Technical Advance, FoundationOne CDx and FoundationOne Heme Detect Epstein-Barr Virus with High Sensitivity and Specificity.

Accurate detection of Epstein-Barr virus (EBV) in tumors is essential for refining diagnosis and guiding management of EBV-associated cancers. This validation study evaluated the performance of the FoundationOne CDx (F1CDx) and FoundationOne Heme (F1H) next-generation sequencing assays for detecting EBV compared with the reference standard EBV-encoded RNA (EBER) in situ hybridization (ISH). A total of 413 samples of gastric carcinoma, squamous cell carcinoma (predominantly nasopharyngeal carcinoma), and diffuse large B-cell lymphoma was assessed.

Retraction notice to "Cobalt oxide coupled with graphitic carbon nitride composite heterojunction for efficient Z-scheme photocatalytic environmental pollutants degradation performance" [Environ. Res. 235 (2023) 116574].

This article has been retracted: please see Elsevier Policy on Article Withdrawal (https://www.elsevier.com/locate/withdrawalpolicy).

Genome-scale spatial mapping of the Hodgkin lymphoma microenvironment identifies tumor cell survival factors.

A key challenge in cancer research is to identify the secreted factors that contribute to tumor cell survival. Nowhere is this more evident than in Hodgkin lymphoma, where malignant Hodgkin Reed Sternberg (HRS) cells comprise only 1-5% of the tumor mass, the remainder being infiltrating immune cells that presumably are required for the survival of the HRS cells. Until now, there has been no way to characterize the complex Hodgkin lymphoma tumor microenvironment at genome scale.

Bifunctional hierarchical WO nanorods@Br-doped g-CN Z-scheme heterojunctions for efficient tetracycline photodegradation: Optimization of key parameters, toxicological assessment, and electrocatalytic hydrogen evolution reaction.

In this study, graphitic carbon nitride (CN) and tungsten trioxide (WO) were successfully incorporated into bromine (Br)-doped graphitic carbon nitride (BCN) using an in-situ hydrothermal method. The photocatalytic efficiency of the resulting WO/Br-doped CN (WBCN) composites for the removal of tetracycline (TC) antibiotics under sunlight irradiation was evaluated. The mass ratio of WO to Br-doped CN (BCN) significantly influenced TC adsorption and photocatalytic degradation, with an optimal ratio of 9:1.

Cancer-specific innate and adaptive immune rewiring drives resistance to PD-1 blockade in classic Hodgkin lymphoma.

Hodgkin Reed-Sternberg (HRS) cells of classic Hodgkin lymphoma (cHL), like many solid tumors, elicit ineffective immune responses. However, patients with cHL are highly responsive to PD-1 blockade, which largely depends on HRS cell-specific retention of MHC class II and implicates CD4 T cells and additional MHC class I-independent immune effectors. Here, we utilize single-cell RNA sequencing and spatial analysis to define shared circulating and microenvironmental features of the immune response to PD-1 blockade in cHL.

MnCoO Nanostructure Anchored on Functionalized Carbon Black for the Enhanced Bifunctional Electrocatalytic Performance of OER and HER.

The electrocatalytic oxygen and hydrogen evolution reactions (OER and HER) are key processes used in energy storage and conversion. We have developed a highly efficient MnCoO nanostructure anchored with functionalized carbon black (MnCoO/f-CB), which has been characterized by XRD, FT-IR, Raman spectra, FE-SEM, and HR-TEM analyses as robust bifunctional electrocatalysts for both HER and OER. At a characteristic 10 mA cm current density, the MnCoO/f-CB composite ECs exhibit low overpotentials of 330 mV for OER and 360 mV for HER, respectively.

Follicular lymphoma research: an open dialogue for a collaborative roadmap.

Follicular lymphoma (FL) is the second most common type of lymphoma (20% of all non-Hodgkin lymphomas), derived from germinal centre (GC) B cells, and is characterised by its significant clinical, prognostic and biological heterogeneity, leading to complexity in management. Despite significant biological investigation and indisputable clinical progress since the advent of the immunotherapy era more than 20 years ago, much remains to be done to understand and cure this lymphoma. Today, FL is metaphorically a giant puzzle on the table with patches of sky, landscape and foliage clearly appearing.

C-ziptf: stable tensor factorization for zero-inflated multi-dimensional genomics data.

In the past two decades, genomics has advanced significantly, with single-cell RNA-sequencing (scRNA-seq) marking a pivotal milestone. ScRNA-seq provides unparalleled insights into cellular diversity and has spurred diverse studies across multiple conditions and samples, resulting in an influx of complex multidimensional genomics data. This highlights the need for robust methodologies capable of handling the complexity and multidimensionality of such genomics data.

Physicochemical and photocatalytic properties of AgCrO/FeO/CeO ternary nanocomposite.

