A Highly Efficient System for Separating Glandular and Non-glandular Trichome of Cucumber Fruit for Transcriptomic and Metabolomic Analysis by Lei Sun, Zhongxuan Feng, Fang Wang, Yu Qi, Menghang An, Lin Yang, Min Feng, Mingqi Wang, Huazhong Ren, Xingwang Liu

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Lipidomic and transcriptomic profiling reveal alterations in the coexistence of gestational diabetes mellitus and preeclampsia impacting maternal and neonatal outcomes by Chenxiao Zhang, Yanli Huang, Xixian Mai, Lu Liu, Yan Li, Fei Zheng, Judan Cao, Chen Zou, Changshan Wang, Jinjun Ran, Hui Zhang, Xiaonan Wang

“…Our findings indicate that PE and PG groups exhibit more pronounced lipidomic alterations, which are associated with adverse neonatal outcomes, while GDM and PG groups show more significant transcriptomic changes related to maternal neuronal and immune dysfunction, potentially increasing the risk of postpartum depression (PD). …”
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Exploring individual differences in fear extinction in male and female mice: insights from HPA axis, microbiota, and transcriptomics by Marc Ten-Blanco, María Ponce-Renilla, Inmaculada Pereda-Pérez, Cristina Izquierdo-Luengo, Carlo Bressa, Olga Zafra, Rosa María Tolón, Fernando Berrendero

“…Abstract Exposure to traumatic life events may compromise physical and mental health of specific subjects. While some individuals extinguish fear appropriately, others exhibit an inefficient and persistent fear response, with remarkable differences between sexes. …”
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Comprehensive transcriptome, miRNA and kinome profiling identifies new treatment options for personalized lung cancer therapy by Shen Zhong, Yvonne Börgeling, Patrick Zardo, Danny Jonigk, Jürgen Borlak

“…Methods We performed molecular pathology, transcriptomics and miRNA profiling across 95 well‐characterized LC patients. …”
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Integrated transcriptome and metabolome analyses provide molecular insights into the transition of flower color in the rose cultivar ‘Juicy Terrazza’ by Yun Xuan, Jie Ren, Zhu Chen, Dan Shi

“…PSY, PDS, ZISO, and ZDS genes showed significant down-regulation, while RcCCD4 exhibited strong up-regulation in JT-P compared with JT-T, which could directly contribute to the reduction of carotenoid contents during the JT-P stage. …”
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Machine learning-assisted multi-dimensional transcriptomic analysis of cytoskeleton-related molecules and their relationship with prognosis in hepatocellular carcinoma by Yuxuan Li, Mingbo Cao, Xiaorui Su, Gaoyuan Yang, Yupeng Ren, Zhiwei He, Zheng Shi, Ziyi Hu, Guirong Liang, Qi Zhang, Zhicheng Yao, Meihai Deng

“…Single-cell sequencing (scRNA-seq) and spatial transcriptomics analyses explored the expression and functional roles of key genes, while drug screening and molecular docking identified potential therapeutic agents, followed by in vitro and in vivo validation. …”
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Integrated metabolomic and transcriptomic analysis revealed the transition of functional components in edible flower buds of Hemerocallis citrina Baroni by Congrong Jiang, Wenwen Zhang, Yating Zhang, Guanghui Yang, Dongmei Cao, Wei Li

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Transcriptomic signatures in response to antioxidants supplementation in Korean cattle beef, Hanwoo: a 7-month feeding study by Kangwook Lee, La Yoon Choi, Jun Sang Ahn, Jae Yong Song, Joong Kook Park, Suk Jun Yun, Jeong Heon Lee, Eui-Cheol Shin, Soo-Jin Yeom, Jiangchao Zhao, Tae Jin Cho, Nam Su Oh, Jeong-Oh Shin, Dahye Kim, Tae Gyun Kim, Hyung Taek Cho, Hyo Ri Shin, Young Jun Kim, Jae Kyeom Kim, Jae Kyeom Kim

“…Growth performance and carcass traits were evaluated, and liver transcriptomic changes were assessed using RNA sequencing.Results and discussionWhile no significant differences were observed in phenotypic traits such as weight gain and feed conversion ratio, transcriptomic analysis identified 641 differentially expressed genes between the CON and FEED groups. …”
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Integrated analysis of single-cell and bulk transcriptomics reveals cellular subtypes and molecular features associated with osteosarcoma prognosis by Feng Liu, Tingting Zhang, Yongqiang Yang, Kailun Wang, Jinlan Wei, Ji-Hua Shi, Dong Zhang, Xia Sheng, Yi Zhang, Jing Zhou, Faming Zhao

“…Subsequently, we confirmed that ATF6α was markedly associated with OS progression, while both genetic and pharmacological inhibition of ATF6α impaired the survival of HOS cells. …”
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Skin transcriptomic and selection signature analyses identify ASIP as a key gene in cattle coat color determination by Xin Wang, Longxin Xu, Di Zhou, Yanli Lv, Junda Wu, Yuanfeng Zhao, Mengmeng Ni, Wenzhang Zhou, Kaikai Zhang, Hua Wang, Jipan Zhang

