Transcriptome Profiling Reveals Genetic Basis of Muscle Development and Meat Quality Traits in Chinese Congjiang Xiang and Landrace Pigs by Jiada Yang, Qiaowen Tang, Chunying Sun, Qiuyue Li, Xiaoyu Li, Lu Hou, Yi Yang, Kang Yang

“…(1) Objectives: Understanding the genetic basis of muscle development and meat quality traits in divergent pig breeds is crucial for advancing precision breeding strategies. (2) Methods: This study investigated transcriptome differences in the <i>longissimus dorsi</i> muscle between Chinese Congjiang Xiang (CX) and Landrace (LAN) pigs. …”
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Deciphering the Molecular Adapting Mechanism of Lactic Acid-Tolerant <i>Saccharomyces cerevisiae</i> Through Genomic and Transcriptomic Analysis by Haowei Fan, Yin Wan, Wenqin Cai, Feng Li, Jiahui Fan, Juan Du, Mingjing Yi, Jiayi Yuan, Guiming Fu

“…During the solid-state brewing process of traditional Chinese Baijiu, lactic acid is the most abundant organic acid, which inhibits the growth and metabolism of <i>Saccharomyces cerevisiae</i>. …”
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Assessment of Biodegradation Mechanisms of Ceftiofur Sodium by <i>Escherichia</i> sp. CS-1 and Insights from Transcriptomic Analysis by Meng-Yang Yan, Cai-Hong Zhao, Jie Wu, Adil Mohammad, Yi-Tao Li, Liang-Bo Liu, Yi-Bo Cao, Xing-Mei Deng, Jia Guo, Hui Zhang, Hong-Su He, Zhi-Hua Sun

“…Transcriptome sequencing revealed that 758 genes essential for degradation were upregulated in response to the hydrolysis and redox processes associated with CFS. …”
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Hepatic transcriptome profiling unveils candidate genes in cattle with liver abscesses under the influence of beef genetics in dairy cattle. by Luana D Felizari, Sydney M Bowman, Chiquito J Crasto, Jhones O Sarturi, Dale R Woerner, Bradley J Johnson

“…A total of 568 DEGs were identified, with 372 up-regulated and 196 down-regulated in abscessed livers. Notably, the most highly up-regulated genes were FGF23, NXPH4, and CYP7A1, while EPHA6, CD70, and INHBA showed the most significant downregulation. …”
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Patient-based transcriptome-wide analysis identify interferon and ubiquination pathways as potential predictors of influenza A disease severity. by Long Truong Hoang, Thomas Tolfvenstam, Eng Eong Ooi, Chiea Chuen Khor, Ahmand Nazri Mohamed Naim, Eliza Xin Pei Ho, Swee Hoe Ong, Heiman F Wertheim, Annette Fox, Chau Van Vinh Nguyen, Ngoc My Nghiem, Tuan Manh Ha, Anh Thi Ngoc Tran, Paul Tambayah, Raymond Lin, Chariya Sangsajja, Weerawat Manosuthi, Chareon Chuchottaworn, Piamlarp Sansayunh, Tawee Chotpitayasunondh, Piyarat Suntarattiwong, Kulkanya Chokephaibulkit, Pilaipan Puthavathana, Menno D de Jong, Jeremy Farrar, H Rogier van Doorn, Martin Lloyd Hibberd

“…We found that influenza-infected patients, regardless of their clinical outcomes, had a stronger induction of antiviral and cytokine responses and a stronger attenuation of NK and T cell responses in comparison with those with unknown etiology. …”
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Integrated Analysis of Transcriptomics and Proteomics Provides Insights into the Accumulation Mechanism of Ascorbic Acid in <i>Rosa roxburghii</i> Tratt by Pei Li, Bo Mu, Jing Liu, Wenqing Wu, Can He, Boxi Tan, Shijing Tang, Lu Yu

“…Furthermore, we conducted an integrated analysis of transcriptomic and proteomic data for the first time to investigate the mechanisms responsible for AsA accumulation in RRT. …”
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Biomarkers and potential therapeutic targets driving progression of non-alcoholic steatohepatitis to hepatocellular carcinoma predicted through transcriptomic analysis by Hui Fan, Rong Wang, Bin Wen, Jing Xiong

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A stratified transcriptomics analysis of polygenic fat and lean mouse adipose tissues identifies novel candidate obesity genes. by Nicholas M Morton, Yvonne B Nelson, Zoi Michailidou, Emma M Di Rollo, Lynne Ramage, Patrick W F Hadoke, Jonathan R Seckl, Lutz Bunger, Simon Horvat, Christopher J Kenyon, Donald R Dunbar

“…Quantitative microarray analysis was then applied to the most phenotypically divergent adipose depot after exaggerating F and L strain differences with chronic high fat feeding which revealed a distinct gene expression profile of line, fat depot and diet-responsive inflammatory, angiogenic and metabolic pathways. …”
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Genome-wide association study and transcriptome analysis reveal candidate genes related to drought stress in the germination stage of soybean by Keke Kong, Mengge Xu, Lanhua Wu, Huiwen Zhou, Ruikai Wang, Tuanjie Zhao, Chune Wang, Yingpei Song

“…In addition, by combining RTM-GWAS and transcriptome analysis, 22 candidate genes underlying large-contribution QTLs were identified. …”
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Integrated physiological and transcriptomic analysis uncovers the mechanism of moderate nitrogen application on promoting the growth and (-)-borneol accumulation of Blumea balsamif... by Yuan Yuan, Wei-Jie Tang, Wei-Jie Tang, Jia-Yuan Cao, Ke Zhong, Ke Zhong, Ze-Jun Mo, Ying Zhou, Yu-Xin Pang, Yu-Xin Pang

