- Full Text
- View/download PDF
17. Genomic profiling for clinical decision making in lymphoid neoplasms
- Author
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de Leval, Laurence, Alizadeh, Ash A., Bergsagel, P. Leif, Campo, Elias, Davies, Andrew, Dogan, Ahmet, Fitzgibbon, Jude, Horwitz, Steven M., Melnick, Ari M., Morice, William G., Morin, Ryan D., Nadel, Bertrand, Pileri, Stefano A., Rosenquist, Richard, Rossi, Davide, Salaverria, Itziar, Steidl, Christian, Treon, Steven P., Zelenetz, Andrew D., Advani, Ranjana H., Allen, Carl E., Ansell, Stephen M., Chan, Wing C., Cook, James R., Cook, Lucy B., d’Amore, Francesco, Dirnhofer, Stefan, Dreyling, Martin, Dunleavy, Kieron, Feldman, Andrew L., Fend, Falko, Gaulard, Philippe, Ghia, Paolo, Gribben, John G., Hermine, Olivier, Hodson, Daniel J., Hsi, Eric D., Inghirami, Giorgio, Jaffe, Elaine S., Karube, Kennosuke, Kataoka, Keisuke, Klapper, Wolfram, Kim, Won Seog, King, Rebecca L., Ko, Young H., LaCasce, Ann S., Lenz, Georg, Martin-Subero, José I., Piris, Miguel A., Pittaluga, Stefania, Pasqualucci, Laura, Quintanilla-Martinez, Leticia, Rodig, Scott J., Rosenwald, Andreas, Salles, Gilles A., San-Miguel, Jesus, Savage, Kerry J., Sehn, Laurie H., Semenzato, Gianpietro, Staudt, Louis M., Swerdlow, Steven H., Tam, Constantine S., Trotman, Judith, Vose, Julie M., Weigert, Oliver, Wilson, Wyndham H., Winter, Jane N., Wu, Catherine J., Zinzani, Pier L., Zucca, Emanuele, Bagg, Adam, and Scott, David W.
- Abstract
With the introduction of large-scale molecular profiling methods and high-throughput sequencing technologies, the genomic features of most lymphoid neoplasms have been characterized at an unprecedented scale. Although the principles for the classification and diagnosis of these disorders, founded on a multidimensional definition of disease entities, have been consolidated over the past 25 years, novel genomic data have markedly enhanced our understanding of lymphomagenesis and enriched the description of disease entities at the molecular level. Yet, the current diagnosis of lymphoid tumors is largely based on morphological assessment and immunophenotyping, with only few entities being defined by genomic criteria. This paper, which accompanies the International Consensus Classification of mature lymphoid neoplasms, will address how established assays and newly developed technologies for molecular testing already complement clinical diagnoses and provide a novel lens on disease classification. More specifically, their contributions to diagnosis refinement, risk stratification, and therapy prediction will be considered for the main categories of lymphoid neoplasms. The potential of whole-genome sequencing, circulating tumor DNA analyses, single-cell analyses, and epigenetic profiling will be discussed because these will likely become important future tools for implementing precision medicine approaches in clinical decision making for patients with lymphoid malignancies.
- Published
- 2022
- Full Text
- View/download PDF
18. Absence of abdominal drainage after surgery for secondary lower gastrointestinal tract peritonitis is a valid strategy
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Siembida, Nicolas, Sabbagh, Charles, Chal, Tami, Demouron, Marion, Rossi, Davide, Dembinski, Jeanne, and Regimbeau, Jean-Marc
- Abstract
Background: Management of abdominal drainage after surgery for secondary lower gastrointestinal tract peritonitis (LGTP) is not a standardized procedure. A monocentric study was carried out in 2016 in our centre. (PI study) to evaluate the interest of drainage. Our objective was to revaluate, our actual use of abdominal drainage after peritonitis (PII study). Study design: We examined retrospectively patients who underwent surgery for secondary sub-mesocolic community-acquired peritonitis (January 2016–December 2019). Study exclusion criteria were primary peritonitis, peritoneal dialysis, nosocomial peritonitis, postoperative peritonitis, upper gastrointestinal tract peritonitis, peritonitis due to appendicitis, peritonitis requiring the implementation of Mikulicz’s drain, and peritonitis in which the peritoneum was not described in the surgical report (i.e., the same criteria that the PI study which included 141 patients from January 2009 to January 2012). The primary endpoint was the rate of abdominal drainage. The secondary endpoints were the patient rate without a peritoneum description, major complications rate (Clavien ≥III), abscess rate, mortality rate and the length of stay in the non-drain group (D – ) and in the drain group (D + ) in PII study. Primary and secondary endpoints were also compared between PI and PII studies. Risk factors for post-operative abscess were also research. Results: Of the 150 patients included 33% were drained vs 84% of the 141 patients included in PI study (p< 0.001). In PII study peritoneum was described in 80.3% of patients vs 69% in PI study (NS, p= 0.06). Comparing the two groups D – and D + , no significant differences were found in major complications (respectively 45% vs 32%, p= 0.1), reoperation rate (respectively 25% vs 22%, p= 0.7), death rate (respectively 25% vs 14%; p= 0.1) and mean length of stay (respectively 12 days vs 13 days, p= 0.9). The abscess rate was significantly lower in the D – group (10% vs 30%, p= 0.002). Comparing PI and PII studies, there was no difference about major complications (35% vs 35%, p= 0.1), reoperation (16% vs 17.5%, p = 0.5), abscess rate (15% vs 8.5%, p= 0.1) and mortality (14.5% vs 17.5%, p= 0.7). The length of stay was longer in PI study than in P II (14 days vs 9 days, p= 0.03). Drainage (p= 0.005; OR = 4.357; CI [1.559–12.173]) and peritonitis type (p= 0.032; OR = 3.264; CI [1.106–9.630]) were abscess risk factors. Conclusion: This study therefore showed that drainage after surgery for LGTP may not be necessary and that, at least at the local level, surgeons seem to be inclined to discontinue it systematically. It may therefore be worthwhile to conduct a randomised control trial to establish recommendations on drainage after surgery for LGTP.
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- 2022
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19. Bacterial infection-driven lymphomagenesis
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Vannata, Barbara, Pirosa, Maria Cristina, Bertoni, Francesco, Rossi, Davide, and Zucca, Emanuele
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- 2022
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20. Detection of early seeding of Richter transformation in chronic lymphocytic leukemia
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Nadeu, Ferran, Royo, Romina, Massoni-Badosa, Ramon, Playa-Albinyana, Heribert, Garcia-Torre, Beatriz, Duran-Ferrer, Martí, Dawson, Kevin J., Kulis, Marta, Diaz-Navarro, Ander, Villamor, Neus, Melero, Juan L., Chapaprieta, Vicente, Dueso-Barroso, Ana, Delgado, Julio, Moia, Riccardo, Ruiz-Gil, Sara, Marchese, Domenica, Giró, Ariadna, Verdaguer-Dot, Núria, Romo, Mónica, Clot, Guillem, Rozman, Maria, Frigola, Gerard, Rivas-Delgado, Alfredo, Baumann, Tycho, Alcoceba, Miguel, González, Marcos, Climent, Fina, Abrisqueta, Pau, Castellví, Josep, Bosch, Francesc, Aymerich, Marta, Enjuanes, Anna, Ruiz-Gaspà, Sílvia, López-Guillermo, Armando, Jares, Pedro, Beà, Sílvia, Capella-Gutierrez, Salvador, Gelpí, Josep Ll., López-Bigas, Núria, Torrents, David, Campbell, Peter J., Gut, Ivo, Rossi, Davide, Gaidano, Gianluca, Puente, Xose S., Garcia-Roves, Pablo M., Colomer, Dolors, Heyn, Holger, Maura, Francesco, Martín-Subero, José I., and Campo, Elías
- Abstract
Richter transformation (RT) is a paradigmatic evolution of chronic lymphocytic leukemia (CLL) into a very aggressive large B cell lymphoma conferring a dismal prognosis. The mechanisms driving RT remain largely unknown. We characterized the whole genome, epigenome and transcriptome, combined with single-cell DNA/RNA-sequencing analyses and functional experiments, of 19 cases of CLL developing RT. Studying 54 longitudinal samples covering up to 19 years of disease course, we uncovered minute subclones carrying genomic, immunogenetic and transcriptomic features of RT cells already at CLL diagnosis, which were dormant for up to 19 years before transformation. We also identified new driver alterations, discovered a new mutational signature (SBS-RT), recognized an oxidative phosphorylation (OXPHOS)high–B cell receptor (BCR)low-signaling transcriptional axis in RT and showed that OXPHOS inhibition reduces the proliferation of RT cells. These findings demonstrate the early seeding of subclones driving advanced stages of cancer evolution and uncover potential therapeutic targets for RT.
