Pathogenic Process-Associated Transcriptome Analysis of Stemphylium lycopersici from Tomato by Dezhen Zhang, Wenjuan Chi, Cuicui Wang, Huijie Dai, Jintang Li, Chunlei Li, Fajun Li

“…In this study, a comparative transcriptomic analysis was performed and more genetic information on the pathogenicity determinants of S. lycopersici during the infection process in tomato were obtained. Through an RNA sequencing (RNA-seq) analysis, 1,642 and 1,875 genes upregulated during the early infection and necrotrophic phases, respectively, were identified and significantly enriched in 44 and 24 pathways, respectively. …”
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Evaluation of fecal occult blood testing for rapid diagnosis of invasive diarrhea in young children. by David A Kwasi, Pelumi D Adewole, Olabisi C Akinlabi, Stella E Ekpo, Iruka N Okeke

“…Presumptive pathogen isolates were identified biochemically and by PCR, and then confirmed by whole genome sequencing. Shigella, enteroinvasive Escherichia coli and Yersinia, pathogens that invariably cause invasive diarrhea, were detected in five of 46 specimens. …”
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IPEX Syndrome with Normal FOXP3 Protein Expression in Treg Cells in an Infant Presenting with Intractable Diarrhea as a Single Symptom by Ali Al Maawali, Beata Derfalvi, Johan Van Limbergen, Andrew Issekutz, Thomas Issekutz, Hasan Ghandourah, Mohsin Rashid

“…IPEX syndrome should be considered in young children even if severe intractable diarrhea is the only symptom with no other autoimmune manifestations. Sequencing of the FOXP3 gene should always be considered for accurate diagnosis to look for mutations even in the face of normal FOXP3 protein expression in the Treg cell.…”
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Genomic landscape and comparative analysis of tissue and liquid-based NGS in Taiwanese anaplastic thyroid carcinoma by Chun-Nan Yeh, Shu-Fu Lin, Chia-Ling Wu, Miaw-Jene Liou, I-Wen Chen, Chiao-Ping Chen, Ching-Fu Chang, Qi‑An Wang, Chiao-En Wu

“…Abstract Anaplastic thyroid carcinoma (ATC) is an aggressive cancer that requirements rapid diagnosis and multimodal treatment. Next-generation sequencing (NGS) aids in personalized therapies and improved trial enrollment. …”
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A Label-Free Colorimetric Aptasensor for Flavokavain B Detection by Sisi Ke, Ningrui Wang, Xingyu Chen, Jiangwei Tian, Jiwei Li, Boyang Yu

“…In this work, DNA aptamers were selected using the library-immobilized method and high-throughput sequencing. Three families of aptamers were obtained, and the best one named FKB-S showed a dissociation constant (K_D) of 280 nM using microscale thermophoresis. …”
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Sudden Vision Loss Secondary to Optic Nerve Infiltration as a Presenting Symptom of Metastatic Lung Adenocarcinoma by M. M. Shamim, M. Whaley, H. Rana, S. K. Jeffus, S. Bhatti, A. B. Sallam

“…He was found to have exon 19 deletion on next-generation sequencing. We treated him with local radiation therapy to the left eye and systemic osimertinib (EGFR-TKI). …”
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Investigation of new exopolysaccharides produced by strains of donkey milk by Arevik Israyelyan, Tsovinar Balabekyan, Lara Aleksanyan, Inesa Sahakyan, Anna Gasparyan, Flora Тkhruni

“…Materials and Methods: Species identification of LAB strains was confirmed by 16S rDNA gene sequencing method using universal primers LAB strains. …”
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Potential links between human bloodstream infection by Salmonella enterica serovar Typhimurium and international transmission to Colombia. by Yan Li, Caisey V Pulford, Paula Díaz, Blanca M Perez-Sepulveda, Carolina Duarte, Alexander V Predeus, Magdalena Wiesner, Darren Heavens, Ross Low, Christian Schudoma, Angeline Montaño, Neil Hall, Jaime Moreno, Jay C D Hinton

“…The study identified the distinct sequence types and phylogenetic clusters of S. Typhimurium prevalent in Colombia. …”
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Concomitant of Pulmonary Hydatid Cyst and Aspergilloma: A Rare Coinfection by Zahra Zareshahrabadi, Bahador Sarkari, Nadereh Shamsolvaezin, Bizhan Ziaian, Alireza Tootoonchi, Reza Shahriarirad, Kamiar Zomorodian

“…DNA was extracted from the cyst, and the ITS1-5.8s-ITS2 region of the fungal agent was amplified. Sequencing and analysis of seminested PCR product revealed that the isolate has the most similarity with Aspergillus niger. …”
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The auxin signaling pathway to its PIN transporters: insights based on a meta-analysis of auxin-induced transcriptomes by V. V. Kovrizhnykh, Z. S. Mustafin, Z. Z. Bagautdinova

