Functional Analysis of Promoters, mRNA Cleavage, and mRNA Secondary Structure on <i>esxB-esxA</i> in <i>Mycolicibacterium smegmatis</i> by Ryan G. Peters, Jessica M. Kelly, Sarah Bibeau, Ying Zhou, Scarlet S. Shell

“…Consistent with this, there was no detectable correlation between mRNA half-life and secondary structure near the 5′ ends of 5′ UTRs on a transcriptome-wide basis. Collectively, these data shed light on the determinants of <i>esxB-esxA</i> expression in <i>M. smegmatis</i> as well as provide broader insight into the determinants of mRNA cleavage in mycobacteria and the relationship between 5′ UTR secondary structure and mRNA stability.…”
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Epigenome-wide methylation analysis shows phosphonoethylamine alleviates aberrant DNA methylation in NASH caused by Pcyt2 deficiency. by Sophie Grapentine, Prasoon Agarwal, Vernon W Dolinsky, Marica Bakovic

“…<h4>Conclusion</h4>The Pcyt2 + /- liver methylome and transcriptome is altered and likely underlies much of the pathology in Pcyt2 + /- NASH phenotype. …”
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Comprehensive Identification of Auxin Response Factor Gene Family and Their Expression Profiles Under Lanthanum Stress in <i>Amorphophallus konjac</i> by Xiaoxian Li, Herui Huang, Jinjun Shen, Jingyi Long, Hui Wang, Zhenming Yu

“…These results suggested the potential regulatory roles of <i>AkARF6/13</i> in auxin-mediated corm development. This study provides the potential functional role of ARF-mediated growth and development of corms in <i>A. konjac</i>.…”
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Multiple changes in peptide and lipid expression associated with regeneration in the nervous system of the medicinal leech. by Céline Meriaux, Karim Arafah, Aurélie Tasiemski, Maxence Wisztorski, Jocelyne Bruand, Céline Boidin-Wichlacz, Annie Desmons, Delphine Debois, Olivier Laprévote, Alain Brunelle, Terry Gaasterland, Eduardo Macagno, Isabelle Fournier, Michel Salzet

“…<h4>Conclusion</h4>The experiments on the regenerating adult leech CNS reported here provide direct evidence of increased titers of proteins that are thought to play important roles in early stages of neural development. …”
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The FunGenES database: a genomics resource for mouse embryonic stem cell differentiation. by Herbert Schulz, Raivo Kolde, Priit Adler, Irène Aksoy, Konstantinos Anastassiadis, Michael Bader, Nathalie Billon, Hélène Boeuf, Pierre-Yves Bourillot, Frank Buchholz, Christian Dani, Michael Xavier Doss, Lesley Forrester, Murielle Gitton, Domingos Henrique, Jürgen Hescheler, Heinz Himmelbauer, Norbert Hübner, Efthimia Karantzali, Androniki Kretsovali, Sandra Lubitz, Laurent Pradier, Meena Rai, Jüri Reimand, Alexandra Rolletschek, Agapios Sachinidis, Pierre Savatier, Francis Stewart, Mike P Storm, Marina Trouillas, Jaak Vilo, Melanie J Welham, Johannes Winkler, Anna M Wobus, Antonis K Hatzopoulos, Functional Genomics in Embryonic Stem Cells Consortium

“…The FunGenES database provides a comprehensive resource for studies into the biology of ES cells.…”
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Transposable Element Landscape in the Monotypic Species <i>Barthea barthei</i> (Hance) Krass (Melastomataceae) and Its Role in Ecological Adaptation by Wei Wu, Yuan Zeng, Zecheng Huang, Huiting Peng, Zhanghai Sun, Bin Xu

“…Transposable elements (TEs) are crucial for genome evolution and ecological adaptation, but their dynamics in non-model plants are poorly understood. Using genomic, transcriptomic, and population genomic approaches, we analyzed the TE landscape of <i>Barthea barthei</i> (Melastomataceae), a species distributed across tropical and subtropical southern China. …”
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Hepatitis B virus modulates store-operated calcium entry to enhance viral replication in primary hepatocytes. by Jessica C Casciano, Nicholas J Duchemin, R Jason Lamontagne, Laura F Steel, Michael J Bouchard

“…The results of our study may provide insights into viral mechanisms that affect Ca2+ signaling to regulate viral replication and virus-associated diseases.…”
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Fusobacterium nucleatum as an oral bacteria promotes the carcinogenesis of laryngeal cancer via upregulating YWHAZ by Yiyue Ren, Jing Ye, Liuhong Shi, Kehao Le, Yifan Wang

“…While specific 14-3-3 proteins act as LC oncogenes, the link between F. nucleatum and 14-3-3 proteins dysregulation remains unknown.Materials and methods Transcriptome data from 520 HNSC patients were obtained from TCGA. …”
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Effect of Chitooligosaccharides on TLR2/NF-κB Signaling in LPS-Stimulated RAW 264.7 Macrophages by Mengting Zhao, Shurong Pang, Yiqing Gao, Ting Li, Hongrui Jiang

“…In summary, this study provides a valuable insight into the potential anti-inflammatory mechanism of COSs and highlights the possible applications in human health promotion by modulating receptor-mediated signaling pathways.…”
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Reference genes selection and validation in yam by real-time quantitative polymerase chain reaction by Linan Xing, Yanfang Zhang, Yanping Xing, Mingran Ge, Huiqin Miao, Xiuwen Huo

