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JOURNAL ARTICLE
James W Smithy, Hannah L Kalvin, Fiona D Ehrich, Ronak Shah, Matthew Adamow, Vladislav Raber, Colleen A Maher, Jenna Kleman, Debra A G McIntyre, Alexander N Shoushtari, Allison Betof Warner, Margaret K Callahan, Parisa Momtaz, Omar Eton, Suresh Nair, Jedd D Wolchok, Paul B Chapman, Michael F Berger, Katherine S Panageas, Michael A Postow
PURPOSE: ADAPT-IT (NCT03122522) investigated adaptive ipilimumab discontinuation in melanoma based on early radiographic assessment. Initial findings indicated similar effectiveness compared to conventional nivolumab-ipilimumab (nivo-ipi). Exploratory biomarker analyses and final clinical results are now reported. PATIENTS AND METHODS: Patients with unresectable melanoma received two doses of nivo-ipi. Radiographic assessment at Week 6 informed continuation of ipilimumab before nivolumab maintenance...
May 20, 2024: Clinical Cancer Research
#42
REVIEW
Rebecca J Leeman-Neill, Govind Bhagat, Uttiya Basu
Activation induced cytidine deaminase (AID) is a key element of the adaptive immune system, required for immunoglobulin isotype switching and affinity maturation of B-cells as they undergo the germinal center (GC) reaction in peripheral lymphoid tissue. The inherent DNA damaging activity of this enzyme can also have off-target effects in B-cells, producing lymphomagenic chromosomal translocations that are characteristic features of various classes of non-Hodgkin B-cell lymphoma (B-NHL), and generating oncogenic mutations, so-called aberrant somatic hypermutation (aSHM)...
2024: Advances in Immunology
#43
JOURNAL ARTICLE
Sebastià Rubí, Pedro Bibilioni, Marina Villar, Marta Brell, Manuel Valiente, Margalida Galmés, María Toscano, Gabriel Matheu, José Luis Chinchilla, Jesús Molina, José Luis Valera, Ángel Ríos, Meritxell López, Cristina Peña
PURPOSE: The main objective was to characterize the tracer uptake kinetics of [18 F]fluoromethylcholine ([18 F]F-CHO) in high-grade gliomas (HGG) through a full PET kinetic modeling approach. Secondarily, we aimed to explore the relationship between the PET uptake measures and the HGG molecular features. MATERIALS AND METHODS: Twenty-four patients with a suspected diagnosis of HGG were prospectively included. They underwent a dynamic brain [18 F]F-CHO-PET/CT, from which a tumoral time-activity curve was extracted...
May 6, 2024: NeuroImage: Clinical
#44
JOURNAL ARTICLE
Dongsheng Shen, Hong Guo, Ping Yu, Ao Li, Shu Shan, Xixi Chen, Wenjun Wu, Xiaowen Tong, Huaifang Li, Shuaikang Mei
DNA Methyltransferase 1 (DNMT1) serves as a crucial biomarker associated with various diseases and is essential for evaluating DNA methylation levels, diagnosing diseases, and evaluating prognosis. As a result, a convenient, quantitative, and sensitive assay for detecting DNMT1 is in high demand. However, current techniques for DNMT1 detection struggle to balance accuracy, low cost, and high sensitivity, limiting their clinical usefulness. To address this challenge, we have developed a DNMT1 detection method (CAED), which combines aptamer-specific recognition with a highly programmable Entropy-driven catalysis DNA network and is further integrated with the CRISPR-Cas12a system...
May 18, 2024: Talanta
#45
JOURNAL ARTICLE
Chenfei He, Guoying Hua, Yong Liu, Shuijie Li
BACKGROUND: The role of the scavenger receptor CD36 in cell metabolism and the immune response has been investigated mainly in macrophages, dendritic cells, and T cells. However, its involvement in B cells has not been comprehensively examined. METHODS: To investigate the function of CD36 in B cells, we exposed Cd36fl/fl MB1cre mice, which lack CD36 specifically in B cells, to apoptotic cells to trigger an autoimmune response. To validate the proteins that interact with CD36 in primary B cells, we conducted mass spectrometry analysis following anti-CD36 immunoprecipitation...
