Bioinformatic Analysis of Transcriptomic Data Reveals Novel Key Genes Regulating Osteogenic Differentiation of Human Adipose Stem Cells by Jinluo Cheng, Xinyuan Zhao, Juan Liu, Li Cui, Yanfeng Zhu, Xiaoqing Yuan, Jianbo Gao, Yunfeng Du, Xinmin Yan, Shen Hu

“…Collectively, we have provided a number of novel genes and pathways that might be indispensable for ASC osteogenic differentiation. …”
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Bioactive Components and Color Variation Mechanism Among Three Differently Colored Peppers Based on Transcriptomics and Non-Targeted Metabolomics by Yunrong Mo, Wei Hua, Hong Cheng, Ruihao Zhang, Pingping Li, Minghua Deng

“…Here, we utilized three chili pepper varieties (CS03, CS29, and L816) at different developmental stages (young fruit stage, turning color stage, and mature stage) as research materials and integrated transcriptome and non-targeted metabolome analyses to explore the variation in bioactive components and color to explain the molecular regulatory mechanisms underlying different colors of chili peppers during the young fruit stage. …”
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Comparative transcriptome analysis of emerging young and mature leaves of Bienertia sinuspersici, a single-cell C4 plant by Richard M. Sharpe, Seanna Hewitt, Gerald Edwards, Amit Dhingra

“…These data expand our insights into the molecular basis of Binertia’s unique cellular compartmentalization, chloroplast dimorphism, and single-cell C4 biochemistry and provide information that will be useful in the ongoing efforts to transform C3-type crops into C4 type.…”
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Transcriptome analysis unveils the mechanisms of oxidative stress, immunotoxicity and neurotoxicity induced by benzotriazole UV stabilizer-328 in zebrafish embryos by Xinlu Yang, Yijing Gan, Menghuan Zhang, Shaolin Xie, Mingfu Lin, Lixiang Zhong, Mengke Song, Jun Wang, Yumei Huang

“…The results of the present work provided important information for understanding the toxicity of UV-328 to aquatic organisms and evaluating its ecological risk in aquatic environment.…”
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Comparative Transcriptome and Metabolome Profiling Revealed Molecular Cascade Events During the Enzymatic Browning of Potato Tubers After Cutting by Li Wang, Jianwei Shan, Jitao Liu, Kang An, Kun Yang, Chengchen Li, Xiaobo Li, Xingyao Xiong

“…The results of our study provide insights into the temporal molecular events that occur during the enzymatic browning of potato tubers after cutting and the potential molecular mechanisms for different degrees of enzymatic browning.…”
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Investigating the response mechanisms of the intertidal seagrass Zostera japonica to increased UVB radiation through physiological, transcriptomic, and metabolomic analyses by Jiayi Xin, Song Xue, Hongzhen Wang, Xinqi Li, Yu Zang, Lei Liu, Xuexi Tang, Jun Chen

“…The results of this study provide new insights into the potential mechanisms of the response of Z. japonica to increased UVB radiation and serve as important references for elucidating the environmental adaptation mechanisms of intertidal seagrasses.…”
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Transcriptome profiling of symptomatic vs. asymptomatic grapevine plants reveals candidate genes for plant improvement against trunk diseases by M. Patanita, M. D. Campos, A. Albuquerque, J. A. Ribeiro, D. Pimentel, R. S. Ramiro, T. Monteiro, M. Basaloco, F. Santos, I. Castro, M. R. Félix

“…Conclusions Our results provide novel insights into grapevine resistance mechanisms to GTDs and highlight candidate genes for improving disease tolerance. …”
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Transcriptome and yeast two-hybrid sequencing shed light on the crosstalk between light and jasmonate signaling in regulating tanshinone biosynthesis by Han Zheng, Xueqing Fu, Muyao Yu, Qi Liu, Chenyi Li, Ling Li, Shuyi Qian, Kang Chen, Shuncang Zhang, Kexuan Tang, Luqi Huang

“…We propose a crosstalk between light and JA signaling which regulates tanshinone biosynthesis through the SmHY5-SmBBXs complex and thus provide a basis for improving tanshinone production through the combination of light and JA.…”
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Transcriptome analysis indicates improved adipose tissue function in growing Iberian pig fed olive by-products based diets by Patricia Palma-Granados, Patricia Palma-Granados, Juan M. García-Casco, Juan M. García-Casco, Ramón Peiró-Pastor, Cristina Óvilo, Miguel A. Delgado, Miguel A. Delgado, Fabián García, Adrián López-García, Adrián López-García, Elena González, María Muñoz

“…This study involved 15 pigs, which were placed into three diet groups: a Control (C) group, a dry olive pulp (DOP) group, which was fed a compound feed elaborated with olive pulp, and a wet crude olive cake (WCOC) group, which was fed a compound feed and an olive cake silage provided ad libitum. The pigs were fed these diets for 191 days, and at a body weight of 95 kg, backfat biopsies were taken, and transcriptome analyses were performed on 5 animals per group. …”
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Analysis of post-transcriptional regulatory signatures and immune cell subsets in premature ovarian insufficiency based on full-length transcriptome by Zhaoyang Yu, Xiqian Zhang, Yingqi Nong, Hongfan Ding, Xiaoqian Fu, Feiwen Li, Lidan Liu, Mujun Li, Weilong Peng, Huimei Wu, Fenghua Liu