“…The use of high-throughput sequencing data on auxin-induced transcriptomes makes it possible to identify candidate genes involved in the regulation of PIN expression. …”
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Flexible analysis of spatial transcriptomics data (FAST): a deconvolution approach by Meng Zhang, Joel Parker, Lingling An, Yiwen Liu, Xiaoxiao Sun

“…As a result of technical limitations, the majority of spatial transcriptomics techniques provide bulk data for each sequencing spot. Consequently, in order to obtain high-resolution spatial transcriptomics data, performing deconvolution becomes essential. …”
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Fractional hitting sets for efficient multiset sketching by Timothé Rouzé, Igor Martayan, Camille Marchet, Antoine Limasset

“…Abstract The exponential increase in publicly available sequencing data and genomic resources necessitates the development of highly efficient methods for data processing and analysis. …”
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Bauhinia coccinea extract prevents memory loss induced by scopolamine through activation of antiapoptotic and antioxidant pathways in mice by Eunjin Sohn, Bu-Yeo Kim, Yu Jin Kim, Joo-Hwan Kim, Soo-Jin Jeong

“…Furthermore, EEBC significantly reduced malondialdehyde levels and activated catalase in SCO-administered brains. Quantitative RNA sequencing showed involvement of lipid metabolism in EEBC memory function regulation. …”
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Optimal Molecular Methods in Detecting p190BCR-ABL Fusion Variants in Hematologic Malignancies: A Case Report and Review of the Literature by Rebecca J. Sonu, Brian A. Jonas, Denis M. Dwyre, Jeffrey P. Gregg, Hooman H. Rashidi

“…A concurrent qualitative PCR was performed which detected a positive BCR-ABL1 result that was confirmed by a next generation sequencing (NGS) based assay and identified as the rare fusion variant e1a3 of p190BCR-ABL. …”
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Application of Genomic Selection in Beef Cattle Disease Prevention by Ramanathan Kasimanickam, Joao Carlos Pinheiro Ferreira, John Kastelic, Vanmathy Kasimanickam

“…By incorporating genomic technologies such as whole-genome sequencing, genotyping, and transcriptomics, researchers can identify specific genetic variants associated with resistance to pathogens like bovine respiratory disease and Johne’s disease. …”
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Pooled PPIseq: Screening the SARS-CoV-2 and human interface with a scalable multiplexed protein-protein interaction assay platform. by Darach Miller, Adam Dziulko, Sasha Levy

“…This approach combines the mDHFR split-tag reporter with the iSeq2 interaction-barcoding system to permit massively-multiplexed PPI quantification by simple pooled engineering of barcoded constructs, integration of these constructs into budding yeast, and fitness measurements by pooled cell competitions and barcode-sequencing. We applied this method to screen for PPIs between SARS-CoV-2 proteins and human proteins, screening in triplicate >180,000 ORF-ORF combinations represented by >1,000,000 barcoded lineages. …”
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SPHK1 enhances olaparib resistance in ovarian cancer through the NFκB/NRF2/ferroptosis pathway by Kai Teng, Hanlin Ma, Panpan Gai, Xuelian Zhao, Gonghua Qi

“…To investigate the potential mechanism involved in olaparib resistance of ovarian cancer, high-throughput sequencing was performed on olaparib-resistant SKOV3 cell line named SK/Ola. …”
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Protocol for measuring the auxin-induced changes of m6A modification by Bin Li, Yixing Li, Lei Li, Linjun Cai, Lan Li, Li Li, Chongsheng He

“…Here, we present a protocol for detecting phytohormone-induced changes in m6A modification using RNA dot blot and m6A sequencing (m6A-seq) techniques. We describe steps for the auxin treatment, RNA dot blot and m6A-seq library preparation, and data analysis. …”
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Intermediate between Idiopathic Hypereosinophilia and Chronic Eosinophilic Leukemia: A Report of Two Hypereosinophilic Cases with Possible Novel Molecular Mutations by Jui Choudhuri, Mohammad Eskandari, Yang Shi, Yanhua Wang

“…Here, we report two cases of hypereosinophilia in which five possible novel molecular mutations were identified by targeted next-generation sequencing (NGS) analysis. They were FBXW7, KM2A, TCF3, ERBB4, and MET. …”
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Unveiling cell-type-specific microRNA networks through alternative polyadenylation in glioblastoma by Mert Cihan, Greta Schmauck, Maximilian Sprang, Miguel A. Andrade-Navarro

“…Our comprehensive analysis using single-cell RNA sequencing data to investigate the microRNA-binding sites altered by APA profiles offers a robust foundation for future research, presenting a novel approach to understanding and potentially targeting the complex molecular interplay in GBM.…”
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