May 18, 2024: Cellular & Molecular Biology Letters
#46
JOURNAL ARTICLE
P R Saraceni, A Miccoli, A Bada, A R Taddei, M Mazzonna, A M Fausto, G Scapigliati, S Picchietti
The contamination of marine and freshwater environments by nanoplastics is considered a global threat for aquatic biota. Taking into account the most recent concentration range estimates reported globally and recognizing a knowledge gap in polystyrene nanoplastics (PS-NPs) ecotoxicology, the present work investigated the harmful effects of 20 nm and 80 nm PS-NPs, at increasing biological complexity, on the rainbow trout Oncorhynchus mykiss RTG-2 and gilthead seabream Sparus aurata SAF-1 cell lines...
May 16, 2024: Science of the Total Environment
#47
JOURNAL ARTICLE
Fernanda Carvalho Burch, Marcílio Nichi, Camilla Mota Mendes, Mayra Elena Ortiz D'Avila Assumpção, José Maurício Barbanti Duarte, Rodrigo Del Rio do Valle
There are more than 200 species and subspecies of Neotropical Primates of which more than 40% are listed as threatened by the IUCN Red List of Threatened Species. Both in situ and ex situ conservation programs can benefit from the use of assisted reproductive technologies. The objective of this study was to evaluate, for the first time, cryopreservation techniques for Alouatta caraya semen. Semen samples were collected from five adult males, analyzed, and frozen in either Test-egg yolk or Test-soy lecithin-based extenders containing either 3 or 4% glycerol...
May 18, 2024: Primates; Journal of Primatology
#48
JOURNAL ARTICLE
Rui Guan, Ce Li, Fangmeng Gu, Wenming Li, Dongmin Wei, Shengda Cao, Fen Chang, Dapeng Lei
BACKGROUND: The cellular origin of hypopharyngeal diseases is crucial for further diagnosis and treatment, and the microenvironment in tissues may also be associated with specific cell types at the same time. Normal adjacent tissues (NATs) of hypopharyngeal carcinoma differ from non-tumor-bearing tissues, and can influenced by the tumor. However, the heterogeneity in kinds of disease samples remains little known, and the transcriptomic profile about biological information associated with disease occurrence and clinical outcome contained in it has yet to be fully evaluated...
May 17, 2024: BMC Genomics
#49
JOURNAL ARTICLE
Richard Drexler, Robin Khatri, Thomas Sauvigny, Malte Mohme, Cecile L Maire, Alice Ryba, Yahya Zghaibeh, Lasse Dührsen, Amanda Salviano-Silva, Katrin Lamszus, Manfred Westphal, Jens Gempt, Annika K Wefers, Julia E Neumann, Helena Bode, Fabian Hausmann, Tobias B Huber, Stefan Bonn, Kerstin Jütten, Daniel Delev, Katharina J Weber, Patrick N Harter, Julia Onken, Peter Vajkoczy, David Capper, Benedikt Wiestler, Michael Weller, Berend Snijder, Alicia Buck, Tobias Weiss, Pauline C Göller, Felix Sahm, Joelle Aline Menstel, David Niklas Zimmer, Michael B Keough, Lijun Ni, Michelle Monje, Dana Silverbush, Volker Hovestadt, Mario L Suvà, Saritha Krishna, Shawn L Hervey-Jumper, Ulrich Schüller, Dieter H Heiland, Sonja Hänzelmann, Franz L Ricklefs
Neural-tumor interactions drive glioma growth as evidenced in preclinical models, but clinical validation is limited. We present an epigenetically defined neural signature of glioblastoma that independently predicts patients' survival. We use reference signatures of neural cells to deconvolve tumor DNA and classify samples into low- or high-neural tumors. High-neural glioblastomas exhibit hypomethylated CpG sites and upregulation of genes associated with synaptic integration. Single-cell transcriptomic analysis reveals a high abundance of malignant stemcell-like cells in high-neural glioblastoma, primarily of the neural lineage...
May 17, 2024: Nature Medicine
#50
JOURNAL ARTICLE
Maria Florencia Ferreira, Andrew Turner, Mickaël Payet, Christian Grisolia, Veronique Malard, Michael N Moore, Awadhesh N Jha
The decommissioning and normal functioning of nuclear facilities can result in the production and release of airborne particles in the environment. Aquatic biota are expected to be exposed to these particles considering that nuclear facilities are often located near water bodies. Aerosols, including tritiated (radioactive) and non-radioactive particles such as cement dust, can interact with radionuclides as well as with heavy metals, and therefore elicit not only radiological but also chemical toxicity. In the present study, we aimed to determine the effects of hydrogenated cement particles (HCPs) as a first step before evaluating any radiotoxicity of tritiated cement particles in the marine mussels, Mytilus galloprovincialis...