“…Conversely, UBQ and PP2A were identified as the most stable and ideal reference genes for expression analysis across different conditions. Our findings provide a theoretical foundation for selecting reference genes in yam and will support more accurate gene expression studies within the genus Dioscorea.…”
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Genome-wide identification of SIMILAR to RCD ONE (SRO) gene family in rapeseed (Brassica napus L.) reveals their role in drought stress response by Huanhuan Jiang, Yuling Zhang, Jia Li, Rongzi Tang, Fenghao Liang, Rong Tang, Yuyu Zhou, Chao Zhang

“…BnaSRO1 and BnaSRO11, which are likely to function through interactions with NAC transcription factors, were screened as major drought-regulated members. Our results provide a solid foundation for functional analysis of the role of the SRO gene family in abiotic stress responses, especially drought stress responses, in rapeseed.…”
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Patient-derived iPSCs link elevated mitochondrial respiratory complex I function to osteosarcoma in Rothmund-Thomson syndrome. by Brittany E Jewell, An Xu, Dandan Zhu, Mo-Fan Huang, Linchao Lu, Mo Liu, Erica L Underwood, Jun Hyoung Park, Huihui Fan, Julian A Gingold, Ruoji Zhou, Jian Tu, Zijun Huo, Ying Liu, Weidong Jin, Yi-Hung Chen, Yitian Xu, Shu-Hsia Chen, Nino Rainusso, Nathaniel K Berg, Danielle A Bazer, Christopher Vellano, Philip Jones, Holger K Eltzschig, Zhongming Zhao, Benny Abraham Kaipparettu, Ruiying Zhao, Lisa L Wang, Dung-Fang Lee

“…In summary, our study suggests that mitochondrial respiratory complex I is a potential therapeutic target for RTS-associated osteosarcoma and provides future insights for clinical treatment strategies.…”
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Exon level machine learning analyses elucidate novel candidate miRNA targets in an avian model of fetal alcohol spectrum disorder. by Abrar E Al-Shaer, George R Flentke, Mark E Berres, Ana Garic, Susan M Smith

“…Gestational alcohol exposure causes fetal alcohol spectrum disorder (FASD) and is a prominent cause of neurodevelopmental disability. Whole transcriptome sequencing (RNA-Seq) offer insights into mechanisms underlying FASD, but gene-level analysis provides limited information regarding complex transcriptional processes such as alternative splicing and non-coding RNAs. …”
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Cytological and transcript analyses reveal fat and lazy persister-like bacilli in tuberculous sputum. by Natalie J Garton, Simon J Waddell, Anna L Sherratt, Su-Min Lee, Rebecca J Smith, Claire Senner, Jason Hinds, Kumar Rajakumar, Richard A Adegbola, Gurdyal S Besra, Philip D Butcher, Michael R Barer

“…<h4>Background</h4>Tuberculous sputum provides a sample of bacilli that must be eliminated by chemotherapy and that may go on to transmit infection. …”
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Drought-Induced Zinc Finger Transcription Factor OsDi19-3 Positively Regulates Drought Stress Acclimatization in Rice (<i>Oryza sativa</i> L.) by Yanjie Li, Tianjiao Mu, Tianying Ren, Pan Li

“…Furthermore, a ChIP-PCR analysis confirmed that OsDi19-3 directly binds to three target genes. This study provides insights into the role of OsDi19-3 in drought acclimatization and its regulatory network in rice.…”
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Transcriptional profile of Glaesserella parasuis in swine serosal and joint fluids by Daniel W. Nielsen, Kaitlyn M. Sarlo Davila, Susan L. Brockmeier, Samantha J. Hau

“…However, it is still unknown how the transcriptome of G. parasuis may change to cause polyserositis or polyarthritis. …”
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Subcellular localization and expression analysis of MlSOC1 genes during flower bud differentiation period in Magnolia liliflora by XUAN Lingjuan, CHENG Shaoyu, DAI Mengyi, WANG Zhuowei, SHEN Yamei

“…In order to clarify the mechanism of SOC1 in the process of flower formation in Magnolia liliflora, two SOC1 genes were screened out based on the transcriptome data in M. sinostellata, and the complete coding regions of these two SOC1 genes were obtained by homologous gene cloning. …”
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A New Exon Derived from a Mammalian Apparent LTR Retrotransposon of the SUPT16H Gene by Min-In Bae, Yun-Ji Kim, Ja-Rang Lee, Yi-Deun Jung, Heui-Soo Kim

“…From this study, we verified transposable elements that contributed to transcriptome diversity.…”
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Multi-Omics Pan-Cancer Profiling of <i>HSD17B10</i> Unveils Its Prognostic Potential, Metabolic Regulation, and Immune Microenvironment Interactions by Tao Qi, Xiao Chang, Yiming Wang

“…This study provides a theoretical basis for <i>HSD17B10</i> as a pan-cancer prognostic marker and therapeutic target.…”
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Optimizing rabies mRNA vaccine efficacy via RABV-G structural domain screening and heterologous prime-boost immunization by Dongdong Li, Xuan Wang, Gaotian Li, Jingying Zhou, Lijun Bian, Xiaoyan Zhao, Liao Xing, Juanmei Zeng, Jiaxing Cui, Lili Cui, Yong Zhang, Yan Chen

“…Transcriptome analysis showed that rabies mRNA vaccine induced both MHCI and MHCII antigen presentation, as well as B/T cell activation. …”
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