Differential Mitochondrial Genome Expression of Four Skink Species Under High-Temperature Stress and Selection Pressure Analyses in Scincidae by Xuxiang Wu, Lemei Zhan, Kenneth B. Storey, Jiayong Zhang, Danna Yu

“…To validate these findings, transcriptomic profiling was conducted to assess mitochondrial protein-coding gene (PCG) expression patterns under thermal stress. …”
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Polycystic ovary syndrome and epithelial-mesenchymal transition: Mendelian randomization and single-cell analysis insights by Dong Liu, Dan Liu, Kunyan Zhou

“…Objective This study aimed to explore key genes associated with EMT in PCOS and their potential molecular regulatory mechanisms, exclusively from the perspective of transcriptomics and single-cell RNA sequencing (scRNA-seq), combined with Mendelian Randomization (MR) analysis. …”
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Genomic subtypes of non-muscle-invasive bladder cancer: guiding immunotherapy decision-making for patients exposed to aristolochic acid by Yun Peng, Yuxuan Song, Caipeng Qin, Mengting Ding, Zixiong Huang, Fei Wang, Yuchao HuangFu, Luping Yu, Yiqing Du, Tao Xu

“…The FGFR3 & chr9Del subtype was characterized by the co-occurrence of chr9p and chr9q deletions as well as FGFR3 mutations, while the GI subtype showed a high frequency of CNAs. …”
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Shared blood gene signature in lung adenocarcinoma and microbial lung infections: a bioinformatic analysis and in silico validation by Milad Sheervalilou, Mostafa Ghanei, Masoud Arabfard

“…Methods A total of 403 peripheral blood transcriptomic profiles from five GEO test datasets—two LUAD (GSE39345, GSE103527) and three infection-related (GSE40012, GSE65682, GSE103119)—were analyzed using the limma package. …”
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Periplocin induces necroptosis in papillary thyroid carcinoma through DR4 mediated RIPK3 and MLKL signaling by Li Ding, Fengmei Wen, Liang Zeng, Ziwei Li, Gangyin Xie

“…RNA-seq was conducted to compare the transcriptomes of periplocin-treated and untreated TPC-1 cells. …”
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Saikosaponin A Mediates the Anti-Acute Myeloid Leukemia Effect via the P-JNK Signaling Pathway Induced by Endoplasmic Reticulum Stress by Sun XH, Chai YH, Bai XT, Li HX, Yang PP, Xi YM

“…Western blot analysis demonstrated that SSA induces apoptosis in AML cells through the mitochondrial apoptotic pathway. Transcriptomic profiling and Western blot analyses confirmed that SSA activates the ERS-mediated p-JNK signaling pathway to induce apoptosis in AML, a process that can be reversed by the addition of 4PBA or SP600125. …”
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Single-cell characterization of the immune heterogeneity of pulmonary hypertension identifies novel targets for immunotherapy by Pan Jiang, Huai Huang, Mengshi Xie, Zilong Liu, Lijing Jiang, Hongyu Shi, Xiaodan Wu, Shengyu Hao, Shanqun Li

“…Cell–cell communication is important for PAH progression and therapies, while the global cell landscape of intercellular signaling has not been elucidated. …”
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Computational analysis of DEHP’s oncogenic role in colorectal cancer by Zhou Zhu, Jian Qin, Chungang He, Shuangyou Wang, Yaolin Lu, Shuai Wang, Xiaogang Zhong

“…SHAP analysis showed CDK1 and CDK4 as top contributors, while ssGSEA revealed significant correlations between these genes and immune cell infiltration. …”
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Virocell resource manipulation under nutrient limitation by Morgan M. Lindback, Cristina Howard-Varona, Jane Fudyma, Malak Tfaily, Matthew B. Sullivan, Melissa B. Duhaime

“…Building upon our previous work, we show how virocell metabolic reprogramming manipulates cellular resources and alters the extracellular environment. Intracellularly, while both virocells reprogram similar metabolic pathways, they manipulate key resources (nucleotides, amino acids, lipids, and iron) distinctly under nutrient limitation. …”
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Strain-specific interspecies interactions between co-isolated pairs of Staphylococcus aureus and Helcococcus kunzii from chronic wounds by Riham Daher, Benjamin A.R.N. Durand, Madjid Morsli, Cassandra Pouget, Jean-Philippe Lavigne, Catherine Dunyach-Remy

“…We confirmed a decrease in S. aureus hemolysin production in cocultures. While coculture did not affect the growth of S. aureus, the presence of H. kunzii appeared to influence the dynamics of S. aureus biofilm formation. …”
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The immunosuppressive role of VSIG4 in colorectal cancer and its interaction with the tumor microenvironment by H. G. Zhang, W. R. Yao, Z. Y. Zhou, L. Liu

“…The Seurat package was employed for clustering single-cell data, while the “Monocle2” algorithm was used to perform pseudo-time analysis on the differentiation trajectory of macrophages. …”
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Nicotine-induced CHRNA5 activation modulates CES1 expression, impacting head and neck squamous cell carcinoma recurrence and metastasis via MEK/ERK pathway by Chen Feng, Wei Mao, Chenyang Yuan, Pin Dong, Yuying Liu

