In silico design of an epitope-based vaccine ensemble for fasliolopsiasis by Ruchishree Konhar, Ruchishree Konhar, Kanhu Charan Das, Kanhu Charan Das, Aiboklang Nongrum, Rohan Raj Samal, Shailesh Kumar Sarangi, Devendra Kumar Biswal, Devendra Kumar Biswal

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Surveillance of SARS-CoV-2 variants in Henan, China from 2023 to 2024 by Yun Song, Bicong Wu, Hongxia Ma, Yafei Li, Su Yan, Jingjing Pan, Haifeng Wang, Ying Ye, Xueyong Huang, Wanshen Guo

“…Genome sequence analysis was performed with CLC Genomics Workbench, and genotyping and sequence alignment were carried out using the Nextclade platform. …”
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The importance of genotyping within the climate-smart plant breeding value chain – integrative tools for genetic enhancement programs by Ana Luísa Garcia-Oliveira, Rodomiro Ortiz, Fatma Sarsu, Søren K. Rasmussen, Paterne Agre, Asrat Asfaw, Moctar Kante, Subhash Chander

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Developing and validating a drug recommendation system based on tumor microenvironment and drug fingerprint by Yan Wang, Xiaoye Jin, Rui Qiu, Bo Ma, Sheng Zhang, Xuyang Song, Jinxi He

“…Clinical application was assessed using The Cancer Genome Atlas (TCGA) dataset, with Best Overall Response (BOR) serving as the clinical efficacy measure. …”
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Binding affinity screening of polyphenolic compounds in Stachys affinis extract (SAE) for their potential antioxidant and anti-inflammatory effects by Hun Hwan Kim, Se Hyo Jeong, Min Yeong Park, Pritam Bhangwan Bhosale, Abuyaseer Abusaliya, Sang Joon Lee, Jeong Doo Heo, Hyun Wook Kim, Je Kyung Seong, Dong Il Kim, Kwang Il Park, Gon Sup Kim

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Targeting Nrf2/KEAP1 signaling pathway using bioactive compounds to combat mastitis by Muhammad Zahoor Khan, Liangliang Li, Yandong Zhan, Huang Binjiang, Xiaotong Liu, Xiyan Kou, Adnan Khan, Abdul Qadeer, Qudrat Ullah, Khalid J. Alzahrani, Tongtong Wang, Changfa Wang, Muhammad Zahoor

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Staphylococcus aureus carriage is associated with microbiome composition in the nares and oropharynx, not the hand, of monozygotic twins by Mark R. Dalman, W. Brian Simison, Danny Nielsen, Sabana Bhatta, Noor Ramahi, Clair Yee, Dipendra Thapaliya, Jhalka Kadariya, Shanice Cheatham, Hailee Olson, Tara C. Smith

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Protocols for the application of human embryonic stem cell-derived neurons for aging modeling and gene manipulation by Hui Zhang, Shuhui Sun, Juan Carlos Izpisua Belmonte, Guang-Hui Liu, Si Wang, Weiqi Zhang, Jing Qu

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Study of the Phytochemical Composition, the Antioxidant and the Anti-Inflammatory Effects of Two Sub-Saharan Plants: Piliostigma reticulatum and Piliostigma thonningii by K. Boualam, B. Ndiaye, H. Harhar, M. Tabyaoui, N. Ayessou, K. Taghzouti

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Peripheral blood miRNAs are associated with airflow below threshold in children with asthma by Anshul Tiwari, Brian D. Hobbs, Rinku Sharma, Jiang Li, Alvin T. Kho, Sami Amr, Juan C. Celedón, Scott T. Weiss, Craig P. Hersh, Kelan G. Tantisira, Michael J. McGeachie

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Genetic Testing Distinguishes Multiple Chondroid Chordomas with Neuraxial Bone Metastases from Multicentric Tumors by Hiroshi Kobayashi, Masahiro Shin, Naohiro Makise, Aya Shinozaki-Ushiku, Masachika Ikegami, Yuki Taniguchi, Yusuke Shinoda, Shinji Kohsaka, Tetsuo Ushiku, Katsutoshi Oda, Kiyoshi Miyagawa, Hiroyuki Aburatani, Hiroyuki Mano, Sakae Tanaka

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The Progression of Mycosis Fungoides During Treatment with Mogamulizumab: A BIO-MUSE Case Study of the Tumor and Immune Response in Peripheral Blood and Tissue by Angelica Johansson, Eirini Kalliara, Emma Belfrage, Teodor Alling, Paul Theodor Pyl, Anna Sandström Gerdtsson, Urban Gullberg, Anna Porwit, Kristina Drott, Sara Ek