May 15, 2024: Chemosphere
#51
JOURNAL ARTICLE
Maria K Jauhiainen, Ushanandini Mohanraj, Maria F Perdomo, Jaana Hagström, Caj Haglund, Antti A Mäkitie, Maria Söderlund-Venermo, Saku T Sinkkonen
PURPOSE: Sinonasal lymphoma (SL) is a rare lymphatic neoplasm of the nasal cavities, paranasal sinuses and nasopharynx. Whereas some risk factors for SL subtypes have been identified, their aetiology is unknown. Along with other predisposing factors, the viral association of lymphomas, such as Epstein-Barr virus (EBV) and Burkitt and Hodgkin lymphomas, is well-established. Modern molecular biology techniques have enabled the discovery of novel human viruses, exemplified by the protoparvovirus cutavirus (CuV), associated with cutaneous T-cell lymphoma...
May 17, 2024: European Archives of Oto-rhino-laryngology
#52
JOURNAL ARTICLE
Rebecca Ronsley, Kristine A Karvonen, Bonnie Cole, Vera Paulson, Jeff Stevens, Erin E Crotty, Jason Hauptman, Amy Lee, Shannon M Stasi, Christina M Lockwood, Sarah E S Leary
PURPOSE: Clinical sequencing of tumor DNA is necessary to render an integrated diagnosis and select therapy for children with primary central nervous system (CNS) tumors, but neurosurgical biopsy is not without risk. In this study, we describe cell-free DNA (cfDNA) in blood and cerebrospinal fluid (CSF) as sources for "liquid biopsy" in pediatric brain tumors. METHODS: CSF samples were collected by lumbar puncture, ventriculostomy, or surgery from pediatric patients with CNS tumors...
May 16, 2024: Journal of Neuro-oncology
#53
JOURNAL ARTICLE
Travis S Johnson, Parvathi Sudha, Enze Liu, Nathan Becker, Sylvia Robertson, Patrick Blaney, Gareth Morgan, Vivek S Chopra, Cedric Dos Santos, Michael Nixon, Kun Huang, Attaya Suvannasankha, Mohammad Abu Zaid, Rafat Abonour, Brian A Walker
Multiple Myeloma is an incurable plasma cell malignancy with a poor survival rate that is usually treated with immunomodulatory drugs (iMiDs) and proteosome inhibitors (PIs). The malignant plasma cells quickly become resistant to these agents causing relapse and uncontrolled growth of resistant clones. From whole genome sequencing (WGS) and RNA sequencing (RNA-seq) studies, different high-risk translocation, copy number, mutational, and transcriptional markers can be identified. One of these markers, PHF19, epigenetically regulates cell cycle and other processes and is already studied using RNA-seq...
May 16, 2024: Nature Communications
#54
MULTICENTER STUDY
Yan Gao, Haixia He, Xueping Li, Liling Zhang, Wei Xu, Ru Feng, Wenyu Li, Yin Xiao, Xinxiu Liu, Yu Chen, Xiaoxiao Wang, Bing Bai, Huijing Wu, Qingqing Cai, Zhiming Li, Jibin Li, Suxia Lin, Yanxia He, Liqin Ping, Cheng Huang, Jiaying Mao, Xiujin Chen, Baitian Zhao, Huiqiang Huang
Anti-PD-1 antibodies are a favorable treatment for relapsed or refractory extranodal natural killer T cell lymphoma (RR-ENKTL), however, the complete response (CR) rate and the duration of response (DOR) need to be improved. This phase 1b/2 study investigated the safety and efficacy of sintilimab, a fully human anti-PD-1 antibody, plus chidamide, an oral subtype-selective histone deacetylase inhibitor in 38 patients with RR-ENKTL. Expected objective response rate (ORR) of combination treatment was 80%. Patients received escalating doses of chidamide, administered concomitantly with fixed-dose sintilimab in 21-days cycles up to 12 months...
May 17, 2024: Signal Transduction and Targeted Therapy
#55
JOURNAL ARTICLE
Xintao Hu, Haiqiang Zhang, Yeqin Wang, Yu Lin, Qiuyan Li, Lingguo Li, Guodan Zeng, Rijing Ou, Xinyu Cheng, Yan Zhang, Xin Jin
BACKGROUND: Cell-free DNA (cfDNA) fragmentomic characteristics are promising analytes with abundant physiological signals for non-invasive disease diagnosis and monitoring. Previous studies on plasma cfDNA fragmentomics commonly employed a two-step centrifugation process for removing cell debris, involving a low-speed centrifugation followed by a high-speed centrifugation. However, the effects of centrifugation conditions on the analysis of cfDNA fragmentome remain uncertain. METHODS: We collected blood samples from 10 healthy individuals and divided each sample into two aliquots for plasma preparation with one- and two-step centrifugation processes...