“…Notably, the mutation type was predominant in Simmental cattle, while the reference allele was more common in Angus cattle.ConclusionBased on the skin transcriptomic and genomic analyses, we found that ASIP was significantly differential expressed between black and brown cattle breeds and under strong positive selection. …”
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Next Generation Aqueous Two‐Phase System for Gentle, Effective, and Timely Extracellular Vesicle Isolation and Transcriptomic Analysis by Boyang Su, Morteza Jeyhani, Gobi Thillainadesan, Minzhi Sheng, Reese Wunsche, Thamara Dayarathna, Kristin Cimolai, Hanyi Weng, Katarzyna J. Jerzak, Stanley K. Liu, Scott S. H. Tsai, Hon S. Leong

“…The use of dextranase also enables more accurate immunoreactivity of pre‐conjugated antibodies for the detection of EVs by nFC. Transcriptomic analysis of EVs isolated using the next‐gen ATPS revealed a strong overlap in microRNA (miRNA), circular RNA (circRNA) and small nucleolar RNA (snoRNA) profiles with EV donor cells, as well as EVs isolated by UC and the exoRNeasy kit, while detecting a superior number of circRNAs compared to the kit in human samples. …”
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Comparative transcriptomic analysis reveals genetic factors underlying susceptibility of largemouth bass to the complex stress elicited by transportation by Guili Song, Yi Chen, Jun Xiao, Leyang Peng, Hui Qiao, Shuning Liu, Cheng Luo, Yong Long

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Unveiling the molecular mechanisms of γ-polyglutamic acid-mediated drought tolerance in cotton through transcriptomic and physiological analyses by Ziyu Wang, Xin Zhang, Yunhao Liusui, Wanwan Fu, Aixia Han, Dongmei Zhao, Jisheng Yue, Yongfeng Tu, Jingbo Zhang, Yanjun Guo

“…Subsequently, transcriptome sequencing was performed on the leaves of cotton plants under drought stress in both the γ-PGA-treated and control groups. …”
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Comparative transcriptomic and genomic analysis of tumor cells in the marginal and center regions of tumor nests in human hepatocellular carcinoma by Ziyi Li, Ziyi Li, Yikai Hu, Yikai Hu, Zhuotian He, Heyi Xu, Hongyang Wang, Hongyang Wang, Hongyang Wang, Yufei He

“…CNV and clustering analyses demonstrated transcriptional differences between tumor nests within individual patients, suggesting the evolutionary diversity, or heterogeneity, of tumor nests within the same tumor.ConclusionTumor nests exhibit significant transcriptional differentiation along spatial axes: the central regions show high expression of metabolism-related genes, while the marginal regions are enriched in immune-regulatory genes. …”
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Unraveling key transposable elements in pathogen-induced bovine mastitis through comparative in vivo and in vitro transcriptomic analysis by Songyan An, Siyuan Mi, Siqian Chen, Yongjie Tang, Yue Xing, Yi Jing, Ying Yu

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Transcriptomic Analysis Reveals the Role of Long Non-Coding RNAs in Response to Drought Stress in Tibetan Hulless Barley by Zitao Wang, Yue Fang, Qinyue Min, Kaifeng Zheng, Yanrong Pang, Jinyuan Chen, Feng Qiao, Shengcheng Han

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Metabolic, transcriptomic, and proteomic adaptations in pancreatic ductal adenocarcinoma-patient derived xenograft models across serial passages by Pengfei Guo, Haizong Fang, Han Shi, Junrong Zhang, Ge Song, Chongjiu Fan, Xinyu Qiu, Xianchao Lin, Shi Wen, Jianghua Feng, Heguang Huang, Tianhong Teng

“…Abstract Background Patient-derived xenograft (PDX) models are crucial for tumor biology and therapeutic response evaluations. The metabolic, transcriptomic, and proteomic changes in PDX models derived from pancreatic ductal adenocarcinoma (PDAC) during serial passaging remain poorly understood. …”
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Transcriptome sequencing–based analysis of the molecular mechanism underlying the effect of lncRNA AC003090.1 on osteoporosis by Huafeng Zhuang, Yongjun Lin, Chengye Lin, Miao Zheng, Yizhong Li, Xuedong Yao, Youjia Xu

“…Among these, 1,482 were significantly up-regulated, and 620 were significantly down-regulated, while 1,146 were significantly up-regulated and 1,681 were significantly down-regulated. …”
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Biological mechanism of sex differences in mental rotation: Evidence from multimodal MRI, transcriptomic and receptor/transporter data by Haixia Long, Hao Wu, Chaoliang Sun, Xinli Xu, Xu-Hua Yang, Jie Xiao, Mingqi Lv, Qiuju Chen, Ming Fan

“…Moreover, γ-aminobutyric acid subtype A (GABAA) receptor availability was correlated with the r-statistic of dReHo, while norepinephrine transporter (NET) availability was correlated with its t-statistic. …”
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Comparative transcriptomic analysis and identification of candidate genes related to Verticillium wilt resistance in Gossypium barbadense and Gossypium hirsutum by Jieyin Zhao, Xingui Hu, Yuxiang Wang, Jiaxin Lu, Wenju Gao, Xuening Su, Quanjia Chen, Yanying Qu

“…Here, we report a transcriptomic study for phenotypic evaluation of Verticillium wilt resistance in G. hirsutum (TM-1) and G. barbadense (Hai7124) and a comparison of the transcriptomes at 7 time points after Verticillium dahliae inoculation. …”
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