The impact of PD-L1 polymorphisms on the efficacy of immune checkpoint inhibitors depends on the tumor proportion score: a retrospective study by Keiichiro Suminaga, Takashi Nomizo, Hironori Yoshida, Hiroaki Ozasa

“…Method Patients treated with immune checkpoint inhibitor monotherapy for non-small cell lung cancer at Kyoto University Hospital until January 2023, with TPS data and biological specimens available for SNP measurement, were eligible for this study. Genomic DNA was extracted from peripheral blood leukocytes. …”
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Efficiency of SSR and PawS markers for evaluation of genetic polymorphism among red clover (Trifolium pratense L.) cultivars by I. A. Klimenko, S. I. Kostenko, Yu. M. Mavlyutov, A. O. Shamustakimova

“…Marker techniques based on SSR loci and PawS markers were evaluated for their efficiency in revealing the DNA polymorphism in Russian red clover cultivars, and the research results are presented in this publication.Materials and Methods. The total genome DNA was extracted by a modified SDS method from 30 seedlings per each cultivar. …”
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Association between wide-ranging food intake and Parkinson’s disease: a comprehensive mendelian randomization study by Yana Su, Yulei Hao, Wanhui Dong, Ruqing Qiu, Ying Zhang

“…Utilizing data from large-scale genome-wide association studies (GWAS) and dietary databases, we constructed genetic instruments for various dietary factors, including fruit, vegetable, meat, fish, dairy, and grain intake, among others, totaling 170 different food items. …”
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Screening for transcriptomic associations with Swine Inflammation and Necrosis Syndrome by Katharina Gerhards, Sabrina Becker, Josef Kuehling, Mirjam Lechner, Hermann Willems, Robert Ringseis, Gerald Reiner

“…For this purpose, the three to five least affected (SINS-low) and most SINS affected (SINS-high) 3d-old piglets, each of three boars, a relatively SINS stable Duroc boar (DU), a relatively stable Pietrain boar (PI+) and a highly susceptible Pietrain boar (PI-) were selected from 27 litters of mixed semen to minimize environmental effects. Results A genome-wide expression experiment revealed a huge set of differentially expressed genes that are involved in vasculitis, inflammation and necrosis, keratinization and erythrocyte epitopes. …”
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Automation-aided construction and characterization of Bacillus subtilis PrsA strains for the secretion of amylases by Felix Hamburger, Niels Schlichting, Michael Eichenlaub, Paul Igor Costea, Christopher Sauer, Stefan Jenewein, Johannes Kabisch, Johannes Kabisch

“…To achieve this, six genome-reduced strains and nine PrsA proteins were systematically selected based on their cultivation performance and the production of two reference amylases. …”
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Gene Expression Profiling of IL-17A-Treated Synovial Fibroblasts from the Human Temporomandibular Joint by Toshio Hattori, Naomi Ogura, Miwa Akutsu, Mutsumi Kawashima, Suguru Watanabe, Ko Ito, Toshirou Kondoh

“…Here, we investigated the roles of IL-17A in temporomandibular joint disorders (TMD) using genome-wide analysis of synovial fibroblasts isolated from patients with TMD. …”
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Dealing With the Complexity of Effective Population Size in Conservation Practice by Ancuta Fedorca, Joachim Mergeay, Adejoke O. Akinyele, Tamer Albayrak, Iris Biebach, Alice Brambilla, Pamela A. Burger, Elena Buzan, Ino Curik, Roberta Gargiulo, José A. Godoy, Santiago C. González‐Martínez, Christine Grossen, Myriam Heuertz, Sean Hoban, Jo Howard‐McCombe, Maria Kachamakova, Peter Klinga, Viktoria Köppä, Elenora Neugebauer, Ivan Paz‐Vinas, Peter B. Pearman, Laia Pérez‐Sorribes, Baruch Rinkevich, Isa‐Rita M. Russo, Adélaïde Theraroz, Nia E. Thomas, Marjana Westergren, Sven Winter, Linda Laikre, Alexander Kopatz

