Insufficient gene expression and lost gene regulatory network may underlie the mechanism of Hirschsprung Disease in 5p–syndrome by Yizhao Luan, Peng Li, Yuanyuan Luo, Hong Zhang, Xiaochun Zhu, Yan Zhang, Aihua Yin, Qiang Wu, Chengwei Chai

“…Here, we conducted a study on two patients with CDC and HSCR using whole genome sequencing (WGS) analyses. Our WGS data confirmed the deletion regions on 5p associated with CDC and indicated potential unknown genetic mechanisms underlying HSCR. …”
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Survival outcome prediction of esophageal squamous cell carcinoma patients based on radiomics and mutation signature by Ting Yan, Zhenpeng Yan, Guohui Chen, Songrui Xu, Chenxuan Wu, Qichao Zhou, Guolan Wang, Ying Li, Mengjiu Jia, Xiaofei Zhuang, Jie Yang, Lili Liu, Lu Wang, Qinglu Wu, Bin Wang, Tianyi Yan

“…The mutation signature was constructed based on whole genome sequencing data and found to be significantly associated with the prognosis of patients with ESCC. …”
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Renewed Avenues through Exercise Muscle Contractility and Inflammatory Status by Nelo Eidy Zanchi, Felipe Natali Almeida, Fábio Santos Lira, José César Rosa Neto, Humberto Nicastro, Claudia Ribeiro da Luz, Mário Alves de Siqueira Filho, Vitor Felitti, Mariz Vainzof, Marilia Seelaender, Jacques R. Poortmans, Antonio Herbert Lancha

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Risk of residual/recurrent cervical diseases in HPV-positive women post-conization depends on HPV integration status by Wenyu Lin, Yuxuan Huang, Yan Zhang, Lixiang Huang, Hongning Cai, Guanxiang Huang, Ye Li, Qiaoyu Zhang, Huifeng Xue, Binhua Dong, Pengming Sun

“…HPV integration test was performed using the high-throughput viral integration detection (HIVID), a sensitive method for genome-wide survey of HPV integration breakpoints. …”
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RETRACTED: The Mechanism of Pertussis Cough Revealed by the Mouse-Coughing Model by Yukihiro Hiramatsu, Koichiro Suzuki, Takashi Nishida, Naoki Onoda, Takashi Satoh, Shizuo Akira, Masahito Ikawa, Hiroko Ikeda, Junzo Kamei, Sandra Derouiche, Makoto Tominaga, Yasuhiko Horiguchi

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First note of QTL mapping of low vigor traits using the updated F2 ‘Koroneiki’ linkage map of olive by Irene Granata, Aparna S. Balan, Aparna S. Balan, Claudio Di Vaio, Antonino Ioppolo, Tiziano Caruso, Silvia Fretto, Jubina Benny, Antonio Giovino, Daniel James Sargent, Francesco Paolo Marra, Annalisa Marchese

“…By integrating reference genomes with our genetic analysis, we offer a conceptual advancement that could substantially accelerate breeding timelines compared to traditional approaches. …”
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Association between chronic obstructive pulmonary disease and osteoporosis: Mendelian randomization combined with bibliometric analysis by Fangjun Yang, Huaming Wang, Miaomiao Liu, Shengtai Pei, Xiaoming Qiu

“…These BMD measurements were derived primarily from a genome-wide association study (GWAS) and summary statistics from the International Genetic Factors Consortium for Osteoporosis (GEFOS). …”
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Manipulation of seed coat content for increasing oil content via modulating BnaMYB52 in Brassica napus by Jiang Ye, Xiaowei Wu, Xiang Li, Yuting Zhang, Yuqing Li, Hui Zhang, Jie Chen, Yuyan Xiang, Yefan Xia, Hu Zhao, Zengdong Tan, Liang Guo, Xuan Yao

“…However, the genetic and molecular mechanisms of how seed coat development affects seed oil content (SOC) remains less studied. Through genome-wide association studies in Brassica napus accessions, we identify BnaA09.MYB52 transcription factor as a candidate gene underlying ZS11_qSCC.A09. …”
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Identification of potential druggable targets for endometriosis through Mendelian randomization analysis by Peng Chen, Xin Wei, Xiao-Ke Li, Yi-Hang Zhou, Yi-Hang Zhou, Qi-Fang Liu, Ling Ou-Yang

“…This study aimed to identify both cerebrospinal fluid (CSF) and plasma protein markers as promising therapeutic targets for EM.MethodsWe utilized Mendelian randomization (MR) analysis to explore potential disease-causing proteins, utilizing genetic datasets from genome-wide association studies (GWAS) and protein quantitative trait loci (pQTL) analyses. …”
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Characterization, Quantification, and Molecular Identification of Co-Infection of Canine Parvovirus (CPV-2) Variants in Dogs Affected by Gastroenteritis in Ecuador During 2022–2023... by Anthony Loor-Giler, Silvana Santander-Parra, Sara Castillo-Reyes, Martin Campos, Renán Mena-Pérez, Santiago Prado-Chiriboga, Luis Nuñez

