Circulation of <i>Mycobacterium tuberculosis</i> strains of the Beijing Central Asian Outbreak genotype in the Kemerovo region — Kuzbass in 2018–2022 by Svetlana N. Zhdanova, Anna A. Vyazovaya, Irina B. Lebedeva, Vyacheslav V. Sinkov, Ilya G. Kondratov, Yakov Sh. Schwartz, Lyubov V. Rychkova, Elena B. Brusina, Igor V. Mokrousov, Oleg B. Ogarkov

“…Whole genome sequencing and bioinformatics analysis were performed for seven Beijing CAO strains. …”
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SUMO-Specific Peptidase 5 Promotes Oesophageal Squamous Cell Carcinoma Growth through the NF-κB-SLC1A3 Axis by Chaoxiang Du, Yunfan Hu, Xinyu Yang, Zhe Zhang, Jianmin Gu, Tao Zhang, Renfeng Wang, Shaoyuan Zhang, Lijie Tan, Guiping Yu

“…Further RNA-seq comparisons between short hairpin SENP5 (shSENP5)- and short hairpin negative control (shNC)-transfected ESCC cell lines were conducted, and the nuclear factor kappa B (NF-κB)—SLC1A3 axis was identified through bioinformatics analysis. The correlation of SENP5 with signalling pathway components was validated via real-time quantitative PCR (qPCR), western blotting (WB), and immunoprecipitation. …”
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Whole-Genome Methylation Sequencing Analysis and Functional Verification of LIM-Homeobox Family Genes in Cervical Cancer by Yu R, Yu Q, Shi J, Meng X, Deng Z, Suo J, Yang H

“…Genome-wide DNA methylation profiles were generated using WGBS. Bioinformatics analysis was conducted to identify differential methylation regions (DMRs) and their associated genes and pathways. …”
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Genome-Wide Comprehensive Identification and In Silico Characterization of Lectin Receptor-Like Kinase Gene Family in Barley (Hordeum vulgare L.) by Fee Faysal Ahmed, Farah Sumaiya Dola, Md Shohel Ul Islam, Fatema Tuz Zohra, Nasrin Akter, Shaikh Mizanur Rahman, Md. Abdur Rauf Sarkar

“…Therefore, in this study, integrated bioinformatics tools were used to identify and characterize the LecRLK gene family in barley. …”
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The miR-1269a/PCDHGA9/CXCR4/β-catenin pathway promotes colorectal cancer invasion and metastasis by Haitao Mei, Qingshan Luo, Junyong Weng, Jialing Hao, Jinfeng Cai, Runkai Zhou, Ce Bian, Yingzi Ye, Shengzheng Luo, Yugang Wen

“…Differential gene expression from high-throughput sequencing was analyzed using ingenuity pathway analysis (IPA) to explore the biological functions of PCDHGA9 and its potential regulated genes. Bioinformatics tools were employed to explore potential upstream regulatory microRNAs of PCDHGA9. …”
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Relieving Sore Throat Formula Exerts a Therapeutic Effect on Pharyngitis through Immunoregulation and NF-κB Pathway by Yushi Ding, Suyun Yu, Zhonghong Wei, Rui Deng, Peng Chen, Yifan Sun, Qi Jia, Xiaoman Li, Yuanyuan Wu, Wenxing Chen, Kurt S. Zanker, Aiyun Wang, Yin Lu

“…We combined multiple methods including bioinformatics data digging, network pharmacology analysis, and pathway analysis to predict the potential target of RSTF. …”
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Exome sequencing reveals a rare damaging variant in GRIN2C in familial late-onset Alzheimer's disease by Elisa Rubino, Maria Italia, Elisa Giorgio, Silvia Boschi, Paola Dimartino, Tommaso Pippucci, Fausto Roveta, Clara Maria Cambria, Gabriella Elia, Andrea Marcinnò, Salvatore Gallone, Ekaterina Rogaeva, Flavia Antonucci, Alfredo Brusco, Fabrizio Gardoni, Innocenzo Rainero