May 14, 2024: Clinica Chimica Acta; International Journal of Clinical Chemistry
#56
JOURNAL ARTICLE
Daniel R Zollinger, Elizabeth Rivers, Alexander Fine, Yanmei Huang, Joseph Son, Akshita Kalyan, Wren Gray, Golshid Baharian, Carly Hammond, Rosalyn Ram, Lindsay Ringman, Dina Hafez, Daniel Savel, Vipul Patel, Marc Dantone, Cui Guo, Merrida Childress, Chang Xu, Dorhyun Johng, Brett Wallden, Prapti Pokharel, William Camara, Priti S Hegde, Jason Hughes, Corey Carter, Nicole Davarpanah, Viraj Degaonkar, Pratyush Gupta, Sanjeev Mariathasan, Thomas Powles, Sean Ferree, Lucas Dennis, Amanda Young
Emerging technologies focused on the detection and quantification of circulating tumor DNA (ctDNA) in blood show extensive potential for managing patient treatment decisions, informing risk of recurrence, and predicting response to therapy. Currently available tissue-informed approaches are often limited by the need for additional sequencing of normal tissue or peripheral mononuclear cells to identify non-tumor-derived alterations while tissue-naïve approaches are often limited in sensitivity. Here we present the analytical validation for a novel ctDNA monitoring assay, FoundationOne®Tracker...
2024: PloS One
#57
JOURNAL ARTICLE
Yu-Mei Hsueh, Mei-Chieh Chen, Ying-Chin Lin, Chih-Yin Wu, Horng-Sheng Shiue, Sheng-Lun Hsu, Hsi-Hsien Chen, Ya-Li Huang
Long interspersed nuclear element-1 (LINE-1) methylation serves as an indicator of global DNA methylation. This study explored the correlation between LINE-1 methylation and chronic kidney disease (CKD). We also evaluated whether LINE-1 methylation could modify the association between CKD and metal exposure. A total of 213 patients with clinically defined CKD, without hemodialysis and 416 age and sex matched controls were recruited. Levels of LINE-1 methylation, total urinary arsenic, blood lead, blood cadmium, and plasma selenium were assessed...
May 16, 2024: Archives of Toxicology
#58
JOURNAL ARTICLE
Audrey Boutonnet, Inga Tijunelyte, Aurélien Bancaud, Frédéric Ginot
The μLAS technology enables in-line DNA concentration and separation in a microchannel. Here, we describe its operation to analyze the size profile of cell-free DNA (cfDNA) extracted from blood plasma. Operated on commercial systems for capillary electrophoresis, we provide the size distribution of healthy individuals or patients using an input of 10 μL.
2024: Methods in Molecular Biology
#59
JOURNAL ARTICLE
Qing Li, Rui-Xuan Zhang, Jing-Jing Yang, Hou-Bao Huang, Gang Feng, Guo-Rong Li
BACKGROUND AND PURPOSE: Extrachromosomal circular DNAs (eccDNAs) have been recognized for their significant involvement in numerous biological processes. Nonetheless, the existence and molecular characteristics of eccDNA in the peripheral blood of patients diagnosed with clear cell renal cell carcinoma (ccRCC) have not yet been reported. Our aim was to identify potentially marked plasma eccDNAs in ccRCC patients. METHODS AND MATERIALS: The detection of plasma eccDNA in ccRCC patients and healthy controls was performed using the Tn5-tagmentation and next-generation sequencing (NGS) method...
May 16, 2024: World Journal of Urology
#60
JOURNAL ARTICLE
Egija Zole, Gowtham Sathyanarayanan, Birgitte Regenberg, Jörg P Kutter
Extrachromosomal circular DNA (eccDNA) refers to small circular DNA molecules that are distinct from chromosomal DNA and play diverse roles in various biological processes. They are also explored as potential biomarkers for disease diagnosis and precision medicine. However, isolating eccDNA from tissues and plasma is challenging due to low abundance and the presence of interfering linear DNA, requiring time-consuming processes and expert handling. Our study addresses this by utilizing a microfluidic chip tailored for eccDNA isolation, leveraging microfluidic principles for enzymatic removal of non-circular DNA...
May 16, 2024: Lab on a Chip
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