“…Cell proliferation following nicotine exposure is assessed using the CCK-8 assay, while migration and invasion are evaluated through wound healing and Transwell assays. …”
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Oil trait and multi-omic analyses reveal the regulatory network of triacylglycerol and fatty acid accumulation in hexaploid Camellia oleifera across different harvesting stages by Jugang Wang, Jian Song, Xiaomin Gao, Jiali Wang, Tianyu Huang, Manmei Zeng, Zhoujun Zhu, Min Liu, Zuhua Wang

“…In this study, we combined oil trait measurements with multi-omics analyses (global transcriptomics, miRNA sequencing, proteomics, and metabolomics) across 3 harvest stages, using the hexaploid C. oleifera ‘Changlin 40’ genome as reference. …”
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Effects of valproate on the entry of inert hydrophilic markers and expression of tight junction associated genes in the neonatal brain and choroid plexus of a rat model of epilepsy... by Fiona Qiu, Katarzyna M. Dziegielewska, Mark D. Habgood, Yifan Huang, Norman R. Saunders

“…Brain cortex and choroid plexus transcriptomes from both rat strains were examined and compared for the expression of tight junction associated proteins. …”
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Causal relationships between alterations in shear stress-related genes and aneurysmal subarachnoid hemorrhage by Xiaoxin Wu, Yuanyuan Dai, Xingyang Niu, Minghao Zhang, Jiaoxing Li, Yi Xie, Wenli Sheng, Fei Ye

“…Functional experiments using siRNA-mediated knockdown in HUVECs showed that siKCNN4 increased cell proliferation and disrupted endothelial barriers, while siUGCG enhanced tube formation ability but reduced migration. …”
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A spatiotemporal atlas of mouse gastrulation and early organogenesis to explore axial patterning and project in vitro models onto in vivo space by Luke T.G. Harland, Tim Lohoff, Noushin Koulena, Nico Pierson, Constantin Pape, Farhan Ameen, Jonathan Griffiths, Bart Theeuwes, Nicola K. Wilson, Anna Kreshuk, Wolf Reik, Jennifer Nichols, Long Cai, John C. Marioni, Berthold Göttgens, Shila Ghazanfar

“…Summary: During gastrulation, mouse epiblast cells form the three germ layers that establish the body plan and initiate organogenesis. While single-cell atlases have advanced our understanding of lineage diversification, spatial aspects of differentiation remain poorly defined. …”
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Androgen receptor promotes arachidonic acid metabolism and angiogenic microenvironment in AFP-negative hepatocellular carcinoma by Zhilong Lin, Xiaofei Liu, Houwei Wang, Shumin Li, Ziqiang Miao, Jing Yang, Yuting Zhang, Kai Lei, Yifan Wu, Youmei Kang, Ruoyin Zheng, Zonglin Xie, Yixi Wen, Xiaoxue Ren, Chunxiao Liu, Alfred Sze-Lok Cheng, Yubin Xie, Shuling Chen, Ming Kuang, Sui Peng, Zhenwei Peng, Zihao Dai

“…Here we show that tumors display mild differences in genetic alterations between AFP− HCC and AFP+ HCC patients, while AFP− HCC exhibits hyperactive arachidonic acid metabolism. …”
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Pretreated exosomes by electrical stimulation accelerate bone regeneration by Jialu Chen, Jian Chen, Jiahao Chen, Renjie Lu, Ziyuan Liu, Yang Zhang, Chi Zhang

“…Researchers aim to enhance exosomes' therapeutic potential for bone regeneration. While various pretreatments have been studied, there is currently no research investigating the role of exosomes pretreated with electrical stimulation in bone tissue regeneration. …”
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Macrophage infiltration promotes regrowth in MYCN-amplified neuroblastoma after chemotherapy by Anders Valind, Bronte Manouk Verhoeven, Jens Enoksson, Jenny Karlsson, Gustav Christensson, Adriana Mañas, Kristina Aaltonen, Caroline Jansson, Daniel Bexell, Ninib Baryawno, David Gisselsson, Catharina Hagerling

“…Despite aggressive treatment, the 5-year event-free survival rate for children with high-risk neuroblastoma is <50%. While most high-risk neuroblastoma patients initially respond to treatment, often with complete clinical remission, many eventually relapse with therapy-resistant tumors. …”
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Opposite microglial activation stages upon loss of PGRN or TREM2 result in reduced cerebral glucose metabolism by Julia K Götzl, Matthias Brendel, Georg Werner, Samira Parhizkar, Laura Sebastian Monasor, Gernot Kleinberger, Alessio‐Vittorio Colombo, Maximilian Deussing, Matias Wagner, Juliane Winkelmann, Janine Diehl‐Schmid, Johannes Levin, Katrin Fellerer, Anika Reifschneider, Sebastian Bultmann, Peter Bartenstein, Axel Rominger, Sabina Tahirovic, Scott T Smith, Charlotte Madore, Oleg Butovsky, Anja Capell, Christian Haass

“…We have now isolated microglia from Grn−/− mice and compared their transcriptomes to those of Trem2−/−mice. Surprisingly, while loss of Trem2 enhances the expression of genes associated with a homeostatic state, microglia derived from Grn−/− mice showed a reciprocal activation of the MGnD molecular signature and suppression of gene characteristic for HM. …”
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