“…Exome sequencing was performed on three affected individuals and two healthy relatives. Bioinformatics analyses were conducted. Functional analysis was performed using primary neuronal cultures, and the impact of the variant was assessed through immunocytochemistry and electrophysiology. …”
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The CHK1 inhibitor prexasertib in BRCA wild-type platinum-resistant recurrent high-grade serous ovarian carcinoma: a phase 2 trial by Elena Giudice, Tzu-Ting Huang, Jayakumar R. Nair, Grant Zurcher, Ann McCoy, Darryl Nousome, Marc R. Radke, Elizabeth M. Swisher, Stanley Lipkowitz, Kristen Ibanez, Duncan Donohue, Tyler Malys, Min-Jung Lee, Bernadette Redd, Elliot Levy, Shraddha Rastogi, Nahoko Sato, Jane B. Trepel, Jung-Min Lee

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Single‐cell RNA‐sequencing and spatial transcriptomic analysis reveal a distinct population of APOE− cells yielding pathological lymph node metastasis in papillary thyroid cancer... by Guohui Xiao, Rongli Xie, Jianhua Gu, Yishu Huang, Min Ding, Dongjie Shen, Jiqi Yan, Jianming Yuan, Qiong Yang, Wen He, Siyu Xiao, Haizhen Chen, Dan Xu, Jian Wu, Jian Fei

“…A machine‐learning bioinformatics model based on scRNA‐seq data of in‐situ thyroid cancer tissue was established to predict lymph node metastasis.…”
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Increased expression of plasma mir-9-3p and let-7b-3p in methamphetamine use disorder and its clinical significance by Wei Wang, Chen Li, Guangsheng Sun, Cunxi Qiu, Junyi Fan, Yuhan Jin, Kunpeng Liu, Peng Sun

“…Employing qRT-PCR technology, we measured the expression levels of miR-9-3p and let-7b-3p in the plasma of those with the disorder. Bioinformatics tools were then used to predict downstream target molecules. …”
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Ionizing radiation-induced disruption of Rela-Bclaf1-spliceosome regulatory axis in primary spermatocytes causing spermatogenesis dysfunction by Hongjian Zhou, Zhipeng Xu, Chun Jiang, Qiuyue Wu, Chuanyue Zhang, Zhenyu Liu, Xiaoxue Zhang, Weiwei Li, Yujia Pang, Jing Zhang, Wenju Pan, Min Chen, Xinyi Xia

“…Results A 6 Gy IR dose induced spermatogenesis disorder and suppressed the spliceosome pathway, predominantly affecting the cell abundance of spermatogonia and primary spermatocytes. Bioinformatics analysis revealed that IR induced splicing disorders in differentiation-related genes, thereby impairing the differentiation ability of primary spermatocytes. …”
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Achievement of guideline-based lipid goals among very-high-risk patients with atherosclerotic cardiovascular disease and type 2 diabetes: results in 213,380 individuals from the cv... by Satoshi Shoji, Nishant P. Shah, Peter Shrader, Laine E. Thomas, Jonathan D. Arnold, Nafeesa N. Dhalwani, Neena A. Thomas, Bethany Kalich, Elisa L. Priest, Mahanaz Syed, Cezary Wójcik, Eric D. Peterson, Ann Marie Navar

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Identification of <i>Bacillus anthracis</i> Strains from Animal Cases in Ethiopia and Genetic Characterization by Whole-Genome Sequencing by Abebe Olani, Domenico Galante, Matios Lakew, Bayeta Senbeta Wakjira, Getnet Abie Mekonnen, Tesfaye Rufael, Tsegaye Teklemariam, Wondwosen Kumilachew, Shimalis Dejene, Ayele Woldemeskel, Adanech Wakjira, Getachew Abichu, Baye Ashenafi, Nigatu Kebede, Aklilu Feleke Haile, Fufa Dawo Bari, Laura Del Sambro, Tadesse Eguale

