Gender Variations in the Oral Microbiomes of Elderly Patients with Initial Periodontitis by Jie Zhao, Ying-Hui Zhou, Ya-Qiong Zhao, Yao Feng, Fei Yan, Zheng-Rong Gao, Qin Ye, Yun Chen, Qiong Liu, Li Tan, Shao-Hui Zhang, Jing Hu, Marie Aimee Dusenge, Yun-Zhi Feng, Yue Guo

“…Kyoto Encyclopedia of Genes and Genomes analysis showed that predicting changes in the female oral microbiota may be related to the immune system and immune system diseases are the main factor in males. …”
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Robust collection and processing for label-free single voxel proteomics by Reta Birhanu Kitata, Marija Velickovic, Zhangyang Xu, Rui Zhao, David Scholten, Rosalie K. Chu, Daniel J. Orton, William B. Chrisler, Tong Zhang, Jeremy V. Mathews, Benjamin M. Bumgarner, Demirkan B. Gursel, Ronald J. Moore, Paul D. Piehowski, Tao Liu, Richard D. Smith, Huiping Liu, Clive H. Wasserfall, Chia-Feng Tsai, Tujin Shi

“…Abstract With advanced mass spectrometry (MS)-based proteomics, genome-scale proteome coverage can be achieved from bulk tissues. …”
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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

“…We produced a dataset composed of morphological parameters and genome-wide transcriptome obtained from 27 individual sepals from wild-type plants with nearly identical genetic backgrounds, environment, and developmental stage. …”
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Single-cell sequencing provides clues about the developmental genetic basis of evolutionary adaptations in syngnathid fishes by Hope M Healey, Hayden B Penn, Clayton M Small, Susan Bassham, Vithika Goyal, Micah A Woods, William A Cresko

“…The developmental genetic and cellular changes that led to the evolution of these traits are largely unknown. Recent syngnathid genome assemblies revealed suggestive gene content differences and provided the opportunity for detailed genetic analyses. …”
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Beyond the Comfort Zone: Strenuous Sports as a Preventive Tactic Against Benign Prostatic Hyperplasia by Wei Zhang, Gang Li, Chengya Hao, Aijun Cheng

“…The study utilizes single nucleotide polymorphisms (SNPs) associated with strenuous sports obtained from published genome-wide association studies (GWAS), alongside summarized genetic data related to benign prostatic hyperplasia (BPH) from published GWAS. …”
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Revealing study and breeding implications for production traits and tail characteristics in Simmental cattle by GWAS by Jie Wang, Na Shen, Kaisen Zhao, Jiayu Liao, Genglong Jiang, Jianghai Xiao, Xianbo Jia, Wenqiang Sun, Songjia Lai

“…The study recorded phenotype data from 183 Simmental cattle and performed a Genome-Wide Association Study (GWAS) analysis to elucidate the genetic mechanisms underlying milk production, body size traits, and tail characteristics. …”
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DNA methylation biomarker analysis from low-survival-rate cancers based on genetic functional approaches by Yi-Hsuan Tsai, Prasenjit Mitra, David Taniar, Tun-Wen Pai, Tun-Wen Pai

“…This study integrated genome-wide DNA methylation profiles and comorbidity patterns to identify the common biomarkers with multi-functional analytics across the aforementioned five cancer types. …”
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CRISPR screen reveals modifiers of rAAV production including known rAAV infection genes playing an unexpected role in vector production by Emily E. O’Driscoll, Sakshi Arora, Jonathan F. Lang, Beverly L. Davidson, Ophir Shalem

“…Specifically, we performed a CRISPR-based genome-wide knockout (KO) screen in human embryonic kidney (HEK) 293 cells using an antibody specific to intact AAV2 capsids coupled with flow cytometry to identify genes that modulate rAAV production. …”
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The protoplast two-way fusions and fusant characteristics of Antrodia cinnamomea and Cordyceps militaris by Wei-Kuang Lai, Yang-Chang Wu, Tai-Sheng Yeh, Chun-Ren Hsieh, Yi-Hong Tsai, Chien-Kei Wei, Chi-Ying Li, Ying-Chen Lu, Fang-Rong Chang

“…The protoplasts of A. cinnamomea were inactivated by heat to inactivate biochemical processes and enzymatic activities in the cytoplasm, and the protoplasts of C. militaris were inactivated by UV radiation to invalidate their genome function, then they were fused under optimal conditions to get a fusion rate as (7.42 ± 0.8) × 10-6 fusants/mL; the new fusants were abbreviated as Ac-Cm. …”
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The genetic architecture of local adaptation in a cline by Laroche, Fabien, Lenormand, Thomas

“…It has been repeatedly proposed that the localization of these genes in the genome may not be random, but could be an evolved feature. …”
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Domain-adaptive neural networks improve supervised machine learning based on simulated population genetic data. by Ziyi Mo, Adam Siepel