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- 2022
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21. SAKK 35/15: a phase 1 trial of obinutuzumab in combination with venetoclax in patients with previously untreated follicular lymphoma
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Stathis, Anastasios, Mey, Ulrich, Schär, Sämi, Hitz, Felicitas, Pott, Christiane, Mach, Nicolas, Krasniqi, Fatime, Novak, Urban, Schmidt, Christian, Hohloch, Karin, Kienle, Dirk Lars, Hess, Dagmar, Moccia, Alden A., Unterhalt, Michael, Eckhardt, Katrin, Hayoz, Stefanie, Forestieri, Gabriela, Rossi, Davide, Dirnhofer, Stefan, Ceriani, Luca, Sartori, Giulio, Bertoni, Francesco, Buske, Christian, Zucca, Emanuele, and Hiddemann, Wolfgang
- Abstract
This phase 1 study evaluated safety, tolerability, and preliminary efficacy of obinutuzumab in combination with venetoclax in patients with previously untreated grade 1-3a follicular lymphoma in need of systemic therapy. Two DLs of venetoclax were evaluated with an expansion cohort at the recommended phase 2 dose. Twenty-five patients were enrolled. The recommended phase 2 dose was venetoclax 800 mg OD continuously for 6 cycles starting on day 2 of cycle 1, with obinutuzumab 1000 mg on days 1, 8, and 15 of cycle 1 and on day 1 of cycles 2 to 6, followed by obinutuzumab maintenance every 2 months for 2 years. Only 1 patient had a DLT consisting of grade 4 thrombocytopenia after the first obinutuzumab infusion. Neutropenia was the most common adverse event of grade ≥3 at least possibly attributed to study treatment. Twenty-four patients were evaluable for response after cycle 6 by computed tomography (CT) and 19 by positron emission tomography/CT (PET/CT): overall and complete response rates were 87.5% (95% CI, 67.6% to 97.3%) and 25% (95% CI, 9.8% to 46.7%) in the CT-evaluated patients and 84.2% (95% CI, 60.4% to 96.6%) and 68.4% (95% CI, 43.4% to 87.4%), respectively, in the PET/CT-evaluated patients. One-year progression-free survival was 77.8% (95% CI, 54.6% to 90.1%) and 79% (95% CI, 47.9% to 92.7%) for CT and PET/CT-evaluable patients, respectively, whereas progression-free survival at 30 months was 73.2% (95% CI, 49.8%, 87.0%) as assessed by CT and 79.0% (95% CI, 47.9%, 92.7%) by PET/CT. Despite the activity observed, our results do not support further development of the combination in this patient population. This trial was registered at www.clinicaltrials.gov as #NCT02877550.
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- 2022
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22. SAKK 35/15: a phase 1 trial of obinutuzumab in combination with venetoclax in patients with previously untreated follicular lymphoma
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Stathis, Anastasios, Mey, Ulrich, Schär, Sämi, Hitz, Felicitas, Pott, Christiane, Mach, Nicolas, Krasniqi, Fatime, Novak, Urban, Schmidt, Christian, Hohloch, Karin, Kienle, Dirk Lars, Hess, Dagmar, Moccia, Alden A., Unterhalt, Michael, Eckhardt, Katrin, Hayoz, Stefanie, Forestieri, Gabriela, Rossi, Davide, Dirnhofer, Stefan, Ceriani, Luca, Sartori, Giulio, Bertoni, Francesco, Buske, Christian, Zucca, Emanuele, and Hiddemann, Wolfgang
- Abstract
This phase 1 study evaluated safety, tolerability, and preliminary efficacy of obinutuzumab in combination with venetoclax in patients with previously untreated grade 1-3a follicular lymphoma in need of systemic therapy. Two DLs of venetoclax were evaluated with an expansion cohort at the recommended phase 2 dose. Twenty-five patients were enrolled. The recommended phase 2 dose was venetoclax 800 mg OD continuously for 6 cycles starting on day 2 of cycle 1, with obinutuzumab 1000 mg on days 1, 8, and 15 of cycle 1 and on day 1 of cycles 2 to 6, followed by obinutuzumab maintenance every 2 months for 2 years. Only 1 patient had a DLT consisting of grade 4 thrombocytopenia after the first obinutuzumab infusion. Neutropenia was the most common adverse event of grade ≥3 at least possibly attributed to study treatment. Twenty-four patients were evaluable for response after cycle 6 by computed tomography (CT) and 19 by positron emission tomography/CT (PET/CT): overall and complete response rates were 87.5% (95% CI, 67.6% to 97.3%) and 25% (95% CI, 9.8% to 46.7%) in the CT-evaluated patients and 84.2% (95% CI, 60.4% to 96.6%) and 68.4% (95% CI, 43.4% to 87.4%), respectively, in the PET/CT-evaluated patients. One-year progression-free survival was 77.8% (95% CI, 54.6% to 90.1%) and 79% (95% CI, 47.9% to 92.7%) for CT and PET/CT-evaluable patients, respectively, whereas progression-free survival at 30 months was 73.2% (95% CI, 49.8%, 87.0%) as assessed by CT and 79.0% (95% CI, 47.9%, 92.7%) by PET/CT. Despite the activity observed, our results do not support further development of the combination in this patient population. This trial was registered at www.clinicaltrials.govas #NCT02877550.
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- 2022
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23. Short Diagnosis-to-Treatment Interval Is Associated With Higher Circulating Tumor DNA Levels in Diffuse Large B-Cell Lymphoma.
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Alig, Stefan, Macaulay, Charles W, Kurtz, David M, Dührsen, Ulrich, Hüttmann, Andreas, Schmitz, Christine, Jin, Michael C, Sworder, Brian J, Garofalo, Andrea, Shahrokh Esfahani, Mohammad, Nabet, Barzin Y, Soo, Joanne, Scherer, Florian, Craig, Alexander F M, Casasnovas, Olivier, Westin, Jason R, Gaidano, Gianluca, Rossi, Davide, Roschewski, Mark, and Wilson, Wyndham H
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- 2021
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24. Genetic and phenotypic attributes of splenic marginal zone lymphoma
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Bonfiglio, Ferdinando, Bruscaggin, Alessio, Guidetti, Francesca, Terzi di Bergamo, Lodovico, Faderl, Martin, Spina, Valeria, Condoluci, Adalgisa, Bonomini, Luisella, Forestieri, Gabriela, Koch, Ricardo, Piffaretti, Deborah, Pini, Katia, Pirosa, Maria Cristina, Cittone, Micol Giulia, Arribas, Alberto, Lucioni, Marco, Ghilardi, Guido, Wu, Wei, Arcaini, Luca, Baptista, Maria Joao, Bastidas, Gabriela, Bea, Silvia, Boldorini, Renzo, Broccoli, Alessandro, Buehler, Marco Matteo, Canzonieri, Vincenzo, Cascione, Luciano, Ceriani, Luca, Cogliatti, Sergio, Corradini, Paolo, Derenzini, Enrico, Devizzi, Liliana, Dietrich, Sascha, Elia, Angela Rita, Facchetti, Fabio, Gaidano, Gianluca, Garcia, Juan Fernando, Gerber, Bernhard, Ghia, Paolo, Gomes da Silva, Maria, Gritti, Giuseppe, Guidetti, Anna, Hitz, Felicitas, Inghirami, Giorgio, Ladetto, Marco, Lopez-Guillermo, Armando, Lucchini, Elisa, Maiorana, Antonino, Marasca, Roberto, Matutes, Estella, Meignin, Veronique, Merli, Michele, Moccia, Alden, Mollejo, Manuela, Montalban, Carlos, Novak, Urban, Oscier, David Graham, Passamonti, Francesco, Piazza, Francesco, Pizzolitto, Stefano, Rambaldi, Alessandro, Sabattini, Elena, Salles, Gilles, Santambrogio, Elisa, Scarfò, Lydia, Stathis, Anastasios, Stüssi, Georg, Geyer, Julia T., Tapia, Gustavo, Tarella, Corrado, Thieblemont, Catherine, Tousseyn, Thomas, Tucci, Alessandra, Vanini, Giorgio, Visco, Carlo, Vitolo, Umberto, Walewska, Renata, Zaja, Francesco, Zenz, Thorsten, Zinzani, Pier Luigi, Khiabanian, Hossein, Calcinotto, Arianna, Bertoni, Francesco, Bhagat, Govind, Campo, Elias, De Leval, Laurence, Dirnhofer, Stefan, Pileri, Stefano A., Piris, Miguel A., Traverse-Glehen, Alexandra, Tzankov, Alexander, Paulli, Marco, Ponzoni, Maurilio, Mazzucchelli, Luca, Cavalli, Franco, Zucca, Emanuele, and Rossi, Davide
- Abstract
Splenic marginal zone B-cell lymphoma (SMZL) is a heterogeneous clinico-biological entity. The clinical course is variable, multiple genes are mutated with no unifying mechanism, and essential regulatory pathways and surrounding microenvironments are diverse. We sought to clarify the heterogeneity of SMZL by resolving different subgroups and their underlying genomic abnormalities, pathway signatures, and microenvironment compositions to uncover biomarkers and therapeutic vulnerabilities. We studied 303 SMZL spleen samples collected through the IELSG46 multicenter international study (NCT02945319) by using a multiplatform approach. We carried out genetic and phenotypic analyses, defined self-organized signatures, validated the findings in independent primary tumor metadata and determined correlations with outcome data. We identified 2 prominent genetic clusters in SMZL, termed NNK (58% of cases, harboring NF-κB, NOTCH, and KLF2 modules) and DMT (32% of cases, with DNA-damage response, MAPK, and TLR modules). Genetic aberrations in multiple genes as well as cytogenetic and immunogenetic features distinguished NNK- from DMT-SMZLs. These genetic clusters not only have distinct underpinning biology, as judged by differences in gene-expression signatures, but also different outcomes, with inferior survival in NNK-SMZLs. Digital cytometry and in situ profiling segregated 2 basic types of SMZL immune microenvironments termed immune-suppressive SMZL (50% of cases, associated with inflammatory cells and immune checkpoint activation) and immune-silent SMZL (50% of cases, associated with an immune-excluded phenotype) with distinct mutational and clinical connotations. In summary, we propose a nosology of SMZL that can implement its classification and also aid in the development of rationally targeted treatments.