“…For the first time in Ethiopia, the genetic diversity of five <i>Bacillus anthracis</i> strains, isolated from dead cattle and goats, was investigated by Whole Genome Sequencing (WGS) and bioinformatics analyses. The five sequenced strains were compared to one Ethiopian <i>B. anthracis</i> genome and the other 29 <i>B. anthracis</i> genomes available in the global genetic databases to determine their phylogeny. …”
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Expression of cell-wall related genes is highly variable and correlates with sepal morphology by Hartasánchez, Diego A., Kiss, Annamaria, Battu, Virginie, Soraru, Charline, Delgado-Vaquera, Abigail, Massinon, Florian, Brasó-Vives, Marina, Mollier, Corentin, Martin-Magniette, Marie-Laure, Boudaoud, Arezki, Monéger, Françoise

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Autism common variants associated with white matter alterations at birth: cross-sectional fixel-based analyses of 221 European term-born neonates from the developing human connecto... by Hai Le, Alexandra F. Bonthrone, Alena Uus, Daphna Fenchel, Alexandra Lautarescu, Konstantina Dimitrakopoulou, A. David Edwards, Joseph V. Hajnal, Serena J. Counsell, Lucilio Cordero-Grande, Daan Christiaens, Dafnis Batalle, Maximilian Pietsch, Anthony N. Price, Hamel Patel, Charles Curtis, Harriet Cullen, Maria Deprez, Jacques-Donald Tournier

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Genome-wide association mapping of biochemical traits and its correlation with MYMIV resistance in mungbean (Vigna radiata L. Wilczek) by Manju Kohli, Hina Bansal, Muraleedhar Aski, Gyan P. Mishra, B. R. Shashidhar, Anirban Roy, Soma Gupta, Subodh K. Sinha, Brijesh Kumar Mishra, Nikki Kumari, Atul Kumar, Ranjeet Ranjan Kumar, Ramakrishnan M. Nair, Harsh Kumar Dikshit

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Rat models of postintracerebral hemorrhage pneumonia induced by nasal inoculation with Klebsiella pneumoniae or intratracheal inoculation with LPS by Ruihua Wang, Changlian Gan, Rui Mao, Yang Chen, Ru Yan, Geng Li, Tianqin Xiong, Jianwen Guo

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SNP discovery by exome capture and resequencing in a pea genetic resource collection by Aubert, Grégoire, Kreplak, Jonathan, Leveugle, Magalie, Duborjal, Hervé, Klein, Anthony, Boucherot, Karen, Vieille, Emilie, Chabert-Martinello, Marianne, Cruaud, Corinne, Bourion, Virginie, Lejeune-Hénaut, Isabelle, Pilet-Nayel, Marie-Laure, Bouchenak-Khelladi, Yanis, Francillonne, Nicolas, Tayeh, Nadim, Pichon, Jean-Philippe, Rivière, Nathalie, Burstin, Judith

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OXA β-lactamases from Acinetobacter spp. are membrane bound and secreted into outer membrane vesicles by Lucia Capodimonte, Fernando Teixeira Pinto Meireles, Guillermo Bahr, Robert A. Bonomo, Matteo Dal Peraro, Carolina López, Alejandro J. Vila

“…NDMs have been exceptionally characterized as lipoproteins anchored to the outer membrane. A bioinformatics study on all sequenced β-lactamases was performed that revealed a predominance of putative lipidated enzymes in the Class D OXAs. …”
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Identification and validation of BATF as a prognostic biomarker and regulator of immune cell infiltration in acute myeloid leukemia by Zhe Zhao, Dongmei Wang, Dongmei Wang, Xue Sheng, Shuying Li, Tingting Liu, Mengyuan Chang, Lei Feng, Di Zhang, Chunyan Ji, Chunyan Ji, Fei Lu, Jingjing Ye

“…Finally, there were differences in receptor ligand pairs between AML cells with high and low expression of BATF and immune cells.ConclusionBioinformatics analysis and experimental verification revealed that BATF expression could alter the proportions of CD8+T cells and NK cells in AML and affect drug sensitivity, making it a potential treatment target for AML.…”
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