Lawsonia intracellularis T3SS effector LI0758, an Rce1 ortholog, activates MAPK and NF-κB signaling in mammalian cells by Yuanxiu Zhong, Yiyun Duan, Fenju Lai, Jinhua Zhang, Yimin Dai

“…In this study, we identify that LI0758 can be secreted by the Yersinia T3SS, which suppresses yeast growth and activates mitogen-activated protein kinase (MAPK) and nuclear factor-kappa B (NF-κB) signaling pathway in mammalian cells. Bioinformatics analyses indicate that LI0758 is an ortholog of Rce1, a eukaryotic CAAX protein endoprotease, sharing a similar subcellular localization on the endoplasmic reticulum (ER). …”
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Bilateral acute macular neuroretinopathy following influenza A infection by Charles W. Ryan, Rajesh C. Rao

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Cuproptosis genes in predicting the occurrence of allergic rhinitis and pharmacological treatment. by Ting Yi

“…<h4>Conclusion</h4>Our study analyzed allergic rhinitis and cuproptosis related genes by the bioinformatics approach and predicted 1,5-isoquinolinediol and gefitinib as potentially useful drugs for treating AR patients in the future.…”
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Carboxypeptidase B1 in dialyzed chronic kidney disease patients by Matej Stančík, Marián Grendár, Marián Mokáň

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Optimizing mycelial growth of Trametes versicolor HBB 7328 for enzyme production and green energy by Nikita Goyat, Rajeev Kumar Kapoor, Baljeet Singh Saharan, Prexha Kapoor, Deepika Dhanda

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Cloning, expression pattern analysis, and vector construction of the BvNAC40 gene in sugar beet by FAN Ziqi, SUN Yaqing, LI Ningning, ZHANG Shaoying, LI Guolong

“…[Methods] BvNAC40 gene was cloned using the PCR method, and its protein structure was analyzed by bioinformatics methods. Subcellular localization was observed with green fluorescent protein (GFP). …”
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FTO effects the proliferation, invasion, and glycolytic metabolism of colon cancer by regulating PKM2 by Kongyan Zhang, Fei Zhang, Jiahe Wang

“…However, research on the function of FTO in CRC is scarce. Methods Bioinformatics analysis of TCGA and UALCAN databases was conducted to examine FTO expression in CRC. …”
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PaleoProPhyler: a reproducible pipeline for phylogenetic inference using ancient proteins by Patramanis, Ioannis, Ramos-Madrigal, Jazmín, Cappellini, Enrico, Racimo, Fernando

“…PaleoProPhyler allows researchers with little bioinformatics experience to efficiently analyze palaeoproteomic sequences, so as to derive insights from this valuable source of evolutionary data. …”
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Construction of a pathogenic microorganism detection method based on third-generation nanopore sequencing data by Guoqin Mai, Jiayi Chen, Min Zhang, Wanyue Zhang, Yuting Luo, Ying Dai

“…Methods In this study, a bioinformatics pipeline was developed. First, a comprehensive and penetrating reference database of nucleic acids from pathogenic microorganisms was constructed, and sequence alignment analysis was performed via nanopore sequencing of metagenomic data collected from 40 patients with lower respiratory tract infection symptoms. …”
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Bio-primed machine learning to enhance discovery of relevant biomarkers by David M. Henke, Alexander Renwick, Joseph R. Zoeller, Jitendra K. Meena, Nicholas J. Neill, Elizabeth A. Bowling, Kristen L. Meerbrey, Thomas F. Westbrook, Lukas M. Simon

“…Traditional statistical methods often fall short in this context, necessitating novel computational approaches that harness the full potential of big data in bioinformatics. Here, we introduce a novel machine learning approach extending the Least Absolute Shrinkage and Selection Operator (LASSO) regression framework to incorporate biological knowledge, such as protein-protein interaction databases, into the regularization process. …”
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Advances in antiviral strategies targeting mosquito-borne viruses: cellular, viral, and immune-related approaches by Ayyaz Khan, Zakirullah, Shahid Wahab, Seong-Tshool Hong

“…Additionally, it explores immunomodulatory therapies to enhance antiviral responses and emphasizes the potential of drug repurposing, bioinformatics, artificial intelligence, and deep learning in identifying novel antiviral candidates. …”
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A pan-cancer analysis of MARCH8: molecular characteristics, clinical relevance, and immuno-oncology features by Zihan Quan, Songqing Fan, Hongmei Zheng, Yue Ning, Yang Yang

