Exploring the prognostic role of microbial and genetic markers in lung squamous cell carcinoma by Fan Yang, Xiaodong Jia, Zihuan Ma, Siyao Liu, Chunzi Liu, Dan Chen, Xiuju Wang, Niansong Qian, Hui Ma

“…LUSC patient data from The Cancer Genome Atlas (TCGA), including microbial genus level abundance data and RNA sequencing (RNA-Seq) data, were used as a training dataset. …”
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Mendelian randomization analysis does not support a causal influence between lipoprotein(A) and immune-mediated inflammatory diseases by Yun Ti, Dan Xu, Xiaoning Qin, Yang Hu, Yuru Xu, Qingzhao Zhao, Peili Bu, Jingyuan Li

“…We performed a bidirectional two-sample mendelian randomization analyses based on genome-wide association study (GWAS) summary statistics of Lp(a) and nine IMIDs, specifically celiac disease (CeD), Crohn’s disease (CD), ulcerative colitis (UC), inflammatory bowel disease (IBD), multiple sclerosis (MS), psoriasis (Pso), rheumatoid arthritis (RA), systemic lupus erythematosus (SLE), type 1 diabetes (T1D), and summary-level data for lipid traits. …”
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VCAM-1 Promotes Angiogenesis of Bone Marrow Mesenchymal Stem Cells Derived from Patients with Trauma-Induced Osteonecrosis of the Femoral Head by Regulating the Apelin/CCN2 Pathway by Yiming Shao, Lei Sun, Baodong Ma, Ranran Jin, Yueyao Ban, Ruibo Li, Jianfa Wang, Hongkai Lian, Han Yue

“…Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis revealed that upregulated DEGs were engaged in the Apelin signaling pathway. …”
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A Comprehensive Resource for Exploring Antiphage Defense: DefenseFinder Webservice,Wiki and Databases by Tesson, Florian, Planel, Rémi, Egorov, Artyom A, Georjon, Héloïse, Vaysset, Hugo, Brancotte, Bryan, Néron, Bertrand, Mordret, Ernest, Atkinson, Gemma Catherine, Bernheim, Aude, Cury, Jean

“…To overcome these challenges, we present a hub of resources on defense systems, including: 1) an updated version of DefenseFinder with a web-service search function, 2) a community-curated repository of knowledge on the systems, and 3) precomputed databases, which include annotations done on RefSeq genomes and structure predictions generated by AlphaFold. …”
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Acorus shannai (Acoraceae), a new species from Southern China by Zhuo Cheng, Xinyu Liu, Nianting Yu, Weizhe Chen, Haofeng Zhao, Feifei Li, Chunlin Long

“…Based on morphological and plastid genomic data, this study formally describes and illustrates Acorus shannai, distributed in the Qiandongnan area of Guizhou Province and its surroundings, confirming it as a new species within the genus Acorus. …”
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Systematic screening and dynamic profiling of germline regulatory pathways and spermatogonial surface markers in a bivalve mollusc by Liangjie Liu, Ya Shu, Tian Liu, Huilan Wei, Yaxin Yang, Lijing Zhang, Xiaohui Ma, Guoqing Li, Yajuan Li, Shi Wang, Lingling Zhang

“…A single copy of Fgfr (PyFgfr) was confirmed in the P. yessoensis genome, which exhibited the canonical functional domains of FGFRs. …”
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Brown Rot-Type Fungal Decomposition of Sorghum Bagasse: Variable Success and Mechanistic Implications by Gerald N. Presley, Bongani K. Ndimba, Jonathan S. Schilling

“…Linking this information to genome comparisons including other brown rot fungi known to have a similar issue regarding decomposing grasses (Postia placenta, Fomitopsis pinicola) suggested that a lack of CE 1 feruloyl esterases as well as low xylanase activity in S. lacrymans (3x lower than in G. trabeum) may hinder S. lacrymans, P. placenta, and F. pinicola when degrading grass substrates. …”
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The Possible Role of TLR2 in Chronic Hepatitis B Patients with Precore Mutation by Malihe Moradzadeh, Sirous Tayebi, Hossein Poustchi, Kourosh Sayehmiri, Parisa Shahnazari, Elnaz Naderi, Ghodratollah Montazeri, Ashraf Mohamadkhani

“…Fifty-one patients with chronic hepatitis B, negative for HBeAg and detectable HBV DNA, were examined for the presence of mutations in pre-core region of HBV genome by direct sequencing. Serum TLR2 was measured by enzyme-linked immunosorbent assay. …”
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Gut microbial 3α‐hydroxysteroid dehydrogenase promotes depression in males via degrading testosterone by Di Li, Jingru Cheng, Wei Zhang, Pengfei Cheng, Yuan He, Jinghan Jia, Chao Wang, Zhongchun Liu, Zhou Sun, Jinxi Wang

“…We found that A. koreensis administration in mice led to reduced serum testosterone levels and depression‐like behaviors, which were improved by antibiotic treatment. Using whole genome sequencing, the gene mediating testosterone degradation in A. koreensis was identified and annotated as 3α‐hydroxysteroid dehydrogenase (3α‐HSD). …”
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Development and validation of PCR marker array for molecular selection towards spring, vernalization-independent and winter, vernalization-responsive ecotypes of white lupin (Lupin... by Anna Surma, Michał Książkiewicz, Wojciech Bielski, Bartosz Kozak, Renata Galek, Sandra Rychel-Bielska