“…To address the challenges associated with estimating Ne for conservation purposes, the COST Action 18134, Genomic Biodiversity Knowledge for Resilient Ecosystems (G‐BiKE), organized an international workshop that met in August 2022 in Brașov, Romania. …”
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Serine/threonine protein kinase mediates rifampicin resistance in Brucella melitensis through interacting with ribosomal protein RpsD and affecting antioxidant capacity by Yaqin Yuan, Wenqing Ning, Junjie Chen, Jiquan Li, Tianqi Xue, Cuihong An, Lingling Mao, Guangzhi Zhang, Shizhong Zhou, Jiabo Ding, Xiaowen Yang, Jianqiang Ye

“…., and the identified STPK or its pathway can serve as a potential target for new drug development against rifampicin-resistant Brucella spp.IMPORTANCENew rifampicin resistance gene in Brucella melitensis is identified via bioinformatics predictions and a whole-genome transposon mutant library, new mechanisms of rifampicin resistance in B. melitensis, and new function of serine/threonine protein kinase gene and its interaction proteins.…”
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The plant germplasm and herbarium (WIR) collections maintained at VIR as contributors to grape genetic diversity conservation, expansion and utilization by M. M. Agakhanov, L. V. Bagmet, N. G. Tikhonova, M. V. Erastenkova, E. N. Kislin, Yu. V. Ukhatova, E. K. Khlestkina

“…It is noted that a common practice at this stage is to knock out the genes responsible for grapevine susceptibility to diseases, whereas a more advantageous approach in the future will be to make targeted changes in the grape genome based on the knowledge of resistance genes in its wild relatives. …”
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Decoding the Methylation Patterns of ABC Transporters in Colorectal Cancer by Nurul Nabilah Norhisan, Rashidah Baharudin, Nurul Qistina Rus Bakarurraini, Nur Alyaa Afifah Md Shahri, Francis Yew Fu Tieng, Imilia Ismail, Muhammad-Redha Abdullah-Zawawi, Learn-Han Lee, Nurul Syakima Ab Mutalib

“…Survival analysis demonstrated the correlation between DNA methylation of individual CpG sites and patient survival probability in colon and rectal adenocarcinoma datasets from The Cancer Genome Atlas. The study provides insights into the epigenetic landscape of ABC genes in CRC, highlighting their potential roles in drug resistance, disease initiation, and progression. …”
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Comprehensive review of mapping climate change impacts on tea cultivation: bibliometric and content analysis of trends, influences, adaptation strategies, and future directions by Altyeb Ali Abaker Omer, Altyeb Ali Abaker Omer, Chun-Hua Zhang, Chun-Hua Zhang, Jie Liu, Jie Liu, Zhi-guo Shan, Zhi-guo Shan

“…The results show significant progress in understanding the physiological, biochemical, and molecular responses of tea plants to climate-induced stressors, including antioxidant mechanisms, secondary metabolite regulation, and genomic adaptations. Despite these advancements, challenges remain, particularly regarding the combined effects of multiple stressors, long-term adaptation strategies, and the socioeconomic implications of climate change. …”
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Sources and Transmission Routes of Carbapenem-Resistant <i>Pseudomonas aeruginosa</i>: Study Design and Methodology of the SAMPAN Study by Anneloes van Veen, Selvi N. Shahab, Amber Rijfkogel, Anne F. Voor in ’t holt, Corné H. W. Klaassen, Margreet C. Vos, Yulia Rosa Saharman, Anis Karuniawati, Silvia Zelli, Desy De Lorenzis, Giulia Menchinelli, Giulia De Angelis, Maurizio Sanguinetti, Merel Kemper, Anniek E. E. de Jong, Sima Mohammadi, Valentine Renaud, Irena Kukavica-Ibrulj, Marianne Potvin, Guillaume Q. Nguyen, Jeff Gauthier, Roger C. Levesque, Heike Schmitt, Juliëtte A. Severin

“…Additionally, samples will be taken twice from wet hospital environments and monthly from the hospitals’ (drinking) water system, hospital and municipal wastewater treatment plants, and receiving rivers. Whole-genome sequencing will be performed to characterize CRPA isolates and determine the genetic relatedness among the isolates from different reservoirs. …”
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Nuclear Protein 1 Expression Is Associated with PPARG in Bladder Transitional Cell Carcinoma by Chao Lu, Shenglin Gao, Li Zhang, Xiaokai Shi, Yin Chen, Shuzhang Wei, Li Zuo, Lifeng Zhang