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- 2022
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25. Genetic and phenotypic attributes of splenic marginal zone lymphoma
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Bonfiglio, Ferdinando, Bruscaggin, Alessio, Guidetti, Francesca, Terzi di Bergamo, Lodovico, Faderl, Martin, Spina, Valeria, Condoluci, Adalgisa, Bonomini, Luisella, Forestieri, Gabriela, Koch, Ricardo, Piffaretti, Deborah, Pini, Katia, Pirosa, Maria Cristina, Cittone, Micol Giulia, Arribas, Alberto, Lucioni, Marco, Ghilardi, Guido, Wu, Wei, Arcaini, Luca, Baptista, Maria Joao, Bastidas, Gabriela, Bea, Silvia, Boldorini, Renzo, Broccoli, Alessandro, Buehler, Marco Matteo, Canzonieri, Vincenzo, Cascione, Luciano, Ceriani, Luca, Cogliatti, Sergio, Corradini, Paolo, Derenzini, Enrico, Devizzi, Liliana, Dietrich, Sascha, Elia, Angela Rita, Facchetti, Fabio, Gaidano, Gianluca, Garcia, Juan Fernando, Gerber, Bernhard, Ghia, Paolo, Gomes da Silva, Maria, Gritti, Giuseppe, Guidetti, Anna, Hitz, Felicitas, Inghirami, Giorgio, Ladetto, Marco, Lopez-Guillermo, Armando, Lucchini, Elisa, Maiorana, Antonino, Marasca, Roberto, Matutes, Estella, Meignin, Veronique, Merli, Michele, Moccia, Alden, Mollejo, Manuela, Montalban, Carlos, Novak, Urban, Oscier, David Graham, Passamonti, Francesco, Piazza, Francesco, Pizzolitto, Stefano, Rambaldi, Alessandro, Sabattini, Elena, Salles, Gilles, Santambrogio, Elisa, Scarfò, Lydia, Stathis, Anastasios, Stüssi, Georg, Geyer, Julia T., Tapia, Gustavo, Tarella, Corrado, Thieblemont, Catherine, Tousseyn, Thomas, Tucci, Alessandra, Vanini, Giorgio, Visco, Carlo, Vitolo, Umberto, Walewska, Renata, Zaja, Francesco, Zenz, Thorsten, Zinzani, Pier Luigi, Khiabanian, Hossein, Calcinotto, Arianna, Bertoni, Francesco, Bhagat, Govind, Campo, Elias, De Leval, Laurence, Dirnhofer, Stefan, Pileri, Stefano A., Piris, Miguel A., Traverse-Glehen, Alexandra, Tzankov, Alexander, Paulli, Marco, Ponzoni, Maurilio, Mazzucchelli, Luca, Cavalli, Franco, Zucca, Emanuele, and Rossi, Davide
- Abstract
Splenic marginal zone B-cell lymphoma (SMZL) is a heterogeneous clinico-biological entity. The clinical course is variable, multiple genes are mutated with no unifying mechanism, and essential regulatory pathways and surrounding microenvironments are diverse. We sought to clarify the heterogeneity of SMZL by resolving different subgroups and their underlying genomic abnormalities, pathway signatures, and microenvironment compositions to uncover biomarkers and therapeutic vulnerabilities. We studied 303 SMZL spleen samples collected through the IELSG46 multicenter international study (NCT02945319) by using a multiplatform approach. We carried out genetic and phenotypic analyses, defined self-organized signatures, validated the findings in independent primary tumor metadata and determined correlations with outcome data. We identified 2 prominent genetic clusters in SMZL, termed NNK (58% of cases, harboring NF-κB, NOTCH, and KLF2modules) and DMT (32% of cases, with DNA-damage response, MAPK, and TLR modules). Genetic aberrations in multiple genes as well as cytogenetic and immunogenetic features distinguished NNK- from DMT-SMZLs. These genetic clusters not only have distinct underpinning biology, as judged by differences in gene-expression signatures, but also different outcomes, with inferior survival in NNK-SMZLs. Digital cytometry and in situ profiling segregated 2 basic types of SMZL immune microenvironments termed immune-suppressive SMZL (50% of cases, associated with inflammatory cells and immune checkpoint activation) and immune-silent SMZL (50% of cases, associated with an immune-excluded phenotype) with distinct mutational and clinical connotations. In summary, we propose a nosology of SMZL that can implement its classification and also aid in the development of rationally targeted treatments.
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- 2022
- Full Text
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26. A Heterogeneous In-Memory Computing Cluster for Flexible End-to-End Inference of Real-World Deep Neural Networks
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Garofalo, Angelo, Ottavi, Gianmarco, Conti, Francesco, Karunaratne, Geethan, Boybat, Irem, Benini, Luca, and Rossi, Davide
- Abstract
Deployment of modern TinyML tasks on small battery-constrained IoT devices requires high computational energy efficiency. Analog In-Memory Computing (IMC) using non-volatile memory (NVM) promises major efficiency improvements in deep neural network (DNN) inference and serves as on-chip memory storage for DNN weights. However, IMC’s functional flexibility limitations and their impact on performance, energy, and area efficiency are not yet fully understood at the system level. To target practical end-to-end IoT applications, IMC arrays must be enclosed in heterogeneous programmable systems, introducing new system-level challenges which we aim at addressing in this work. We present a heterogeneous tightly-coupled clustered architecture integrating 8 RISC-V cores, an in-memory computing accelerator (IMA), and digital accelerators. We benchmark the system on a highly heterogeneous workload such as the Bottleneck layer from a MobileNetV2, showing
$11.5\times $ $9.5\times $ - Published
- 2022
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27. Mechanisms of resistance to venetoclax
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Condoluci, Adalgisa and Rossi, Davide
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- 2022
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28. Clonal Evolution of Chronic Lymphocytic Leukemia with Bimodal CD49d Expression Reveals CD49d Plasticity
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Tissino, Erika, Calonaci, Nicola, Pozzo, Federico, Forestieri, Gabriela, Terzi Di Bergamo, Lodovico, Vit, Filippo, Gaglio, Annalisa, Bergamin, Riccardo, Milite, Salvatore, Cozzini, Stefano, Del Principe, Maria Ilaria, Laureana, Roberta, Chiarenza, Annalisa, Olivieri, Jacopo, Zaja, Francesco, Fabbris, Cristoforo, Lupato, Valentina, Bomben, Riccardo, Rossi, Davide, Gattei, Valter, Zucchetto, Antonella, and Caravagna, Giulio
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- 2022
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29. Clonal Evolution of Chronic Lymphocytic Leukemia with Bimodal CD49d Expression Reveals CD49d Plasticity
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Tissino, Erika, Calonaci, Nicola, Pozzo, Federico, Forestieri, Gabriela, Terzi Di Bergamo, Lodovico, Vit, Filippo, Gaglio, Annalisa, Bergamin, Riccardo, Milite, Salvatore, Cozzini, Stefano, Del Principe, Maria Ilaria, Laureana, Roberta, Chiarenza, Annalisa, Olivieri, Jacopo, Zaja, Francesco, Fabbris, Cristoforo, Lupato, Valentina, Bomben, Riccardo, Rossi, Davide, Gattei, Valter, Zucchetto, Antonella, and Caravagna, Giulio
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- 2022
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30. A Comprehensive DNA Methylome Analysis of Stereotyped and Non-Stereotyped CLL Reveals an Epigenetic Signature with Strong Clinical Impact Encompassing IGHV Status, Stereotypes and IGLV3-21R110
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Duran-Ferrer, Martí, Mansouri, Larry, Nadeu, Ferran, Clot, Guillem, Bhoi, Sujata, Ann Sutton, Lesley, Baliakas, Panagiotis, Ek, Sara, Kuci Emruli, Venera, Plevova, Karla, Davis, Zadie, Goransson-Kultima, Hanna, Isaksson, Anders, Smedby, Karin E., Gaidano, Gianluca, Langerak, Anton W., Davi, Frederic, Rossi, Davide, Oscier, David, Pospisilova, Sarka, Karypidou, Maria, Agathangelidis, Andreas, Huber, Wolfgang, Lu, Junyan, Zenz, Thorsten, Delgado, Julio, Lopez-Guillermo, Armando, Ghia, Paolo, Campo, Elías, Stamatopoulos, Kostas, Rosenquist, Richard, and Martín-Subero, José I.