“…Additionally, transcriptome sequencing of leaves of B. balsamifera was conducted to elucidate the underlying molecular mechanisms involved.Results and discussionThe results indicated that both the N1 and N2 treatments significantly promoted the growth of B. balsamifera, with the 150 kg N ha-1 treatment (N1) resulting in the most favorable effects. …”
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Transcriptome‑wide excavation and expression pattern analysis of the NAC transcription factors in methyl jasmonate- and sodium chloride-induced Glycyrrhiza uralensis by Yuan Li, Yue Shi, Zidong Zhu, Xiao Chen, Kuangwei Cao, Jiatong Li, Chunsheng Liu, Da Li

“…Abstract The NAC family is among the most extensive sets of plant-exclusive transcription factors (TFs), which are crucial for various plant development and stress response processes. …”
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Analysis of the whole transcriptome from gingivo-buccal squamous cell carcinoma reveals deregulated immune landscape and suggests targets for immunotherapy. by Richa Singh, Navonil De Sarkar, Sumanta Sarkar, Roshni Roy, Esita Chattopadhyay, Anindita Ray, Nidhan K Biswas, Arindam Maitra, Bidyut Roy

“…<h4>Background</h4>Gingivo-buccal squamous cell carcinoma (GBSCC) is one of the most common oral cavity cancers in India with less than 50% patients surviving past 5 years. …”
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Cellular transcriptomics of arrested normal lung fibroblasts IMR-90 infected with Human Adenovirus 5 E1A mutants. by Rafe Helwer, Peter Pelka

“…Induction of S-phase is paramount to the replication of most human DNA viruses. Human adenoviruses have evolved sophisticated mechanisms that drive the infected cells into S-phase to ensure that viral genomes are efficiently replicated. …”
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Temporal profiling of host transcriptome highlights time- and tissue-dependent Interferon pathway activation in NNV-infected European sea bass by Luca Peruzza, Giulia Dalla Rovere, Serena Ferraresso, Rafaella Franch, Daniela Bertotto, Francesco Pascoli, Gaia Bacchin, Anna Toffan, Luca Bargelloni

“…Results revealed substantial changes in gene expression over time, particularly for brain, with downregulation of genes involved in nervous system functions and upregulation of immune and inflammatory response genes from 24 to 48 hpi onwards, mostly associated with the interferon (IFN) response. …”
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Copper Pyrithione Induces Hepatopancreatic Apoptosis and Metabolic Disruption in <i>Litopenaeus vannamei</i>: Integrated Transcriptomic, Metabolomic, and Histopathological Analysis by Jieyu Guo, Yang Yang, Siying Yu, Cairui Jiang, Xianbin Su, Yongfeng Zou, Hui Guo

“…<i>Litopenaeus vannamei</i>, one of the world’s most important aquaculture shrimp species, relies heavily on its hepatopancreas for energy metabolism, detoxification, and immune responses. …”
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Integrated m6A RNA methylation and transcriptomic analysis of Apostichopus japonicus under combined high-temperature and hypoxia stress by Qiang Wang, Shuqing Zhang, Xiaohua He, Siyi Li, Xiaohui Xu, Yanwei Feng, Jianmin Yang, Guohua Sun

“…Results This study integrates m6A methylation sequencing (MeRIP-seq) and transcriptomic analysis (RNA-seq) to investigate molecular responses in A. japonicus under combined high-temperature (32 °C) and hypoxia (DO = 2 mg/L). …”
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Pan-Genome Identification and Expression Analysis of Lipoxygenase Genes in Cucumber by Haiyu Xu, Kun Liu, Lili Zhao, Chunhua Chen, Lina Wang, Zhonghai Ren

“…Lipoxygenase (LOX) is a dioxygenase that contains non-heme iron and plays a crucial role in regulating plant growth and development, signal transduction, and responses to both biotic and abiotic stresses. In this study, we identified 24 <i>CsLOXs</i> from the pan-genome of 12 cucumber (<i>Cucumis sativus</i> L.) accessions, with most CsLOX proteins exhibiting amino acid variations. …”
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Identification of SNPs and Candidate Genes Associated with Growth Using GWAS and Transcriptome Analysis in Portuguese Oyster (<i>Magallana angulata</i>) by Jingyi Xie, Yue Ning, Yi Han, Caiyuan Su, Xiaoyan Zhou, Qisheng Wu, Xiang Guo, Jianfei Qi, Hui Ge, Yizou Ke, Mingyi Cai

“…By combining GWAS and comparative transcriptome analysis, a total of seven candidate genes were identified, with biological functions related to growth inhibition, stress response, cell cycle regulation, and immune defense. …”
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Identifying behavior regulatory leverage over mental disorders transcriptomic network hubs toward lifestyle-dependent psychiatric drugs repurposing by Mennatullah Abdelzaher Turky, Ibrahim Youssef, Azza El Amir

“…This observation paves the way for additional investigations into the potential of CENPJ as a novel target for MDD therapeutic agents development. Additionally, most of the predicted PTSD hubs were associated with multiple carcinomas, of which the most notable was SHCBP1. …”
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Anatomical transcriptome of G protein-coupled receptors leads to the identification of a novel therapeutic candidate GPR52 for psychiatric disorders. by Hidetoshi Komatsu, Minoru Maruyama, Shuuhei Yao, Tokuyuki Shinohara, Kensuke Sakuma, Sachiko Imaichi, Tomoko Chikatsu, Kanako Kuniyeda, Foo Kok Siu, Lam Sock Peng, Katherine Zhuo, Lay Sock Mun, Tan Min Han, Yoshio Matsumoto, Tadatoshi Hashimoto, Nobuyuki Miyajima, Yasuaki Itoh, Kazuhiro Ogi, Yugo Habata, Masaaki Mori

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