“…Using the domain-adaptive SIA (dadaSIA) model, we estimate improved selection coefficients at selected loci in the 1000 Genomes CEU population. We anticipate that domain adaptation will prove to be widely applicable in the growing use of supervised machine learning in population genetics.…”
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Uncovering the genetic basis of antiviral polyketide limocrocin biosynthesis through heterologous expression by Sofiia Melnyk, Marc Stierhof, Dmytro Bratiichuk, Franziska Fries, Rolf Müller, Yuriy Rebets, Andriy Luzhetskyy, Bohdan Ostash

“…No other natural products have been isolated from this bacterium so far, despite the presence of a rich repertoire of specialized metabolite biosynthesis gene clusters (smBGCs) within its genome. Heterologous expression of smBGCs in suitable chassis speeds up the discovery of the natural products hidden behind these sets of genes. …”
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A gene expression atlas of Nicotiana tabacum across various tissues at transcript resolution by Shizhou Yu, Jufen Wan, Jufen Wan, Tenghang Xu, Tenghang Xu, Jie Zhang, Linggai Cao, Jie Liu, Hongfeng Liu, Xueliang Ren, Zhixiao Yang

“…In this study, we collected 599 tobacco RNA-seq datasets from 35 projects. 207,689 transcripts were identified in this study, of which 35,519 were annotated in the reference genome, while 172,170 transcripts were newly annotated. …”
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HAVCR1 Affects the MEK/ERK Pathway in Gastric Adenocarcinomas and Influences Tumor Progression and Patient Outcome by Ji Xue, Ying Li, Jianfeng Yi, Hong Jiang

“…We first determined the expression of HAVCR1 in GAC tissues compared with normal gastric tissues based on the Cancer Genome Atlas (TCGA) database using bioinformatics analysis methods. …”
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Enhanced extracellular production of alpha-lactalbumin from Bacillus subtilis through signal peptide and promoter screening by Yuqi Zhu, Pengdong Sun, Chunjian Li, Yu Zhang, Yu Wang, Jingyuan Li, Yanfeng Liu, Jian Chen, Yang Deng

“…To improve the expression and secretion of α-LA in RIK1285, a library of 173 homologous SPs from the B. subtilis 168 genome was fused with target LALBA gene in the pBE-S vector and expressed extracellularly in RIK1285. …”
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Detection and Phylogenetic Characterization of Influenza D in Swedish Cattle by Ignacio Alvarez, Fereshteh Banihashem, Annie Persson, Emma Hurri, Hyeyoung Kim, Mariette Ducatez, Erika Geijer, Jean-Francois Valarcher, Sara Hägglund, Siamak Zohari

“…Phylogenetic analysis was performed by the maximum likelihood estimation method on the whole IDV genome sequence from 16 samples. The IDV strains collected in 2021 (n = 7) belonged to the D/OK clade, whereas samples from 2023 (n = 4) and 2024 (n = 5) consisted of reassortants between the D/OK and D/660 clades, for the PB2 gene. …”
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Association Analysis of NALCN Polymorphisms rs1338041 and rs61973742 in a Chinese Population with Isolated Cervical Dystonia by Qingqing Zhou, Jing Yang, Bei Cao, Yongping Chen, Qianqian Wei, Ruwei Ou, Wei Song, Bi Zhao, Ying Wu, Huifang Shang

“…Background. A genome-wide association study (GWAS) demonstrated a possible association between cervical dystonia (CD) and a sodium leak channel, nonselective (NALCN) gene. …”
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Identification of the Key Genes and Pathways in Esophageal Carcinoma by Peng Su, Shiwang Wen, Yuefeng Zhang, Yong Li, Yanzhao Xu, Yonggang Zhu, Huilai Lv, Fan Zhang, Mingbo Wang, Ziqiang Tian

“…Gene Ontology (GO) enrichment, Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment, and protein-protein interaction (PPI) network construction were performed to obtain the biological roles of DEGs in EC. …”
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A practical guide for nephrologist peer reviewers: understanding and appraising Mendelian randomization studies by Jianbo Qing, Yafeng Li, Karim M. Soliman, Wisit Cheungpasitporn

“…Mendelian Randomization (MR) has emerged as a powerful genetic epidemiological approach, utilizing genome-wide association studies (GWAS) to establish causal relationships between modifiable risk factors and kidney disease outcomes. …”
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Enhancing the Therapeutic Potential of Peptide Antibiotics Using Bacteriophage Mimicry Strategies by Hongping Wan, Xinyi Zhong, Shinong Yang, Jiarong Deng, Xu Song, Yong Liu, Yuanfeng Li, Zhongqiong Yin, Xinghong Zhao

“…Here, nanodelivery systems have been developed by mimicking the mechanisms bacteriophages use to deliver their genomes to host bacteria. These systems utilize bacteriophage receptor‐binding proteins conjugated to loading modules, enabling efficient targeting of bacterial pathogens. …”
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