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- 2022
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31. A Comprehensive DNA Methylome Analysis of Stereotyped and Non-Stereotyped CLL Reveals an Epigenetic Signature with Strong Clinical Impact Encompassing IGHV Status, Stereotypes and IGLV3-21R110
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Duran-Ferrer, Martí, Mansouri, Larry, Nadeu, Ferran, Clot, Guillem, Bhoi, Sujata, Ann Sutton, Lesley, Baliakas, Panagiotis, Ek, Sara, Kuci Emruli, Venera, Plevova, Karla, Davis, Zadie, Goransson-Kultima, Hanna, Isaksson, Anders, Smedby, Karin E., Gaidano, Gianluca, Langerak, Anton W., Davi, Frederic, Rossi, Davide, Oscier, David, Pospisilova, Sarka, Karypidou, Maria, Agathangelidis, Andreas, Huber, Wolfgang, Lu, Junyan, Zenz, Thorsten, Delgado, Julio, Lopez-Guillermo, Armando, Ghia, Paolo, Campo, Elías, Stamatopoulos, Kostas, Rosenquist, Richard, and Martín-Subero, José I.
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- 2022
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32. Circulating tumor DNA for comprehensive noninvasive monitoring of lymphoma treated with ibrutinib plus nivolumab
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Bruscaggin, Alessio, di Bergamo, Lodovico Terzi, Spina, Valeria, Hodkinson, Brendan, Forestieri, Gabriela, Bonfiglio, Ferdinando, Condoluci, Adalgisa, Wu, Wei, Pirosa, Maria C., Faderl, Martin R., Koch, Ricardo, Schaffer, Michael, Alvarez, John D., Fourneau, Nele, Gerber, Bernhard, Stussi, Georg, Zucca, Emanuele, Balasubramanian, Sriram, and Rossi, Davide
- Abstract
To advance the use of circulating tumor DNA (ctDNA) applications, their broad clinical validity must be tested in different treatment settings, including targeted therapies. Using the prespecified longitudinal systematic collection of plasma samples in the phase 1/2a LYM1002 trial (registered on www.clinicaltrials.gov as NCT02329847), we tested the clinical validity of ctDNA for baseline mutation profiling, residual tumor load quantification, and acquisition of resistance mutations in patients with lymphoma treated with ibrutinib+nivolumab. Inclusion criterion for this ancillary biological study was the availability of blood collected at baseline and cycle 3, day 1. Overall, 172 ctDNA samples from 67 patients were analyzed by the LyV4.0 ctDNA Cancer Personalized Profiling Deep Sequencing Assay. Among baseline variants in ctDNA, only TP53 mutations (detected in 25.4% of patients) were associated with shorter progression-free survival; clones harboring baseline TP53 mutations did not disappear during treatment. Molecular response, defined as a >2-log reduction in ctDNA levels after 2 cycles of therapy (28 days), was achieved in 28.6% of patients with relapsed diffuse large B-cell lymphoma who had ≥1 baseline variant and was associated with best response and improved progression-free survival. Clonal evolution occurred frequently during treatment, and 10.3% new mutations were identified after 2 treatment cycles in nonresponders. PLCG2 was the topmost among genes that acquired new mutations. No patients acquired the C481S BTK mutation implicated in resistance to ibrutinib in CLL. Collectively, our results provide the proof of concept that ctDNA is useful for noninvasive monitoring of lymphoma treated with targeted agents in the clinical trial setting.
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- 2021
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33. Circulating tumor DNA for comprehensive noninvasive monitoring of lymphoma treated with ibrutinib plus nivolumab
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Bruscaggin, Alessio, di Bergamo, Lodovico Terzi, Spina, Valeria, Hodkinson, Brendan, Forestieri, Gabriela, Bonfiglio, Ferdinando, Condoluci, Adalgisa, Wu, Wei, Pirosa, Maria C., Faderl, Martin R., Koch, Ricardo, Schaffer, Michael, Alvarez, John D., Fourneau, Nele, Gerber, Bernhard, Stussi, Georg, Zucca, Emanuele, Balasubramanian, Sriram, and Rossi, Davide
- Abstract
To advance the use of circulating tumor DNA (ctDNA) applications, their broad clinical validity must be tested in different treatment settings, including targeted therapies. Using the prespecified longitudinal systematic collection of plasma samples in the phase 1/2a LYM1002 trial (registered on www.clinicaltrials.govas NCT02329847), we tested the clinical validity of ctDNA for baseline mutation profiling, residual tumor load quantification, and acquisition of resistance mutations in patients with lymphoma treated with ibrutinib+nivolumab. Inclusion criterion for this ancillary biological study was the availability of blood collected at baseline and cycle 3, day 1. Overall, 172 ctDNA samples from 67 patients were analyzed by the LyV4.0 ctDNA Cancer Personalized Profiling Deep Sequencing Assay. Among baseline variants in ctDNA, only TP53mutations (detected in 25.4% of patients) were associated with shorter progression-free survival; clones harboring baseline TP53mutations did not disappear during treatment. Molecular response, defined as a >2-log reduction in ctDNA levels after 2 cycles of therapy (28 days), was achieved in 28.6% of patients with relapsed diffuse large B-cell lymphoma who had ≥1 baseline variant and was associated with best response and improved progression-free survival. Clonal evolution occurred frequently during treatment, and 10.3% new mutations were identified after 2 treatment cycles in nonresponders. PLCG2was the topmost among genes that acquired new mutations. No patients acquired the C481S BTKmutation implicated in resistance to ibrutinib in CLL. Collectively, our results provide the proof of concept that ctDNA is useful for noninvasive monitoring of lymphoma treated with targeted agents in the clinical trial setting.
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- 2021
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34. Measurable residual disease in chronic lymphocytic leukemia: expert review and consensus recommendations
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Wierda, William G., Rawstron, Andrew, Cymbalista, Florence, Badoux, Xavier, Rossi, Davide, Brown, Jennifer R., Egle, Alexander, Abello, Virginia, Cervera Ceballos, Eduardo, Herishanu, Yair, Mulligan, Stephen P., Niemann, Carsten U., Diong, Colin P., Soysal, Teoman, Suzuki, Ritsuro, Tran, Hoa T. T., Wu, Shang-Ju, Owen, Carolyn, Stilgenbauer, Stephan, Ghia, Paolo, and Hillmen, Peter
- Abstract
Assessment of measurable residual disease (often referred to as “minimal residual disease”) has emerged as a highly sensitive indicator of disease burden during and at the end of treatment and has been correlated with time-to-event outcomes in chronic lymphocytic leukemia. Undetectable-measurable residual disease status at the end of treatment demonstrated independent prognostic significance in chronic lymphocytic leukemia, correlating with favorable progression-free and overall survival with chemoimmunotherapy. Given its utility in evaluating depth of response, determining measurable residual disease status is now a focus of outcomes in chronic lymphocytic leukemia clinical trials. Increased adoption of measurable residual disease assessment calls for standards for nomenclature and outcomes data reporting. In addition, many basic questions have not been systematically addressed. Here, we present the work of an international, multidisciplinary, 174-member panel convened to identify critical questions on key issues pertaining to measurable residual disease in chronic lymphocytic leukemia, review evaluable data, develop unified answers in conjunction with local expert input, and provide recommendations for future studies. Recommendations are presented regarding methodology for measurable residual disease determination, assay requirements and in which tissue to assess measurable residual disease, timing and frequency of assessment, use of measurable residual disease in clinical practice versus clinical trials, and the future usefulness of measurable residual disease assessment. Nomenclature is also proposed. Adoption of these recommendations will work toward standardizing data acquisition and interpretation in future studies with new treatments with the ultimate objective of improving outcomes and curing chronic lymphocytic leukemia.