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Substantia nigra and blood gene signatures and biomarkers for Parkinson’s disease from integrated multicenter microarray-based transcriptomic analyses by Hui-Hui Fan, Na-Na Hou, Na-Na Hou, Dao-Lu Zhang, Dan-Ni Liu, Rong-Ting Tang, Hai-Tao Luo, Ya-Dan Song, Lei Cui, Xiong Zhang, Jian-Hong Zhu, Jian-Hong Zhu

“…PD diagnosis depends on clinical manifestation of symptoms but is lack of effective biomarker.MethodsAvailable human microarray-based transcriptomic datasets of the substantia nigra and blood were acquired for PD cases and controls. …”
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Single-cell transcriptomics analysis reveals that the tumor-infiltrating B cells determine the indolent fate of papillary thyroid carcinoma by Chunmei Li, Pei Wang, Zhizhong Dong, Weihan Cao, Yanjun Su, Jianming Zhang, Shuyan Zhao, Zhiyuan Wang, Zi Lei, Li Shi, Ruochuan Cheng, Wen Liu

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Physiological and Transcriptomic Responses of Two <i>Rhododendron</i> L. Cultivars to Drought Stress: Insights into Drought Tolerance Mechanisms by Xueqin Li, Xuguang Zheng, Yu Wang, Songheng Jin, Ziyun Wan

“…To elucidate the drought response mechanisms of <i>Rhododendron</i>, two cultivars, ‘SaKeSiZhiXing’ (SKSZX) and ‘TuRuiMeiGui’ (TRMG), were subjected to natural drought stress, and changes in chlorophyll fluorescence and transcriptomic profiles were examined at 0 days (d), 4 d, and 8 d of drought exposure. …”
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Transcriptome analysis of CsWOX1 mutant and overexpressing lines reveals downstream genes regulating cucumber leaf morphogenesis by Anran Zhang, Xiangbao Li, Helong Zhang, Yanxin Jiang, Qingqing Li, Junjun Shen, Zheng Li

“…In this study, RNA-Seq was employed to sequence the transcriptome of CsWOX1-OE to reveal its differentially expressed genes (DEGs). …”
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Hypoxic preconditioning modulates BDNF signaling to alleviate depression-like behaviors in mice and its whole transcriptome sequencing analysis by Lizhu Chen, Xujie Wang, Xiaoe Jia, Rengui Bade, Xiaolei Liu, Shuyuan Jiang, Yabin Xie, Wei Xie, Manhai Gao, Guo Shao

“…The identification of various mRNAs and ncRNAs and their constituent ceRNAs provides theoretical guidance for the clinical treatment of depression with HPC.…”
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Widely Targeted Metabolomics and Transcriptomics Analysis of the Response and Adaptation Mechanisms of <i>Trifolium ambiguum</i> to Low-Temperature Stress by Kefan Cao, Sijing Wang, Huimin Zhang, Yiming Ma, Qian Wu, Mingjiu Wang

“…This study employs metabolomics, transcriptomics, and Weighted Gene Co-expression Network Analysis (WGCNA) to investigate the molecular mechanisms of Caucasian clover’s response to low-temperature stress. …”
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Single-cell RNA sequencing and spatial transcriptomics reveal the heterogeneity and intercellular communication of cancer-associated fibroblasts in gastric cancer by Xijie Zhang, Bo Ren, Bo Liu, Rui Wang, Sen Li, Yuzhou Zhao, Wence Zhou

“…Conclusion Our study provided a comprehensive characterization of CAF heterogeneity in gastric cancer and revealed the intricate intercellular networks within the TME. …”
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The relationship between immune cell infiltration and necroptosis gene expression in sepsis: an analysis using single-cell transcriptomic data by Shouyi Wang

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Prognostic implications of high- OXPHOS macrophages in gastric cancer: a single-cell transcriptomics and tumor microenvironment communication study by Ziyuan Lin, Yunyu Xu, Xiaohe Xu, Xinjun Lin, Lin Cheng, Qifeng Zhao

“…Cell communication analysis revealed increased interaction in tumor tissues, especially involving NPC2, LY96, and TPP1 positive macrophages, which facilitated tumorigenesis and immune evasion.ConclusionThe high-OXPHOS-macrophage-related prognostic signature derived from scRNA-seq data provides valuable insights into GC patient stratification. …”
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The blood transcriptome of musk deer under heat stress condition reveals the regulatory mechanism of genes to maintain homeostasis metabolism by Xin Shi, Zhuo Cheng, Chengli Zheng, Kaiqing Wang, Jiandong Yang, Hang Jie, Yang Li, Ming Zhang

“…The findings of this study provide valuable data support for the scientific breeding of captive forest musk deer and enhance the understanding of the immune dynamics of ruminants under heat stress.…”
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