Explanipedia

Characterization of the spoilage microbial communities in plant-based meat alternatives during refrigerated storage Open

Mehmet N. Doğan, David A. Mann, Xiangyu Deng · 2025

Plant-based meat alternatives (PBMAs), primarily derived from pea or soy proteins, are gaining popularity and market share, yet their spoilage ecology remains understudied. To address this knowledge gap, we profiled the bacterial and funga…

Introduction of the transmissible mobile colistin resistance genes mcr-3 and mcr-9 to the USA via imported seafood Open

Jouman Hassan, Tongzhou Xu, Marwan Osman, Steven J. Schiff, David A. Mann , et al. · 2025

The emergence and global dissemination of the mobile colistin resistance genes ( mcr ) threaten the efficacy of colistin, a high-priority, critically important antibiotic that is used to treat complicated infections with multidrug-resistan…

Superfast Protein Desulfurization Triggered by Low‐Energy Visible Light Open

Dongyang Han, Xiangyu Deng, Yan Cui, Xinyue Zhu, Guiyu Deng , et al. · 2025

The combination of transthioesterification‐based ligation of thiol‐derived amino acids and the post‐ligation desulfurization has greatly expanded the scope of modern chemical protein synthesis. Here, we report a new strategy of low‐energy …

Re: Concerns Regarding the Validation of ZYS-1 as a Bona Fide ADAR1 Inhibitor Open

Min Zhang, Xiangyu Deng, Yang Gao, Jin Wang · 2025

Wang et al. in Nature Cancer report ZYS-1 as an ADAR1 inhibitor and present biochemical and cellular evidence to support ZYS-1’s direct interaction with and inhibition of ADAR1, including enzymatic assays, surface plasmon resonance (SPR), …

Salmonella serotypes in the genomic era: simplified Salmonella serotype interpretation from DNA sequence data Open

Xiangyu Deng, Shaoting Li, Tongzhou Xu, Zhemin Zhou, Michelle Moore , et al. · 2025

In the era of genomic characterization of strains for public health microbiology, whole genome sequencing (WGS)-enabled subtyping of Salmonella provides superior discrimination of strains compared to traditional methods such as serotyping.…

Biochemical Profiling and Structural Basis of ADAR1-Mediated RNA Editing Open

Xiangyu Deng, Lina Sun, Min Zhang, Rashmi Basavaraj, Jin Wang , et al. · 2025

Summary ADAR1 is a pivotal regulator in RNA-induced immune responses by catalyzing the conversion of adenosine to inosine on double-stranded RNA. Mutations on ADAR1 are associated with human autoimmune disease, and targeting ADAR1 has been…

Mashpit: sketching out genomic epidemiology Open

Tongzhou Xu, Henk C. den Bakker, Xiangyu Deng, Lee S. Katz · 2024

A novel multidrug-resistant Enterobacter hormaechei ST2755 isolated from a wild-caught oyster in Georgia, USA Open

Nivin Nasser, Marwan Osman, Jouman Hassan, Ting Xu, David A. Mann , et al. · 2024

Microbial Partner (MiPner) Analysis Open

Jeffrey L. Bennetzen, Josue Fernandez Canela, Vienna Elmgreen, S. McCann, Mitchell W. Norris , et al. · 2024

Although a few bacteria have been studied in great depth, relatively little is known about the characteristics of microbe-microbe interactions that occur within ecosystems on a daily basis. A simple, robust technique was developed to set u…

Deficiency of m6A RNA methylation promotes ZBP1-mediated cell death Open

Shuang Li, Xiangyu Deng, Deepak Pathak, Rashmi Basavaraj, Lina Sun , et al. · 2024

m 6 A RNA methylation suppresses the immunostimulatory potential of endogenous RNA. Deficiency of m 6 A provokes inflammatory responses and cell death, but the underlying mechanisms remain elusive. Here we showed that the noncoding RNA 7SK…

Skin metastasis from ovarian cancer with somatic BRCA1 mutation: A case report and literature review Open

J. W. Zhang, Wenfeng He, Zhenhua Zhang, Hui Dong, Xiangyu Deng , et al. · 2024

Skin metastasis from ovarian cancer is rare, and its prognosis is poor. Effective therapeutic strategies are currently lacking, but the combination of various treatment methods shrink the tumor and relieve symptoms. The present study repor…

HPV-associated cervicovaginal microbiome and host metabolome characteristics Open

Yao Zhang, Xu Wu, Dan Li, Rong Huang, Xiangyu Deng , et al. · 2024

Background Cervicovaginal microbiome plays an important role in the persistence of HPV infection and subsequent disease development. However, cervicovaginal microbiota varied cross populations with different habits and regions. Identificat…

Case report: Giant lymph node metastases: a new opportunity for cancer radioimmunotherapy? Open

Yuan Bian, Zhenhua Zhang, Xiangyu Deng, Qinglian Wen, Dan Li · 2024

Background Despite the significant progress made in radiotherapy and chemotherapy for the treatment of cervical cancer, patients with lymph node metastasis still have a poor prognosis. It is widely accepted that lymph node metastasis plays…

Genomic characterization of Salmonella isolated from retail chicken and humans with diarrhea in Qingdao, China Open

Wei Wang, Jing Cui, Feng Liu, Yujie Hu, Fengqin Li , et al. · 2023

Salmonella , especially antimicrobial resistant strains, remains one of the leading causes of foodborne bacterial disease. Retail chicken is a major source of human salmonellosis. Here, we investigated the prevalence, antimicrobial resista…

Comparative genomics unveils extensive genomic variation between populations of Listeria species in natural and food-associated environments Open