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- 2021
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35. Lymphocyte doubling time in chronic lymphocytic leukemia modern era: a real-life study in 848 unselected patients
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Baumann, Tycho, Moia, Riccardo, Gaidano, Gianluca, Delgado, Julio, Condoluci, Adalgisa, Villamor, Neus, Payedimarri, Anil Babu, Costa, Dolors, Patriarca, Andrea, Jiménez-Vicente, Carlos, Rossi, Davide, and Montserrat, Emili
- Abstract
The prognostic significance of lymphocyte doubling time (LDT) in chronic lymphocytic leukemia (CLL) was identified when the biology of the disease was poorly understood and therapy was not effective. We assessed the clinical and biological significance of LDT in 848 CLL patients in a real-life setting and the context of new biomarkers and effective therapy. A short LDT (≤12 months) was enriched for adverse biomarkers. Patients with a rapid LDT did need therapy shortly after diagnosis (median 23 months vs. not reached; p< 0.001) and had a poorer overall survival (median 95 months vs. not reached p< 0.001). LDT, IGHV mutational status, Beta-2 microglobulin, and Rai clinical stage were independent predictors for time to first treatment in the whole series and in Binet stage A patients. No correlation was observed between LDT and response to chemoimmunotherapy. However, a short LDT along with age ≥65 years, high-risk FISH (del(17p), del(11q)), unmutated IGHV, increased Beta-2 microglobulin, and TP53 mutations predicted short survival. Moreover, the prognostic significance of LDT was independent of the CLL-IPI and the Barcelona/Brno prognostic model. LDT remains an important outcome marker in the modern CLL era and should be incorporated into the clinical assessment and stratification of CLL patients.
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- 2021
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36. Genomic and transcriptomic correlates of Richter transformation in chronic lymphocytic leukemia
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Klintman, Jenny, Appleby, Niamh, Stamatopoulos, Basile, Ridout, Katie, Eyre, Toby A., Robbe, Pauline, Pascua, Laura Lopez, Knight, Samantha J.L., Dreau, Helene, Cabes, Maite, Popitsch, Niko, Ehinger, Mats, Martín-Subero, Jose I., Campo, Elías, Månsson, Robert, Rossi, Davide, Taylor, Jenny C., Vavoulis, Dimitrios V., and Schuh, Anna
- Abstract
The transformation of chronic lymphocytic leukemia (CLL) to high-grade B-cell lymphoma is known as Richter syndrome (RS), a rare event with dismal prognosis. In this study, we conducted whole-genome sequencing (WGS) of paired circulating CLL (PB-CLL) and RS biopsies (tissue-RS) from 17 patients recruited into a clinical trial (CHOP-O). We found that tissue-RS was enriched for mutations in poor-risk CLL drivers and genes in the DNA damage response (DDR) pathway. In addition, we identified genomic aberrations not previously implicated in RS, including the protein tyrosine phosphatase receptor (PTPRD) and tumor necrosis factor receptor–associated factor 3 (TRAF3). In the noncoding genome, we discovered activation-induced cytidine deaminase–related and unrelated kataegis in tissue-RS affecting regulatory regions of key immune-regulatory genes. These include BTG2, CXCR4, NFATC1, PAX5, NOTCH-1, SLC44A5, FCRL3, SELL, TNIP2, and TRIM13. Furthermore, differences between the global mutation signatures of pairs of PB-CLL and tissue-RS samples implicate DDR as the dominant mechanism driving transformation. Pathway-based clonal deconvolution analysis showed that genes in the MAPK and DDR pathways demonstrate high clonal-expansion probability. Direct comparison of nodal-CLL and tissue-RS pairs from an independent cohort confirmed differential expression of the same pathways by RNA expression profiling. Our integrated analysis of WGS and RNA expression data significantly extends previous targeted approaches, which were limited by the lack of germline samples, and it facilitates the identification of novel genomic correlates implicated in RS transformation, which could be targeted therapeutically. Our results inform the future selection of investigative agents for a UK clinical platform study. This trial was registered at www.clinicaltrials.govas #NCT03899337.
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- 2021
- Full Text
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37. Genomic and transcriptomic correlates of Richter transformation in chronic lymphocytic leukemia
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Klintman, Jenny, Appleby, Niamh, Stamatopoulos, Basile, Ridout, Katie, Eyre, Toby A., Robbe, Pauline, Pascua, Laura Lopez, Knight, Samantha J. L., Dreau, Helene, Cabes, Maite, Popitsch, Niko, Ehinger, Mats, Martín-Subero, Jose I., Campo, Elías, Månsson, Robert, Rossi, Davide, Taylor, Jenny C., Vavoulis, Dimitrios V., and Schuh, Anna
- Abstract
The transformation of chronic lymphocytic leukemia (CLL) to high-grade B-cell lymphoma is known as Richter syndrome (RS), a rare event with dismal prognosis. In this study, we conducted whole-genome sequencing (WGS) of paired circulating CLL (PB-CLL) and RS biopsies (tissue-RS) from 17 patients recruited into a clinical trial (CHOP-O). We found that tissue-RS was enriched for mutations in poor-risk CLL drivers and genes in the DNA damage response (DDR) pathway. In addition, we identified genomic aberrations not previously implicated in RS, including the protein tyrosine phosphatase receptor (PTPRD) and tumor necrosis factor receptor–associated factor 3 (TRAF3). In the noncoding genome, we discovered activation-induced cytidine deaminase–related and unrelated kataegis in tissue-RS affecting regulatory regions of key immune-regulatory genes. These include BTG2, CXCR4, NFATC1, PAX5, NOTCH-1, SLC44A5, FCRL3, SELL, TNIP2, and TRIM13. Furthermore, differences between the global mutation signatures of pairs of PB-CLL and tissue-RS samples implicate DDR as the dominant mechanism driving transformation. Pathway-based clonal deconvolution analysis showed that genes in the MAPK and DDR pathways demonstrate high clonal-expansion probability. Direct comparison of nodal-CLL and tissue-RS pairs from an independent cohort confirmed differential expression of the same pathways by RNA expression profiling. Our integrated analysis of WGS and RNA expression data significantly extends previous targeted approaches, which were limited by the lack of germline samples, and it facilitates the identification of novel genomic correlates implicated in RS transformation, which could be targeted therapeutically. Our results inform the future selection of investigative agents for a UK clinical platform study. This trial was registered at www.clinicaltrials.gov as #NCT03899337.
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- 2021
- Full Text
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38. Richter syndrome: pathogenesis and management
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Rossi, Davide and Gaidano, Gianluca
- Abstract
Richter syndrome (RS) is the development of an aggressive lymphoma in patients with a previous or concomitant diagnosis of chronic lymphocytic leukemia (CLL). The incidence rate RS is ~0.5% per year of observation. Two biomarkers (NOTCH1mutations and subset 8 configuration of the B-cell receptor) may help identifying CLL patients at risk of RS to be considered for close monitoring and a careful biopsy policy. In the presence of clinical features suspicious of RS, diagnosis of transformation and choice of the site of biopsy may take advantage of fluorine 18 fluorodeoxyglucose (18FDG) positron emission tomography (PET)/computed tomography (CT). Molecular lesions of regulators of tumor suppression (TP53), cell cycle (CDKN2A), and cell proliferation (NOTCH1, MYC) overall account for ~90% of RS and may be responsible for the aggressive clinical phenotype observed in this disease because of the combined effect of chemoresistance and rapid disease kinetics. The prognosis of RS is generally highly unfavorable. However, the pattern of survival is not homogeneous and the most important prognostic factor is the clonal relationship between the CLL and the aggressive lymphoma clones. Rituximab-containing polychemotherapy represents the backbone for induction treatment in RS. Younger patients who respond to induction therapy should be offered stem cell transplant (SCT) to prolong survival.
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- 2024
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39. Characterization of Structure-Surface Correlations in Ointments Using Surface Tensiometry within the Concept of an Integrated Analytical Approach
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Rossi, Davide, Lazzari, Giulia, Franceschinis, Erica, Vettorato, Elisa, and Realdon, Nicola
- Abstract
In recent years, integrated data analysis has proven to be a valuable method for investigating complex systems, whether artificial or natural. The integrated analytical approach allows the simultaneous integration of data acquired from different analytical techniques employed for the same sample at the same time, leading to an expansion of the amount of information available. Surface tensiometry is a technique that was recently introduced in the Integrated Analytical Approach for investigating pharmaceutical dosage forms for topical application. Therefore, studies of rheological characterization, release, and skin permeation can be integrated with surface tensiometry measurements to develop chemical and rheological-surface correlation models, providing a new method for the quality control and process control of semisolid preparations. In this context, the aim of this research is to validate the utility of surface tensiometry measurements in the Integrated Analytical Approach and utilize these data to gain insights into the structure-surface correlation. The preparations chosen for this study were a PEG-gel, a lipogel, and an O/W cream containing carnitine as a model drug. The formulations were characterized using rheological measurements and evaluated for their carnitine release performance. Furthermore, surface tensiometry measurements were performed to rapidly and noninvasively assess the influence of carnitine on the surface properties of the semisolid preparations investigated. Our work demonstrated a close correlation between surface energy and structural data, showing the importance of surface tensiometry contribution in the noninvasive and rapid evaluation of the presence of carnitine in semisolid formulations.