“…Abstract White lupin (Lupinus albus L.) is an ancient grain legume that is still undergoing improvement of domestication traits, including vernalization-responsiveness, providing frost tolerance and preventing winter flowering in autumn-sowing agriculture, and vernalization-independence, conferring drought escape by rapid flowering in spring-sowing. A recent genome-wide association study highlighted several loci significantly associated with the most contrasting phenotypes, including deletions in the promoter of the FLOWERING LOCUS T homolog, LalbFTc1, and some DArT-seq/silicoDArT loci. …”
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In the coevolution of cotton and pathogenic fungi, resistant cotton varieties lead to an escalation in the virulence of Verticillium dahliae by Yalin Zhang, Lifang Cui, Ruibing Liu, Zili Feng, Hongjie Feng, Jinglong Zhou, Lihong Zhao, Feng Wei, Heqin Zhu

“…Consequently, among the offspring strains, high virulence strains exhibited higher levels of physiological characteristics and genetic diversity compared to moderate and low virulence strains. Moreover, whole genome resequencing revealed that the Ka/Ks ratio of single nucleotide polymorphism (SNPs) in the majority of the offspring strains was about 0.6, indicating an adverse selection impact in the offspring strains. …”
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Alcohol consumption and allergic diseases: Mendelian randomization evidence from China by Chen Zhu, Timothy Beatty, Yingxiang Li, Gang Chen, Qiran Zhao, Qihui Chen

“…Objectives This study aimed to integrate survey and genomic data to explore the potential causal relationship between alcohol consumption and allergic diseases. …”
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Impact of Mediterranean Diet Adherence on the Incidence of New‐Onset Hypertension in Adults With Obesity in Korea: A Nationwide Cohort Study by Jung‐Hwan Kim, Ji‐Won Lee, Yaeji Lee, Chung‐Mo Nam, Yu‐Jin Kwon

“…We used data from the Korean Genome and Epidemiology Study, a population‐based prospective cohort study. …”
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Breeding and selection of mini-pigs in the ICG SB RAS by S. V. Nikitin, S. P. Knyazev, K. S. Shatokhin, V. I. Zaporozhets, V. I. Ermolaev

“…We explained the possibility of using similarity indices calculated by using portions of the ancestors’ blood (genome) for the selection of parental pairs and the evaluation of genetic consolidation of the herd. …”
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Genotyping Genebank Collections: Strategic Approaches and Considerations for Optimal Collection Management by Noelle L. Anglin, Peter Wenzl, Vania Azevedo, Charlotte Lusty, David Ellis, Dongying Gao

“…Due to the advancement of technology, genotyping and sequencing whole genomes of plant germplasm collections is now feasible. …”
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Flunarizine as a Candidate for Drug Repurposing Against Human Pathogenic Mammarenaviruses by Chukwudi A. Ofodile, Ikemefuna C. Uzochukwu, Fortunatus C. Ezebuo, InnocentMary Ejiofor, Mercy Adebola, Innocent Okpoli, Beatrice Cubitt, Haydar Witwit, Chetachi B. Okwuanaso, Ngozi Onyemelukwe, Juan Carlos de la Torre

“…We used in silico docking approaches to investigate the binding affinities of 2015 existing drugs to LASV proteins known to play critical roles in the formation and activity of the virus ribonucleoprotein complex (vRNP) responsible for directing replication and transcription of the viral genome. Validation of docking protocols were achieved with reference inhibitors of the respective targets. …”
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The Identification of Key Genes and Pathways in Glioma by Bioinformatics Analysis by Mingfa Liu, Zhennan Xu, Zepeng Du, Bingli Wu, Tao Jin, Ke Xu, Liyan Xu, Enmin Li, Haixiong Xu

“…Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were applied for the enriched pathways. …”
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The future of plant lectinology: Advanced technologies and computational tools by Vinicius J.S. Osterne, Kyria S. Nascimento, Benildo S. Cavada, Els J.M. Van Damme

“…Phage display libraries enable the identification of carbohydrate-mimetic peptides and the development of ligands for lectins by presenting diverse peptide libraries on bacteriophages. Genomic and transcriptomic analyses facilitate the exploration of the lectome in various plant species by scanning entire datasets to identify genes that contain lectin motifs—specific conserved amino acid sequences involved in carbohydrate recognition—and lectin domains, the larger structural regions that facilitate and stabilize these interactions. …”
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Liquid Chromatography-Mass Spectrometry-Based Metabolomic Analysis of Metabolites and Metabolic Pathways of Selenium-Enriched Auricularia auricula by YUE Shibo, CUI Hang, SHEN Qin, CAO Dongmei

“…Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolic pathway analysis found that selenization had a significant effect on lipid and amino acid metabolism. …”
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TRα1 mutant suppresses KLF9 to cause endometrial metaplasia with ectopic IL-33 expression leading to uterine fibrosis and infertility by Elijah Edmondson, Takahito Kimura, Eunmi Hwang, Minjun Kim, Andrew Warner, Yuelin Zhu, Li Zhao, Yanlin Yu, Xuguang Zhu, Maria Hernandez, Noemi Kedei, Sheue-yann Cheng

“…Abstract Thyroid hormone receptors (TRs) mediate the genomic actions of thyroid hormone. Mutations of THRA gene cause a human disease known as resistance to thyroid hormone (RTHα). …”
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