“…There are three different types of the original CPV-2 that have been found so far, which are CPV-2a, 2b, and 2c. The genome of CPV-2 is about 5.2 kb long and has two open reading frames (ORFs), namely the VP region and the NS region. …”
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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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Computer analysis of regulation of hepatocarcinoma marker genes hypermethylated by HCV proteins by E. A. Antropova, T. M. Khlebodarova, P. S. Demenkov, A. S. Venzel, N. V. Ivanisenko, A.  D.  Gavrilenko, T.  V. Ivanisenko, A. V. Adamovskaya, P. M. Revva, I. N. Lavrik, V. A. Ivanisenko

“…The ANDSystem software package was used to reconstruct and evaluate the statistical significance of the pathways HCV could potentially use to regulate 32 hypermethylated genes in HCC, including both oncosuppressor and protumorigenic ones identified by genome-wide analysis of DNA methylation. The reconstructed pathways included those affecting protein-protein interactions (PPI), gene expression, protein activity, stability, and transport regulations, the expression regulation pathways being statistically significant. …”
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Cuproptosis-Related Signature Predicts the Prognosis, Tumor Microenvironment, and Drug Sensitivity of Hepatocellular Carcinoma by Xiangjun Qi, Jiayun Guo, Guoming Chen, Caishan Fang, Leihao Hu, Jing Li, Chi Zhang

“…The mRNA transcriptome profiling data, somatic mutation data, and copy number gene level data of The Cancer Genome Atlas-Liver Hepatocellular Carcinoma project (TCGA-LIHC) were downloaded for subsequent analysis. …”
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Chickens productivity selection affects immune system genes by А. М. Borodin, Ya. I. Alekseev, K. E. Gerasimov, N. V. Konovalova, E. V. Тerentjeva, D. N. Efimov, Zh. V. Emanuilova, L. I. Tuchemskiy, A. A. Komarov, V. I. Fisinin

“…In the process of selecting markers for genomic selection in broiler-type chickens, a non-standard genotype frequency of the RACK1 gene allele (SNP Gga_rs15788101) in the B5 line of broiler-type chicken cross Smena 8 was identified and it was suggested that this gene was involved in selection. …”
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Evaluation of Fracture Toughness, Color Stability, and Sorption Solubility of a Fabricated Novel Glass Ionomer Nano Zirconia-Silica-Hydroxyapatite Hybrid Composite Material by Sami D. Aldhuwayhi, Arbaz Sajjad, Wan Zaripah W. Bakar, Dasmawati Mohamad, Thirumulu P. Kannan, Imran A. Moheet

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Causal associations of ambient particulate matter 10 and Alzheimer’s disease: result from a two-sample multivariable Mendelian randomization study by Zehan Huang, Guodong He, Shuo Sun, Yingqing Feng, Yuqing Huang

“…Material and methods Genome-wide association studies (GWAS) for PM10 from UK Biobank, AD from EBI GWAS and IEU OpenGWAS were used for discovery and replication, respectively. …”
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Plastome data provides new insights into population differentiation and evolution of Ginkgo in the Sichuan Basin of China by Liyun Nie, Fangling Liu, Meixia Wang, Zhuying Jiang, Jiali Kong, Luke R. Tembrock, Shenglong Kan, Penghao Wang, Jie Wang, Zhiqiang Wu, Xiaoli Liu

“…This study provides crucial genomic resources for understanding Ginkgo’s evolution and informs conservation strategies for this endangered species.…”
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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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Single-Cell RNA Sequencing Reveals LEF1-Driven Wnt Pathway Activation as a Shared Oncogenic Program in Hepatoblastoma and Medulloblastoma by Christophe Desterke, Yuanji Fu, Jenny Bonifacio-Mundaca, Claudia Monge, Pascal Pineau, Jorge Mata-Garrido, Raquel Francés

“…The analysis of LEF1 genome binding occupancy in H1 embryonic stem cells identified 141 LEF1 proximal targets activated in WNT medulloblastoma, 13 of which are involved in Wnt pathway regulation: <i>RNF43</i>, <i>LEF1</i>, <i>NKD1</i>, <i>AXIN2</i>, <i>DKK4</i>, <i>DKK1</i>, <i>LGR6</i>, <i>FGFR2</i>, <i>NXN</i>, <i>TCF7L1</i>, <i>STK3</i>, <i>YAP1</i>, and <i>NFATC4</i>. …”
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Analysis of CYP701A1 genes in gossypium species and functional characterization through gene silencing by Zhao Liang, Di Jiachun, Guo Qi, Xu Zhenzhen, Zhao Jun, Xu Peng, Xu Jianwen, Liu Jianguang, Shen Xinlian, Chen Xusheng

“…In this study, we analyzed genomic data from 30 Gossypium species, including nine allotetraploid genomes (AD1-AD7, with two each for AD1 and AD2), 21 diploid genomes (A-G, K, with two A-genomes and 12 D-genomes), and Gossypioides kirkii genome as an outgroup for evolutionary analysis, totaling 31 genomes. …”
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