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- 2024
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40. Thromboembolic and bleeding risk in cardiac amyloidosis
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Tana, Marco, Tana, Claudio, Rossi, Davide, Mantini, Cesare, Gallina, Sabina, Ricci, Fabrizio, and Porreca, Ettore
- Abstract
Cardiac amyloidosis represents a spectrum of conditions characterized by the accumulation of insoluble fibrils, resulting in progressive deposition and myocardial dysfunction. The exact mechanisms contributing to the heightened risk of thromboembolic events and bleeding tendencies in cardiac amyloidosis remain unclear. Proteins such as transthyretin in transthyretin amyloidosis and light chains in light-chain amyloidosis, along with acute phase proteins in amyloid A (AA) amyloidosis, play complex roles in the coagulation cascade, affecting both coagulation initiation and fibrinolysis regulation. The increased occurrence of atrial fibrillation, systolic and diastolic left ventricular dysfunction, and atrial myopathy in patients with cardiac amyloidosis may predispose them to thrombus formation. This predisposition can occur regardless of sinus rhythm status or even with proper anticoagulant management. Bleeding events are often linked to amyloid deposits around blood vessels, which may increase capillary fragility and cause coagulation disturbances, leading to unstable international normalized ratio levels during anticoagulant therapy. Thus, comprehensive risk assessment for both thrombotic and hemorrhagic complications, especially before commencing anticoagulant therapy, is imperative. This review will explore the essential pathophysiological, epidemiologic, and clinical aspects of thromboembolic and bleeding risk in cardiac amyloidosis, evaluating the existing evidence and uncertainties regarding thrombotic and bleeding risk assessment and antithrombotic treatment.
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- 2024
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41. Marginal Zone Lymphomas.
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Bertoni, Francesco, Rossi, Davide, Raderer, Markus, and Zucca, Emanuele
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RESEARCH ,RESEARCH methodology ,B cell lymphoma ,MEDICAL cooperation ,EVALUATION research ,COMPARATIVE studies - Abstract
There are three different marginal zone lymphoma (MZLs) entities: the extranodal MZL of mucosa- associated lymphoid tissue, the splenic MZL, and the nodal MZL. The 3 MZLs share common lesions (trisomies of chromosomes 3 and 18, deletions at 6q23), and alterations of the nuclear factor κB pathway are frequent events in all of them, but they also differ in the presence of recurrent translocations, mutations affecting the NOTCH pathway, and the transcription factor Kruppel-like factor 2 (KLF2) or the receptor-type protein tyrosine phosphatase delta (PTPRD). This review outlines the most recent and main advances in our understanding of the genetics and biology of MZLs and summarizes the clinical activity of the novel therapeutic approaches targeting the main druggable pathways. The current principles of the standard management of MZL at different anatomic sites are also discussed. [ABSTRACT FROM AUTHOR]
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- 2020
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42. Higher-order connections between stereotyped subsets: implications for improved patient classification in CLL
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Agathangelidis, Andreas, Chatzidimitriou, Anastasia, Gemenetzi, Katerina, Giudicelli, Veronique, Karypidou, Maria, Plevova, Karla, Davis, Zadie, Yan, Xiao-Jie, Jeromin, Sabine, Schneider, Christof, Pedersen, Lone Bredo, Tschumper, Renee C., Sutton, Lesley-Ann, Baliakas, Panagiotis, Scarfò, Lydia, van Gastel, Ellen J., Armand, Marine, Tausch, Eugen, Biderman, Bella, Baer, Constance, Bagnara, Davide, Navarro, Alba, Langlois de Septenville, Anne, Guido, Valentina, Mitterbauer-Hohendanner, Gerlinde, Dimovski, Aleksandar, Brieghel, Christian, Lawless, Sarah, Meggendorfer, Manja, Brazdilova, Kamila, Ritgen, Matthias, Facco, Monica, Tresoldi, Cristina, Visentin, Andrea, Patriarca, Andrea, Catherwood, Mark, Bonello, Lisa, Sudarikov, Andrey, Vanura, Katrina, Roumelioti, Maria, Skuhrova Francova, Hana, Moysiadis, Theodoros, Veronese, Silvio, Giannopoulos, Krzysztof, Mansouri, Larry, Karan-Djurasevic, Teodora, Sandaltzopoulos, Raphael, Bödör, Csaba, Fais, Franco, Kater, Arnon, Panovska, Irina, Rossi, Davide, Alshemmari, Salem, Panagiotidis, Panagiotis, Costeas, Paul, Espinet, Blanca, Antic, Darko, Foroni, Letizia, Montillo, Marco, Trentin, Livio, Stavroyianni, Niki, Gaidano, Gianluca, Francia di Celle, Paola, Niemann, Carsten, Campo, Elias, Anagnostopoulos, Achilles, Pott, Christiane, Fischer, Kirsten, Hallek, Michael, Oscier, David, Stilgenbauer, Stephan, Haferlach, Claudia, Jelinek, Diane, Chiorazzi, Nicholas, Pospisilova, Sarka, Lefranc, Marie-Paule, Kossida, Sofia, Langerak, Anton W., Belessi, Chrysoula, Davi, Frederic, Rosenquist, Richard, Ghia, Paolo, and Stamatopoulos, Kostas
- Abstract
Chronic lymphocytic leukemia (CLL) is characterized by the existence of subsets of patients with (quasi)identical, stereotyped B-cell receptor (BcR) immunoglobulins. Patients in certain major stereotyped subsets often display remarkably consistent clinicobiological profiles, suggesting that the study of BcR immunoglobulin stereotypy in CLL has important implications for understanding disease pathophysiology and refining clinical decision-making. Nevertheless, several issues remain open, especially pertaining to the actual frequency of BcR immunoglobulin stereotypy and major subsets, as well as the existence of higher-order connections between individual subsets. To address these issues, we investigated clonotypic IGHV-IGHD-IGHJ gene rearrangements in a series of 29 856 patients with CLL, by far the largest series worldwide. We report that the stereotyped fraction of CLL peaks at 41% of the entire cohort and that all 19 previously identified major subsets retained their relative size and ranking, while 10 new ones emerged; overall, major stereotyped subsets had a cumulative frequency of 13.5%. Higher-level relationships were evident between subsets, particularly for major stereotyped subsets with unmutated IGHV genes (U-CLL), for which close relations with other subsets, termed “satellites,” were identified. Satellite subsets accounted for 3% of the entire cohort. These results confirm our previous notion that major subsets can be robustly identified and are consistent in relative size, hence representing distinct disease variants amenable to compartmentalized research with the potential of overcoming the pronounced heterogeneity of CLL. Furthermore, the existence of satellite subsets reveals a novel aspect of repertoire restriction with implications for refined molecular classification of CLL.
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- 2021
- Full Text
- View/download PDF
43. Higher-order connections between stereotyped subsets: implications for improved patient classification in CLL
- Author
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Agathangelidis, Andreas, Chatzidimitriou, Anastasia, Gemenetzi, Katerina, Giudicelli, Veronique, Karypidou, Maria, Plevova, Karla, Davis, Zadie, Yan, Xiao-Jie, Jeromin, Sabine, Schneider, Christof, Pedersen, Lone Bredo, Tschumper, Renee C., Sutton, Lesley-Ann, Baliakas, Panagiotis, Scarfò, Lydia, van Gastel, Ellen J., Armand, Marine, Tausch, Eugen, Biderman, Bella, Baer, Constance, Bagnara, Davide, Navarro, Alba, Langlois de Septenville, Anne, Guido, Valentina, Mitterbauer-Hohendanner, Gerlinde, Dimovski, Aleksandar, Brieghel, Christian, Lawless, Sarah, Meggendorfer, Manja, Brazdilova, Kamila, Ritgen, Matthias, Facco, Monica, Tresoldi, Cristina, Visentin, Andrea, Patriarca, Andrea, Catherwood, Mark, Bonello, Lisa, Sudarikov, Andrey, Vanura, Katrina, Roumelioti, Maria, Skuhrova Francova, Hana, Moysiadis, Theodoros, Veronese, Silvio, Giannopoulos, Krzysztof, Mansouri, Larry, Karan-Djurasevic, Teodora, Sandaltzopoulos, Raphael, Bödör, Csaba, Fais, Franco, Kater, Arnon, Panovska, Irina, Rossi, Davide, Alshemmari, Salem, Panagiotidis, Panagiotis, Costeas, Paul, Espinet, Blanca, Antic, Darko, Foroni, Letizia, Montillo, Marco, Trentin, Livio, Stavroyianni, Niki, Gaidano, Gianluca, Francia di Celle, Paola, Niemann, Carsten, Campo, Elias, Anagnostopoulos, Achilles, Pott, Christiane, Fischer, Kirsten, Hallek, Michael, Oscier, David, Stilgenbauer, Stephan, Haferlach, Claudia, Jelinek, Diane, Chiorazzi, Nicholas, Pospisilova, Sarka, Lefranc, Marie-Paule, Kossida, Sofia, Langerak, Anton W., Belessi, Chrysoula, Davi, Frederic, Rosenquist, Richard, Ghia, Paolo, and Stamatopoulos, Kostas
- Abstract
Chronic lymphocytic leukemia (CLL) is characterized by the existence of subsets of patients with (quasi)identical, stereotyped B-cell receptor (BcR) immunoglobulins. Patients in certain major stereotyped subsets often display remarkably consistent clinicobiological profiles, suggesting that the study of BcR immunoglobulin stereotypy in CLL has important implications for understanding disease pathophysiology and refining clinical decision-making. Nevertheless, several issues remain open, especially pertaining to the actual frequency of BcR immunoglobulin stereotypy and major subsets, as well as the existence of higher-order connections between individual subsets. To address these issues, we investigated clonotypic IGHV-IGHD-IGHJ gene rearrangements in a series of 29 856 patients with CLL, by far the largest series worldwide. We report that the stereotyped fraction of CLL peaks at 41% of the entire cohort and that all 19 previously identified major subsets retained their relative size and ranking, while 10 new ones emerged; overall, major stereotyped subsets had a cumulative frequency of 13.5%. Higher-level relationships were evident between subsets, particularly for major stereotyped subsets with unmutated IGHV genes (U-CLL), for which close relations with other subsets, termed “satellites,” were identified. Satellite subsets accounted for 3% of the entire cohort. These results confirm our previous notion that major subsets can be robustly identified and are consistent in relative size, hence representing distinct disease variants amenable to compartmentalized research with the potential of overcoming the pronounced heterogeneity of CLL. Furthermore, the existence of satellite subsets reveals a novel aspect of repertoire restriction with implications for refined molecular classification of CLL.