Jingqiu Liao, Xiaodong Guo, Shaoting Li, Sai Manohar Balu Anupoju, Rachel A. Cheng , et al. · 2023

Comprehending bacterial genomic variation linked to distinct environments can yield novel insights into mechanisms underlying differential adaptation and transmission of microbes across environments. Gaining such insights is particularly c…

First report of the mobile colistin resistance gene, mcr-1.26, in multidrug-resistant Escherichia coli isolated from retail chicken meat Open

Issmat I. Kassem, Marwan Osman, Jouman Hassan, Abdallah Alhaj Sulaiman, David A. Mann , et al. · 2023

Contents Open

Michael J. Dubec, David L. Buckley, Michael Berks, Amy Clough, John Gaffney , et al. · 2023

PdPtRu trimetallic nanozymes and application to electrochemical immunosensor for sensitive SARS-COV-2 antigen detection Open

Ying Li, Jian Xue, Rongjun Yu, Siling Chen, Xiangyu Deng , et al. · 2023

An Improved SSD Object Detection Algorithm Based on Attention Mechanism and Feature Fusion Open

Xiangyu Deng, Shanshan Li · 2023

The Single Shot MultiBox Detector (SSD) is a well-known object detection method, but its detection of small objects is not effective. This paper makes modifications to the SSD object detection method to address its insufficient semantic in…

Evaluation of multiplex nanopore sequencing for Salmonella serotype prediction and antimicrobial resistance gene and virulence gene detection Open

Xingwen Wu, Hao Luo, Chongtao Ge, Feng Xu, Xiangyu Deng , et al. · 2023

In a previous study, Multiplex-nanopore-sequencing based whole genome sequencing (WGS) allowed for accurate in silico serotype prediction of Salmonella within one day for five multiplexed isolates, using both SISTR and SeqSero2. Since only…

Summary and clinical application of Zhuang medicine medicated thread moxibustion Open

Yang-Meng Cao, De-Yuan Qin, Xiangyu Deng, Dandan Chen, Zong-Xi Sun , et al. · 2023

Draft Genome Sequences of Antibiotic-Resistant Serratia sp. Strains Isolated from Raw Sewage and Sediment Sludge in Georgia, USA Open

Jouman Hassan, Malak A. Esseili, David A. Mann, Marwan Osman, Shaoting Li , et al. · 2022

Sewage has been established as a prime matrix for monitoring the emergence and dissemination of etiologic agents and antibiotic resistance determinants in a population. Here, we report the draft genomes and the acquired resistance genes of…

Systematic pan-cancer analysis of the nicotinamide n-methyltransferase in human cancer Open

Li Cao, Wei Wu, Xiangyu Deng, Yizhong Peng, Yangyang Chen , et al. · 2022

In several tumors, Nicotinamide N-Methyltransferase (NNMT) was identified as a bridge between methylation metabolism and tumorigenesis and was associated with a poor prognosis. This research aims is to study the prognostic value of NNMT in…

Draft Genome Sequences of Multidrug-Resistant Escherichia coli Isolated from River Water Open

Issmat I. Kassem, Jouman Hassan, Malak A. Esseili, David A. Mann, Marwan Osman , et al. · 2022

The spread of antibiotic resistance poses a critical challenge worldwide. Contaminated environments can become reservoirs, spreading antibiotic-resistant bacteria and genetic determinants of resistance to humans directly or indirectly. Her…

A Novel Image Encryption Algorithm Based on Improved Arnold Transform and Chaotic Pulse-Coupled Neural Network Open

Jinhong Ye, Xiangyu Deng, Aijia Zhang, Hou‐Yong Yu · 2022

Information security has become a focal topic in the information and digital age. How to realize secure transmission and the secure storage of image data is a major research focus of information security. Aiming at this hot topic, in order…

Subtyping Evaluation of Salmonella Enteritidis Using Single Nucleotide Polymorphism and Core Genome Multilocus Sequence Typing with Nanopore Reads Open

Zhihan Xian, Shaoting Li, David A. Mann, Yixiao Huang, Feng Xu , et al. · 2022

Evaluation, standardization, and implementation of the ONT approach to WGS-based, strain-level subtyping is challenging, in part due to its relatively high base-calling error rates and frequent iterations of sequencing chemistry and bioinf…

An Algorithm of Deformation Image Correction Based on Spatial Mapping Open

Xiangyu Deng, Aijia Zhang, Jinhong Ye · 2022

The original image has geometric deformation in geometric position, shape, size and orientation due to the shooting angle or capturing in the process of image shooting. It brings a lot of inconveniences and great challenges in image proces…

Subtyping evaluation of Salmonella Enteritidis using SNP and core genome MLST with nanopore reads Open

Zhihan Xian, Shaoting Li, David A. Mann, Yixiao Huang, Feng Xu , et al. · 2022

Whole genome sequencing (WGS) for public health surveillance and epidemiological investigation of foodborne pathogens predominantly relies on sequencing platforms that generate short reads. Continuous improvement of long-read nanopore sequ…

An Algorithm Of Deformation Image Correction Based on Spatial Mapping Open

Xiangyu Deng, Aijia Zhang, Jinhong Ye · 2022

Dynamic response landscape of immune cells identified immune dysfunction which predicts disease progression in COVID-19 infected patients Open

Xiangyu Deng, Yao Zhang, Meiqi Li, Xiaolong Tang, Jing Shen , et al. · 2022

During the development of COVID-19 caused by SARS-CoV-2 infection from mild disease to severe disease, it can trigger a series of complications and stimulate a strong cellular and humoral immune response. However, the precise identificatio…

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