“…<b>Methods:</b> We applied 10× genomics-based single-cell RNA sequencing to CD3+ peripheral T-cells, combined with T-cell receptor sequencing, to samples collected at multiple timepoints during the progression of the disease. …”
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The potential of the amaranth collection maintained at VIR in the context of global plant breeding and utilization trends by D. V. Sokolova, A. E. Solovieva, A. M. Zaretsky, T. V. Shelenga

“…Despite the great potential of amaranth, little research has been dedicated to the study of its genomics, concentrating mainly on the identification of its species diversity. …”
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Atypical Mucin Expression Predicts Worse Overall Survival in Resectable Pancreatic Ductal Adenocarcinoma by Yunzhen Qian, Yitao Gong, Yu Liu, Yusheng Chen, Ruijie Wang, Zhengjie Dai, Xuan Zou, Yesiboli Tasiheng, Guopei Luo, Xuan Lin, Xu Wang, He Cheng, Xianjun Yu, Chen Liu

“…Survival analysis was also performed in the Queensland Centre for Medical Genomics (QCMG, n=70) PDAC cohort to verify the conclusion. …”
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Machine learning based predictive model and genetic mutation landscape for high-grade colorectal neuroendocrine carcinoma: a SEER database analysis with external validation by Ruixin Wu, Ruixin Wu, Sihao Chen, Sihao Chen, Yi He, Yi He, Ya Li, Song Mu, Aishun Jin, Aishun Jin

“…This study was designed to construct a risk model based on comprehensive clinical and mutational genomics data to facilitate clinical decision making.MethodsA retrospective analysis was conducted using data from the Surveillance, Epidemiology, and End Results (SEER) database, spanning 2000 to 2019. …”
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Advances in plant male sterility for hybrid seed production: an overview of conditional nuclear male sterile lines and biotechnology-based male sterile systems by Naresh Vasupalli, Naresh Vasupalli, Kanakachari Mogilicherla, Kanakachari Mogilicherla, Vahab Shaik, Vahab Shaik, K. R. S. Sambasiva Rao, Shripad R. Bhat, Xinchun Lin, Xinchun Lin

“…Here we review environment-sensitive genic male sterility (EGMS) and biotechnology-based male sterility systems and describe the underlying molecular mechanisms. Advances in crop genomics and discovery of a large number of nuclear genes governing anther/pollen development, which are shared across species, are helping design diverse types of male sterile lines suitable for different crop species and situations. …”
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Causal associations between iron levels in subcortical brain regions and psychiatric disorders: a Mendelian randomization study by Wei Du, Biqiu Tang, Senhao Liu, Wenjing Zhang, Su Lui

“…The genetic instrumental variables linked to iron levels and psychiatric disorders were derived from the genome-wide association studies data of the UK Biobank Brain Imaging and Psychiatric Genomics Consortium. …”
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Identification of Potential Biomarkers and Immune Features of Sepsis Using Bioinformatics Analysis by Fang-Chen Gong, Ran Ji, Yu-Ming Wang, Zhi-Tao Yang, Ying Chen, En-Qiang Mao, Er-Zhen Chen

“…Three datasets (GSE95233, GSE57065, and GSE28750) associated with sepsis were downloaded from the public functional genomics data repository Gene Expression Omnibus. Differentially expressed genes (DEGs) were identified using R packages (Affy and limma). …”
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Endometrial factors in the implantation failure spectrum: protocol of a MUltidisciplinary observational cohort study in women with Repeated Implantation failure and recurrent Misca... by Servaas Morré, Ron van Golde, Andrea Romano, Linda Stevens Brentjens, Denise Habets, Janneke Den Hartog, Salwan Al-Nasiry, Lotte Wieten, Aafke Van Montfoort

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Novel protein-based prognostic signature linked to immunotherapeutic efficiency in ovarian cancer by Shuo-Fu Chen, Liang-Yun Wang, Yi-Sian Lin, Cho-Yi Chen

“…Methods The workflow was demonstrated based on the Reverse Phase Protein Array (RPPA) and RNA-sequencing profiles of ovarian cancer patients from The Cancer Genome Atlas (TCGA). The algorithm began by clustering patients using immune-related gene sets, which allowed us to identify immune-related proteins of interest. …”
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