- Published
- 2021
- Full Text
- View/download PDF
44. Active Akt signaling triggers CLL toward Richter transformation via overactivation of Notch1
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Kohlhaas, Vivien, Blakemore, Stuart James, Al-Maarri, Mona, Nickel, Nadine, Pal, Martin, Roth, Andreas, Hövelmeyer, Nadine, Schäfer, Stephan C., Knittel, Gero, Lohneis, Philipp, Nikolic, Milos, Wiederstein, Janica L., Franitza, Marek, Georgomonolis, Theodoros, Reinart, Nina, Herling, Marco, Herling, Carmen, Hartmann, Elena M., Rosenwald, Andreas, Klapper, Wolfram, Büttner, Reinhard, Moia, Riccardo, Rossi, Davide, Boldorini, Renzo, Gaidano, Gianluca, Frenzel, Lukas P., Reinhardt, Hans Christian, Brüning, Jens C., Hallek, Michael, Krüger, Marcus, Peifer, Martin, Pallasch, Christian P., and Wunderlich, F. Thomas
- Abstract
Richter’s transformation (RT) is an aggressive lymphoma that occurs upon progression from chronic lymphocytic leukemia (CLL). Transformation has been associated with genetic aberrations in the CLL phase involving TP53, CDKN2A, MYC, and NOTCH1; however, a significant proportion of RT cases lack CLL phase–associated events. Here, we report that high levels of AKT phosphorylation occur both in high-risk CLL patients harboring TP53 and NOTCH1 mutations as well as in patients with RT. Genetic overactivation of Akt in the murine Eµ-TCL1 CLL mouse model resulted in CLL transformation to RT with significantly reduced survival and an aggressive lymphoma phenotype. In the absence of recurrent mutations, we identified a profile of genomic aberrations intermediate between CLL and diffuse large B-cell lymphoma. Multiomics assessment by phosphoproteomic/proteomic and single-cell transcriptomic profiles of this Akt-induced murine RT revealed an S100 protein-defined subcluster of highly aggressive lymphoma cells that developed from CLL cells, through activation of Notch via Notch ligand expressed by T cells. Constitutively active Notch1 similarly induced RT of murine CLL. We identify Akt activation as an initiator of CLL transformation toward aggressive lymphoma by inducing Notch signaling between RT cells and microenvironmental T cells.
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- 2021
- Full Text
- View/download PDF
45. Active Akt signaling triggers CLL toward Richter transformation via overactivation of Notch1
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Kohlhaas, Vivien, Blakemore, Stuart James, Al-Maarri, Mona, Nickel, Nadine, Pal, Martin, Roth, Andreas, Hövelmeyer, Nadine, Schäfer, Stephan C., Knittel, Gero, Lohneis, Philipp, Nikolic, Milos, Wiederstein, Janica L., Franitza, Marek, Georgomonolis, Theodoros, Reinart, Nina, Herling, Marco, Herling, Carmen, Hartmann, Elena M., Rosenwald, Andreas, Klapper, Wolfram, Büttner, Reinhard, Moia, Riccardo, Rossi, Davide, Boldorini, Renzo, Gaidano, Gianluca, Frenzel, Lukas P., Reinhardt, Hans Christian, Brüning, Jens C., Hallek, Michael, Krüger, Marcus, Peifer, Martin, Pallasch, Christian P., and Wunderlich, F. Thomas
- Abstract
Richter’s transformation (RT) is an aggressive lymphoma that occurs upon progression from chronic lymphocytic leukemia (CLL). Transformation has been associated with genetic aberrations in the CLL phase involving TP53, CDKN2A, MYC,and NOTCH1; however, a significant proportion of RT cases lack CLL phase–associated events. Here, we report that high levels of AKT phosphorylation occur both in high-risk CLL patients harboring TP53and NOTCH1mutations as well as in patients with RT. Genetic overactivation of Aktin the murine Eµ-TCL1CLL mouse model resulted in CLL transformation to RT with significantly reduced survival and an aggressive lymphoma phenotype. In the absence of recurrent mutations, we identified a profile of genomic aberrations intermediate between CLL and diffuse large B-cell lymphoma. Multiomics assessment by phosphoproteomic/proteomic and single-cell transcriptomic profiles of this Akt-induced murine RT revealed an S100 protein-defined subcluster of highly aggressive lymphoma cells that developed from CLL cells, through activation of Notch via Notch ligand expressed by T cells. Constitutively active Notch1 similarly induced RT of murine CLL. We identify Akt activation as an initiator of CLL transformation toward aggressive lymphoma by inducing Notch signaling between RT cells and microenvironmental T cells.
- Published
- 2021
- Full Text
- View/download PDF
46. Contact angle keying method for an integrated analytical approach to characterising waters in the Lourdes area (Pyrenees, France)
- Author
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Rossi, Davide, Dobrzyński, Dariusz, Moro, Isabella, Zotto, Marisa Dal, Moschin, Emanuela, and Realdon, Nicola
- Abstract
Wettability research was orchestrated with chemical and biological (microalgae, bacteria) characteristics in multidisciplinary assessment of different types of waters (groundwater, surface water, disinfected drinking water) from the area of Lourdes town (Haute Pyrénées Department, France). Multidisciplinary data were subjected to statistical analysis. The molecular analysis indicated that isolated cultivable bacterial strains belonging to γ-Proteobacteria significantly dominate over bacteria classified within the Flavobacteriia and β-Proteobacteria groups. The correlations between the contact angles and the chemical parameters suggest their influences on the surface tension characteristics of the waters. The relations between the contact angle and microbiological data confirm the influence of environmental conditions on the biological and surface tension parameters of the waters. Implementation of surface tensiometry technique to the study of the biological and geochemical status of groundwater has not previously been performed. This work encourages applications that aim at the assessment and understanding of groundwater ecosystems.
