GPX8 as a Novel Prognostic Factor and Potential Therapeutic Target in Primary Glioma by Zhao-shou Yang, Qin Yang, Xiao-xiao Sun, Kui Xiong, Xiao-ting Zhu, Yi-chen Wang, Qian-yao Ren, Guo-hui Wu, Shi-min Wang, Xu-qin Cao, Xiao-rong Yang, Wen-gong Jiang

“…Here, we leveraged Chinese Glioma Genome Atlas (CGGA), The Cancer Genome Atlas (TCGA), and Genotype-Tissue Expression (GTEx) database to investigate the association between GPX8 and overall survival (OS) of patients with primary gliomas, and our results showed that GPX8 expression was negatively correlated with OS. …”
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Roles of human papillomavirus in cancers: oncogenic mechanisms and clinical use by Yu Zhang, Ke Qiu, Jianjun Ren, Yu Zhao, Ping Cheng

“…Abstract Human papillomaviruses, particularly high-risk human papillomaviruses, have been universally considered to be associated with the oncogenesis and progression of various cancers. The genome of human papillomaviruses is circular, double-stranded DNA that encodes early and late proteins. …”
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Functional and Practical Insights Into the Genetic Basis of Takayasu Arteritis by Desiré Casares‐Marfil, Amr H. Sawalha

“…Large‐scale genetic studies have significantly contributed to the identification of genetic variation associated with immune‐mediated diseases. To date, five genome‐wide association studies (GWAS) have been performed in TAK, identifying multiple genetic susceptibility loci across the genome. …”
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The chemistry of gut microbiome in health and diseases by Agnes Wei Yin Lau, Loh Teng-Hern Tan, Nurul-Syakima Ab Mutalib, Sunny Hei Wong, Vengadesh Letchumanan, Learn-Han Lee

“… There are trillions of microbes residing in our body, with their collective genomes much more than human genomes. They have been living in a close relationship with us and play a role in various biological functions. …”
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Evidence of High-Risk Human Papillomavirus in Esophageal Cancer in East Azerbaijan Province, Northwest of Iran by Zahra Sadeghian, Hossein Bannazadeh Baghi, Vahdat Poortahmasebi, Javid Sadeghi, Alka Hasani, Arezoo Azadi, Mahin Ahangar Oskouee

“…In contrast, all cases of the control group were negative for the HPV genome. Sequence analysis revealed that HPV types 16 and 18 are the most frequent ones identified in this study. …”
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Removing limitations surrounding terpenoid biosynthesis by biotechnological techniques in Ferula sp.: A review by Zahra Aghaali, Jun-Li Yang, Mohammad Reza Naghavi, Meisam Zargar

“…Recently, via functional genomics, omics technologies, and high-throughput analytical techniques, our understanding about terpenoid biosynthesis and regulation has been deepened, paving the way for the overproduction of target terpenoids. …”
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Ontology-based expansion of virtual gene panels to improve diagnostic efficiency for rare genetic diseases by Jaemoon Shin, Toyofumi Fujiwara, Hirotomo Saitsu, Atsuko Yamaguchi

“…Abstract Background Virtual Gene Panels (VGP) comprising disease-associated causal genes are utilized in the diagnosis of rare genetic diseases to evaluate candidate genes identified by whole-genome and whole-exome sequencing. VGPs generated by the PanelApp software were utilized in a UK 100,000 Genome Project pilot study to filter candidate genes, thus enhancing diagnostic efficiency for rare diseases. …”
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Ten Candidate Genes Were Identified to Be Associated with the Great Growth Differentiation in the Three-Way Cross Hybrid Abalone by Qizhen Xiao, Shihai Gong, Zekun Huang, Wenzhu Peng, Zhaofang Han, Yang Gan, Yawei Shen, Weiwei You, Caihuan Ke, Xuan Luo

“…In this study, a total of 89 SNPs and 97 candidate genes were identified to be associated with growth-related traits of abalone using whole-genome resequencing and a genome-wide association study (GWAS) analysis. …”
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Study of the effect of the introduction of mitochondrial import determinants into the gRNA structure on the activity of the gRNA/SpCas9 complex in vitro by E. G. Zakirova, Y. V. Vyatkin, N. A. Verechshagina, V. V. Muzyka, I. O. Mazunin, K. E. Orishchenko

“…It has long been known that defects in the structure of the mitochondrial genome can cause various neuromuscular and neurodegenerative diseases. …”
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A robust transfer learning approach for high-dimensional linear regression to support integration of multi-source gene expression data. by Lulu Pan, Qian Gao, Kecheng Wei, Yongfu Yu, Guoyou Qin, Tong Wang