The study presents AgCrO/FeO/CeO ternary nanocomposite, based on FeO/CeO binary composites, which demonstrated excellent photocatalytic performance in the photodegradation of methylene blue under solar irradiation. The AgCrO/FeO/CeO nanocomposites was orthorhombic, ilmenite, and cubic-fluorite phases of AgCrO, FeO, and CeO, respectively, according to the XRD examination. A strong bond between AgCrO, FeO, and CeO within the nanocomposite was demonstrated by the SEM and TEM investigations.

Boosted photocatalytic performance of cobalt ferrite anchored g-CN nanocomposite toward various emerging environmental hazardous pollutants degradation: insights into stability and Z-scheme mechanism.

In this study, a highly efficient CoFeO-anchored g-CN nanocomposite with Z-scheme photocatalyst was developed by facile calcination and hydrothermal technique. To evaluate the crystalline structure, sample surface morphology, elemental compositions, and charge conductivity of the as-synthesized catalysts by various characterization techniques. The high interfacial contact of CoFeO nanoparticles (NPs) with g-CN nanosheets reduced the optical bandgap from 2.

Liquid biopsy-based circulating tumour (ct)DNA analysis of a spectrum of myeloid and lymphoid malignancies yields clinically actionable results.

Aims: Liquid biopsy (LBx)-based next-generation sequencing (NGS) of circulating tumour DNA (ctDNA) can facilitate molecular profiling of haematopoietic neoplasms (HNs), particularly when tissue-based NGS is infeasible.

Methods And Results: We studied HN LBx samples tested with FoundationOne Liquid CDx, FoundationOne Liquid, or FoundationACT between July 2016 and March 2022. We identified 271 samples: 89 non-Hodgkin lymphoma (NHL), 43 plasma-cell neoplasm (PCN), 41 histiocytoses, 27 myelodysplastic syndrome (MDS), 25 diffuse large B-cell lymphoma (DLBCL), 22 myeloproliferative neoplasm (MPN), 14 Hodgkin lymphoma (HL), and 10 acute myeloid leukaemia (AML).

MAPS: pathologist-level cell type annotation from tissue images through machine learning.

Highly multiplexed protein imaging is emerging as a potent technique for analyzing protein distribution within cells and tissues in their native context. However, existing cell annotation methods utilizing high-plex spatial proteomics data are resource intensive and necessitate iterative expert input, thereby constraining their scalability and practicality for extensive datasets. We introduce MAPS (Machine learning for Analysis of Proteomics in Spatial biology), a machine learning approach facilitating rapid and precise cell type identification with human-level accuracy from spatial proteomics data.

Slide-tags enables single-nucleus barcoding for multimodal spatial genomics.

Recent technological innovations have enabled the high-throughput quantification of gene expression and epigenetic regulation within individual cells, transforming our understanding of how complex tissues are constructed. However, missing from these measurements is the ability to routinely and easily spatially localize these profiled cells. We developed a strategy, Slide-tags, in which single nuclei within an intact tissue section are tagged with spatial barcode oligonucleotides derived from DNA-barcoded beads with known positions.

MAPS: Pathologist-level cell type annotation from tissue images through machine learning.

Highly multiplexed protein imaging is emerging as a potent technique for analyzing protein distribution within cells and tissues in their native context. However, existing cell annotation methods utilizing high-plex spatial proteomics data are resource intensive and necessitate iterative expert input, thereby constraining their scalability and practicality for extensive datasets. We introduce MAPS (Machine learning for Analysis of Proteomics in Spatial biology), a machine learning approach facilitating rapid and precise cell type identification with human-level accuracy from spatial proteomics data.

Cobalt oxide coupled with graphitic carbon nitride composite heterojunction for efficient Z-scheme photocatalytic environmental pollutants degradation performance.

The CoO/g-CN Z-scheme composite heterojunction has been effectively built in a facile sonication-assisted hydrothermal manner. The as-synthesized optimal 0.2 M CoO/g-CN (GCO2) composite photocatalysts (PCs) revealed admirable degradation efficiency towards methyl orange (MO, 65.

Eco-friendly approaches of mycosynthesized copper oxide nanoparticles (CuONPs) using Pleurotus citrinopileatus mushroom extracts and their biological applications.

This current study aims to develop a unique biomaterial that can fight against oxidative stress and microbial infections without causing any harm. As a result, an easy-to-make, environment-friendly, long-lasting, and non-toxic copper oxide nanoparticle (CuONP) was synthesized using an edible mushroom Pleurotus citrinopileatus extract. The UV-vis spectroscopy analyses reflected a sharp absorbance peak at 250 nm.

Slide-tags: scalable, single-nucleus barcoding for multi-modal spatial genomics.

Recent technological innovations have enabled the high-throughput quantification of gene expression and epigenetic regulation within individual cells, transforming our understanding of how complex tissues are constructed. Missing from these measurements, however, is the ability to routinely and easily spatially localise these profiled cells. We developed a strategy, Slide-tags, in which single nuclei within an intact tissue section are 'tagged' with spatial barcode oligonucleotides derived from DNA-barcoded beads with known positions.