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- 2021
- Full Text
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47. Survival risk score for real-life relapsed/refractory chronic lymphocytic leukemia patients receiving ibrutinib. A campus CLL study
- Author
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Gentile, Massimo, Morabito, Fortunato, Del Poeta, Giovanni, Mauro, Francesca Romana, Reda, Gianluigi, Sportoletti, Paolo, Laurenti, Luca, Coscia, Marta, Herishanu, Yair, Recchia, Anna Grazia, Varettoni, Marzia, Murru, Roberta, Chiarenza, Annalisa, Condoluci, Adalgisa, Moia, Riccardo, Pietrasanta, Daniela, Loseto, Giacomo, Consoli, Ugo, Scortechini, Ilaria, Rossi, Francesca Maria, Zucchetto, Antonella, Fraticelli, Vincenzo, Vigna, Ernesto, Botta, Cirino, Tripepi, Giovanni, Arrigo, Graziella D’, Rago, Angela, Angeletti, Ilaria, Biagi, Annalisa, Del Giudice, Ilaria, Bomben, Riccardo, Rigolin, Gian Matteo, Rossi, Davide, Di Raimondo, Francesco, Gaidano, Gianluca, Polliack, Aaron, Cuneo, Antonio, Foà, Robin, and Gattei, Valter
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- 2021
- Full Text
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48. COVID-19 severity and mortality in patients with chronic lymphocytic leukemia: a joint study by ERIC, the European Research Initiative on CLL, and CLL Campus
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Scarfò, Lydia, Chatzikonstantinou, Thomas, Rigolin, Gian Matteo, Quaresmini, Giulia, Motta, Marina, Vitale, Candida, Garcia-Marco, Jose Antonio, Hernández-Rivas, José Ángel, Mirás, Fatima, Baile, Mónica, Marquet, Juan, Niemann, Carsten U., Reda, Gianluigi, Munir, Talha, Gimeno, Eva, Marchetti, Monia, Quaglia, Francesca Maria, Varettoni, Marzia, Delgado, Julio, Iyengar, Sunil, Janssens, Ann, Marasca, Roberto, Ferrari, Angela, Cuéllar-García, Carolina, Itchaki, Gilad, Špaček, Martin, De Paoli, Lorenzo, Laurenti, Luca, Levin, Mark-David, Lista, Enrico, Mauro, Francesca R., Šimkovič, Martin, Van Der Spek, Ellen, Vandenberghe, Elisabeth, Trentin, Livio, Wasik-Szczepanek, Ewa, Ruchlemer, Rosa, Bron, Dominique, De Paolis, Maria Rosaria, Del Poeta, Giovanni, Farina, Lucia, Foglietta, Myriam, Gentile, Massimo, Herishanu, Yair, Herold, Tobias, Jaksic, Ozren, Kater, Arnon P., Kersting, Sabina, Malerba, Lara, Orsucci, Lorella, Popov, Viola Maria, Sportoletti, Paolo, Yassin, Mohamed, Pocali, Barbara, Barna, Gabor, Chiarenza, Annalisa, dos Santos, Gimena, Nikitin, Eugene, Andres, Martin, Dimou, Maria, Doubek, Michael, Enrico, Alicia, Hakobyan, Yervand, Kalashnikova, Olga, Ortiz Pareja, Macarena, Papaioannou, Maria, Rossi, Davide, Shah, Nimish, Shrestha, Amit, Stanca, Oana, Stavroyianni, Niki, Strugov, Vladimir, Tam, Constantine, Zdrenghea, Mihnea, Coscia, Marta, Stamatopoulos, Kostas, Rossi, Giuseppe, Rambaldi, Alessandro, Montserrat, Emili’, Foà, Robin, Cuneo, Antonio, and Ghia, Paolo
- Abstract
Chronic lymphocytic leukemia (CLL) is a disease of the elderly, characterized by immunodeficiency. Hence, patients with CLL might be considered more susceptible to severe complications from COVID-19. We undertook this retrospective international multicenter study to characterize the course of COVID-19 in patients with CLL and identify potential predictors of outcome. Of 190 patients with CLL and confirmed COVID-19 diagnosed between 28/03/2020 and 22/05/2020, 151 (79%) presented with severe COVID-19 (need of oxygen and/or intensive care admission). Severe COVID-19 was associated with more advanced age (≥65 years) (odds ratio 3.72 [95% CI 1.79–7.71]). Only 60 patients (39.7%) with severe COVID-19 were receiving or had recent (≤12 months) treatment for CLL at the time of COVID-19 versus 30/39 (76.9%) patients with mild disease. Hospitalization rate for severe COVID-19 was lower (p< 0.05) for patients on ibrutinib versus those on other regimens or off treatment. Of 151 patients with severe disease, 55 (36.4%) succumbed versus only 1/38 (2.6%) with mild disease; age and comorbidities did not impact on mortality. In CLL, (1) COVID-19 severity increases with age; (2) antileukemic treatment (particularly BTK inhibitors) appears to exert a protective effect; (3) age and comorbidities did not impact on mortality, alluding to a relevant role of CLL and immunodeficiency.
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- 2020
- Full Text
- View/download PDF
49. Prospective long-term follow-up after first-line subcutaneous cladribine in hairy cell leukemia: a SAKK trial
- Author
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Benz, Rudolf, Arn, Kornelius, Andres, Martin, Pabst, Thomas, Baumann, Michael, Novak, Urban, Hitz, Felicitas, Hess, Urs, Zenhaeusern, Reinhard, Chalandon, Yves, Mey, Ulrich, Blum, Sabine, Rauch, Daniel, O'Meara Stern, Alix, Cantoni, Nathan, Bargetzi, Mario, Bianchi-Papina, Elena, Rossi, Davide, Passweg, Jakob, Lohri, Andreas, Berardi, Simona, Li, Qiyu, Feller, Anita, and Stussi, Georg
- Abstract
Hairy cell leukemia (HCL) remains an incurable disease. However, first-line treatment with either intravenous or subcutaneous cladribine generally leads to long-lasting remissions. Although there are excellent long-term data for intravenous application, similar data regarding subcutaneous administration are lacking. We therefore analyzed the long-term outcome of 3 prospective multicenter clinical trials on subcutaneous cladribine performed by the Swiss Group for Clinical Cancer Research (SAKK), which recruited 221 patients with classical HCL between 1993 and 2005. Median overall survival from start of treatment was not reached. Pretreatment anemia, higher Eastern Cooperative Oncology Group score, and higher age were associated with poorer overall survival in multivariable analysis, whereas early progression at 24 and 36 months had no significant impact on overall survival. Second-line treatment was necessary in 53 (23.7%) patients after a median of 5 (range, 0.2-20.4) years, and first retreatment was mainly monotherapy with cladribine (66%) or rituximab (15.1%) or a combination of these drugs (15.1%). A total of 44 (19.9%) patients developed second primary malignancies with a median time to occurrence of 5.7 (range, 0.01-17.5) years. Second primary malignancies were the main cause for death (14; 27.5%). Compared with a matched normal Swiss population, the incidence of second primary malignancies was not increased. However, survival of patients with HCL was slightly inferior by comparison (P= .036). In conclusion, the outcome of HCL patients treated with subcutaneous cladribine is excellent, and in most patients, 1 cycle of subcutaneous cladribine is sufficient for long-term disease control.
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- 2020
- Full Text
- View/download PDF
50. International prognostic score for asymptomatic early-stage chronic lymphocytic leukemia
- Author
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Condoluci, Adalgisa, Terzi di Bergamo, Lodovico, Langerbeins, Petra, Hoechstetter, Manuela A., Herling, Carmen D., De Paoli, Lorenzo, Delgado, Julio, Rabe, Kari G., Gentile, Massimo, Doubek, Michael, Mauro, Francesca R., Chiodin, Giorgia, Mattsson, Mattias, Bahlo, Jasmin, Cutrona, Giovanna, Kotaskova, Jana, Deambrogi, Clara, Smedby, Karin E., Spina, Valeria, Bruscaggin, Alessio, Wu, Wei, Moia, Riccardo, Bianchi, Elena, Gerber, Bernhard, Zucca, Emanuele, Gillessen, Silke, Ghielmini, Michele, Cavalli, Franco, Stussi, Georg, Hess, Mark A., Baumann, Tycho S., Neri, Antonino, Ferrarini, Manlio, Rosenquist, Richard, Forconi, Francesco, Foà, Robin, Pospisilova, Sarka, Morabito, Fortunato, Stilgenbauer, Stephan, Döhner, Hartmut, Parikh, Sameer A., Wierda, William G., Montserrat, Emili, Gaidano, Gianluca, Hallek, Michael, and Rossi, Davide
- Abstract
Most patients with chronic lymphocytic leukemia (CLL) are diagnosed with early-stage disease and managed with active surveillance. The individual course of patients with early-stage CLL is heterogeneous, and their probability of needing treatment is hardly anticipated at diagnosis. We aimed at developing an international prognostic score to predict time to first treatment (TTFT) in patients with CLL with early, asymptomatic disease (International Prognostic Score for Early-stage CLL [IPS-E]). Individual patient data from 11 international cohorts of patients with early-stage CLL (n = 4933) were analyzed to build and validate the prognostic score. Three covariates were consistently and independently correlated with TTFT: unmutated immunoglobulin heavy variable gene (IGHV), absolute lymphocyte count higher than 15 × 109/L, and presence of palpable lymph nodes. The IPS-E was the sum of the covariates (1 point each), and separated low-risk (score 0), intermediate-risk (score 1), and high-risk (score 2-3) patients showing a distinct TTFT. The score accuracy was validated in 9 cohorts staged by the Binet system and 1 cohort staged by the Rai system. The C-index was 0.74 in the training series and 0.70 in the aggregate of validation series. By meta-analysis of the training and validation cohorts, the 5-year cumulative risk for treatment start was 8.4%, 28.4%, and 61.2% among low-risk, intermediate-risk, and high-risk patients, respectively. The IPS-E is a simple and robust prognostic model that predicts the likelihood of treatment requirement in patients with early-stage CLL. The IPS-E can be useful in clinical management and in the design of early intervention clinical trials.
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- 2020
- Full Text
- View/download PDF
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