“…However, the role of Nuclear protein 1 in bladder transitional cell carcinoma (BTCC) is still unclear. Methods. The Cancer Genome Atlas database and immunohistochemical analysis were adopted to evaluate Nuclear protein 1 expression in BTCC. …”
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Recent advances in genetics of aggressive behavior by J. D. Davydova, S. S. Litvinov, R. F. Enikeeva, S. B.  Malykh, E. K. Khusnutdinova

“…In addition, there is evidence that the hypothalamic-pituitary system genes (OXT, OXTR, AVPR1A, AVPR1B), the sex hormone receptors genes (ER1, AR), neurotrophin (BDNF) and neuronal apoptosis genes (CASP3, BAX) may also be involved in development of aggressive behavior. The results of Genome-Wide Association Studies (GWAS) have demonstrated that FYN, LRRTM4, NTM, CDH13, DYRK1A and other genes are involved in regulation of aggressive behavior. …”
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An annotated high-content fluorescence microscopy dataset with EGFP-Galectin-3-stained cells and manually labelled outlineszenodo by Salma Kazemi Rashed, Malou Arvidsson, Rafsan Ahmed, Sonja Aits

“…In the context of microscopy-based high-throughput drug and genomic screening and even in smaller scale microscopy experiments, the objects that most often need to be detected are cells. …”
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CLONING OF GENES ENCODING TRANSMEMBRANE PROTEINS AND PROTEINS RESPONSIBLE FOR AFRICAN SWINE FEVER VIRUS VIRULENCE by Ali Mazloum, N. G. Zinyakov, A. S. Igolkin, N. N. Vlasova

“…Proportion of cloned virus genes was 3.01% of Krasnodar 07/17 isolate genome, hence, total amount of the clone library has reached 7.82%.…”
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The metabolomic approach to the assessment of cultivar specificity of Brassica napus L. seeds by G. N. Smolikova, A. L. Shavarda, I. V. Alekseichuk, V. V. Chantseva, S. S. Medvedev

“…Recent biomolecular studies tend to involve combinations of different methods and approaches that allow analyzing organisms on the genomic and proteomic levels, as well as on the level of metabolomics. …”
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Comprehensive analysis of cuproptosis-related genes in immune infiltration and development of a novel diagnostic model for acute kidney injury by Yajing Li, Yingxue Ding

“…Our study aimed to investigate the involvement of cuproptosis-related genes (CRGs) in AKI.Methods Identification of CRGs was conducted using differential expression analysis, and subsequent Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were conducted using human sequencing profiles. …”
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Pulp stones and kidney stones-related gene: An investigation of single nucleotide polymorphisms in the gene encoding parathyroid hormone by Prescila Mota de Oliveira Kublitski, Bruna de Souza Romano, Vania Gomes Moraes, Manoel Damião Sousa-Neto, Lívia Azeredo Alves Antunes, Erika Calvano Küchler, Leonardo Santos Antunes, João Armando Brancher, Edgard Michel-Crosato, Marilisa Carneiro Leão Gabardo

“…The samples were processed, and genomic DNA was used to genotype the rs694, rs6256, and rs307247 SNPs. …”
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Genetic Diversity of Human Enterovirus in Kazakhstan, during 2022 by Dinara Kamalova, Assel Akhmetova, Asylulan Amirgazin, Igor Sytnik, Viktoriya Rudenko, Gulzhan Yessimkhanova, Dinagul Bayesheva, Sergey Yegorov, Alexander Shevtsov

“…We then genotyped enteroviral subtypes associated with AM (n = 50) and HA (n = 9) using next-generation sequencing (NGS) on the viral protein 1 (VP1), followed up by whole-genome sequencing of the isolated viral species. All identified EVs were species B EV, consisting of five echoviruses (E6, E9, E11, E21, and E25) and three coxsackieviruses (CVA9, CVB3, and CVB5) serotypes within the cohort. …”
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