“…This can be effectively applied in genomics when we learn the gene associations in a target tissue, and data from other tissues can be integrated. …”
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LongReadSum: A fast and flexible quality control and signal summarization tool for long-read sequencing data by Jonathan Elliot Perdomo, Mian Umair Ahsan, Qian Liu, Li Fang, Kai Wang

“…We also demonstrate a few examples using LongReadSum to analyze cDNA sequencing, direct RNA sequencing, ONT reduced representation methylation sequencing (RRMS), and whole genome sequencing (WGS) data.…”
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KMT2C/KMT2D-dependent H3K4me1 mediates changes in DNA replication timing and origin activity during a cell fate transition by Deniz Gökbuget, Liana Goehring, Ryan M. Boileau, Kayla Lenshoek, Tony T. Huang, Robert Blelloch

“…Summary: Mammalian genomes replicate in a cell-type-specific order during the S phase, correlated to transcriptional activity, histone modifications, and chromatin structure. …”
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Retrotransposon-Based Genetic Diversity of <i>Rhodiola rosea</i> L. (Crassulaceae) from Kazakhstan Altai by Oxana Khapilina, Ainur Turzhanova, Moldir Zhumagul, Damelya Tagimanova, Olesya Raiser, Serik Kubentayev, Vladislav Shevtsov, Maria Hohn

“…Mobile genetic elements and other interspersed repeats, which are major components of eukaryotic genomes, serve as effective tools for studying plant biodiversity and variability. …”
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Natural selection and adaptive traits in the Maniq, a nomadic hunter-gatherer society from Mainland Southeast Asia by Tobias Herzog, Maximilian Larena, Wibhu Kutanan, Helmut Lukas, Martin Fieder, Helmut Schaschl

“…Using genome-wide approaches, including iHS, xp-EHH, PBE, and beta statistics, we identified signatures of positive and balancing selection. …”
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Animal Brucellosis in Egypt: Review on Evolution, Epidemiological Situation, Prevalent <i>Brucella</i> Strains, Genetic Diversity, and Assessment of Implemented National Control Me... by Ahmed M. S. Menshawy, Acacia Ferreira Vicente, Yamen M. Hegazy, Vitomir Djokic, Mahmoud E. R. Hamdy, Luca Freddi, Essam M. Elbauomy, Ashraf E. Sayour, Claire Ponsart, Nour H. Abdel-Hamid

“…This review delves deeply into brucellosis’s current epidemiological situation and potential sources of livestock infection in Egypt during the last two decades. MLVA-16 and Whole Genome Sequencing based on core-genome SNP analyses confirm the presence of different <i>B. abortus</i> and <i>B. melitensis</i> outbreak strains, both older widely disseminated <i>Brucella</i> strains and newly introduced ones. …”
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Unleashing the Power of Artificial Intelligence-Driven Drug Discovery in Streptomyces by Wei-Shan Ang, Jodi Woan-Fei Law, Yatinesh Kumari, Vengadesh Letchumanan, Loh Teng-Hern Tan

“…., paved the way for discovering other antibiotics for combating bacterial infections. By exploring the genome-based biosynthetic potential of various Streptomyces species, a vast array of secondary metabolites with potential therapeutic applications can be identified, contributing a transformative impact on the field of medicine. …”
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The role of chromatin state in intron retention: A case study in leveraging large scale deep learning models. by Ahmed Daoud, Asa Ben-Hur

“…By providing pre-trained models that can be fine-tuned for specific applications, they enable researchers to create accurate models with minimal effort and computational resources. Large scale genomics deep learning models come in two flavors: the first are large language models of DNA sequences trained in a self-supervised fashion, similar to the corresponding natural language models; the second are supervised learning models that leverage large scale genomics datasets from ENCODE and other sources. …”
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The Role of PDGFs and PDGFRs in Colorectal Cancer by Roberta M. Manzat Saplacan, Loredana Balacescu, Claudia Gherman, Romeo I. Chira, Anca Craiu, Petru A. Mircea, Cosmin Lisencu, Ovidiu Balacescu

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Watermelon Germplasm with Resistance to Whitefly-transmitted Viruses by Alex Luckew, Nebahat Sari, Swikriti Pandey, Ted McAvoy, Alvin M. Simmons, Geoffrey Meru, Cecilia McGregor

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Pulmonary Bacterial Communities in Surgically Resected Noncystic Fibrosis Bronchiectasis Lungs Are Similar to Those in Cystic Fibrosis by Heather Maughan, Kristopher S. Cunningham, Pauline W. Wang, Yu Zhang, Marcelo Cypel, Cecilia Chaparro, D. Elizabeth Tullis, Thomas K. Waddell, Shaf Keshavjee, Mingyao Liu, David S. Guttman, David M. Hwang

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