“…We investigated the role of MARCH8 expression in clinical relevance, prognosis, tumor immune microenvironment, immune checkpoint (ICP) with a series of bioinformatics tools and methods, such as TISIDB database, ESTIMATE, and CIBERSORT method. …”
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CD21low B cells reveal a unique glycosylation pattern with hypersialylation and hyperfucosylation by Peter Tobias Felixberger, Peter Tobias Felixberger, Geoffroy Andrieux, Andrea Maul-Pavicic, Andrea Maul-Pavicic, Sigune Goldacker, Sigune Goldacker, Ina Harder, Ina Harder, Sylvia Gutenberger, Sylvia Gutenberger, Jonathan J. M. Landry, Vladimir Benes, Till Fabian Jakob, Melanie Boerries, Melanie Boerries, Lars Nitschke, Reinhard Edmund Voll, Reinhard Edmund Voll, Klaus Warnatz, Klaus Warnatz, Baerbel Keller, Baerbel Keller

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Bioactive molecules from soybeans (Glycine max) with anti-type 2 diabetes activity: a systematic review by Adekunle Babajide Rowaiye, Lorretha Chinonye Emenyonu, Ezinne Janefrances Nwonu, Okiemute Ajiroghene Okpalefe, Joseph Akwoba Ogugua, Victor Oluwatoyin Akinseye, Gordon Chukwuma Ibeanu

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Mapping genomic regions affecting sensitivity to bovine respiratory disease on chromosome X using selective DNA pooling by Ehud Lipkin, Maria Giuseppina Strillacci, Miri Cohen-Zinder, Harel Eitam, Moran Yishay, Morris Soller, Carlotta Ferrari, Alessandro Bagnato, Ariel Shabtay

“…All regions overlapped or were very close to previously reported regions. Bioinformatics survey found candidate-by-location genes in these regions. …”
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Small open reading frames (sORFs): Driving big improvements in plant development and quality by Kui Dong, Chaofan Shan, Dongyu Wen, Zifan Cui, Jun Cao

“…With the advent of sophisticated technologies such as bioinformatics, ribosome profiling, and mass spectrometry, the investigation of sORFs has experienced a transformative shift and significant expansion. …”
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Identification of Houge type of X-linked syndromic mental retardation caused by CNKSR2 truncated variants by Si-Hua Chang, Jie-Yuan Jin, Yi-Qiao Hu, Run-Yan Wang, Rong Xiang, Xia Wang

“…Methods Two Chinese MRXSHG families were recruited, and their genetic causes were investigated using whole-exome sequencing (WES), Sanger sequencing, and bioinformatics analysis. To verify the impact of these variants, we used real-time PCR and minigenes consisting of exon 14, intron 14, and exon 15 from both the wild-type and the c.1658-3_1676del DNA sequences. …”
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Extraction, GC-MS analysis, cytotoxic, anti-inflammatory and anticancer potential of Cannabis sativa female flower; in vitro, in vivo and in silico by Waqas Safir, Arif Malik, Arif Malik, Haleema Saadia, Ayesha Zahid, Jinyao Li

“…The antiproliferative activities of the extract were determined on HeLa cells by using MTT, Crystal Violet, and Trypan Blue assays with an IC50 value suggesting 51%-77.6% lethality. The bioinformatics analysis of molecular docking proved significant ligand-protein interactions of CBD, THC, and humulene with cancer-associated proteins such as PD-1/PD-L1, TNF-α, and MMP-9. …”
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Integration of transcriptomics and metabolomics data revealed role of insulin resistant SNW1 gene in the pathophysiology of gestational diabetes by Ravi Bhushan, Rimjhim Trivedi, Ritu Raj, Anjali Rani, Sangeeta Rai, Anima Tripathi, Shiv Govind Rawat, Ajay Kumar, Dinesh Kumar, Pawan K. Dubey

“…High-throughput RNA sequencing and computational bioinformatics analyses were conducted to identify novel hub genes, and their regulatory mechanisms were validated through qRT-PCR, western blot, and siRNA-mediated knockdown studies. …”
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Pre-therapeutic efficacy of the CDK inhibitor dinaciclib in medulloblastoma cells by Marta Buzzetti, Sonia Morlando, Dimitrios Solomos, Ammara Mehmood, Alexander W. I. Cox, Mattia Chiesa, Yuri D’Alessandra, Michela Garofalo, Caroline H. Topham, Gianpiero Di Leva

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