Sublethal THPS accelerates Pseudomonas-associated steel corrosion by stimulating biofilm development and microbial electron uptake by Xin Shi, Yimeng Zhang, Ruiyong Zhang, Chengpeng Li, Can Wang, Xiao Wang, Wolfgang Sand, Jizhou Duan

“…These findings provide guidance for the rational application of biocides in industrial settings.…”
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Integrating Dynamical Systems Modeling with Spatiotemporal scRNA-Seq Data Analysis by Zhenyi Zhang, Yuhao Sun, Qiangwei Peng, Tiejun Li, Peijie Zhou

“…Recent advancements in temporally resolved scRNA-seq, spatial transcriptomics (ST), and time-series spatial transcriptomics (temporal-ST) have further revolutionized our ability to study the spatiotemporal dynamics of individual cells. …”
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Profiling with senescence-associated secretory phenotype score identifies GDC-0879 as a small molecule sensitizing glioblastoma to anti-PD1 by Yang Liu, Yuan Feng, Lin Cheng, Yangxi Xu, Anhua Wu, Peng Cheng

“…Then, we validate this score with functional assays and transcriptomic profiling of Doxorubicin-induced senescence GBM cells. …”
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Combining long-read DNA and RNA sequencing to enhance molecular understanding of structural variations leading to copy gains by Jade Fauqueux, Jean-Pascal Meneboo, Roseline Caumes, Luc Thomès, Emilie Ait Yahya, Caroline Thuillier, Elise Boudry, Celine Villenet, Martin Figeac, Jamal Ghoumid, Thomas Smol

“…By integrating LRS with transcriptomic and chromosomal conformation analyses, we provided a comprehensive understanding of SV formation and its pathogenic impact. …”
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Unraveling microbial pathogenesis through omics technologies for better therapeutic interventions by Ankita Sharma, Alka Rana, Binoy Kumar, Poonam Kumari, Kanika Choudhary, Sunil Kumar, Dixit Sharma

“…Still omics have evolved a new and powerful strategy that can provide information about the adaptation of microorganisms to diverse environments. …”
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Human CD123+AXL+ dendritic cells express Siglec1 that captures and transmits HIV-1 particles to the T cells by Haisheng Yu, Yinghui Cao, Liang Cheng, Guangming Li, Liguo Zhang, Lishan Su

“…Hitherto, a novel subset (AXL+DCs) has been identified in human blood, which is transcriptomically and functionally distinct from three known subsets. …”
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Profiling of insulin-resistant kidney models and human biopsies reveals common and cell-type-specific mechanisms underpinning Diabetic Kidney Disease by Abigail C. Lay, Van Du T. Tran, Viji Nair, Virginie Betin, Jennifer A. Hurcombe, Alexandra F. Barrington, Robert JP Pope, Frédéric Burdet, Florence Mehl, Dmytro Kryvokhyzha, Abrar Ahmad, Matthew C. Sinton, Philip Lewis, Marieangela C. Wilson, Rajasree Menon, Edgar Otto, Kate J. Heesom, Mark Ibberson, Helen C. Looker, Robert G. Nelson, Wenjun Ju, Matthias Kretzler, Simon C. Satchell, Maria F. Gomez, Richard J. M. Coward, BEAt-DKD consortium

“…Our data is further compared with bulk- and single-cell transcriptomic kidney biopsy data from early- and advanced-stage DKD patient cohorts. …”
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Omics insights into Bacillus velezensis LMY3-5 defense against Botryosphaeria dothidea in kiwifruit by Chunguang Ren, Yu Liu, Wenwen Su, Zhengcheng Han, Di Wu, Weijie Li

“…The main conclusion of this study is LMY3-5 combats B. dothidea via antimicrobial metabolites, with genomics and transcriptomics revealing its molecular basis for biocontrol. …”
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Fish MicroRNA Responses to Thermal Stress: Insights and Implications for Aquaculture and Conservation Amid Global Warming by Ting Lin, Madhava Meegaskumbura

“…While our understanding of fish heat tolerance and stress has expanded from behavioral studies to transcriptomic analyses, knowledge at the transcriptomic level is still limited. …”
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Novel insights into post-myocardial infarction cardiac remodeling through algorithmic detection of cell-type composition shifts. by Brian Gural, Logan Kirkland, Abigail Hockett, Peyton Sandroni, Jiandong Zhang, Manuel Rosa-Garrido, Samantha K Swift, Douglas J Chapski, Michael A Flinn, Caitlin C O'Meara, Thomas M Vondriska, Michaela Patterson, Brian C Jensen, Christoph D Rau

“…To address this, we developed a computational approach using single-nucleus RNA sequencing (snRNA-seq) references to estimate and correct for cell-type abundance shifts in bulk transcriptomic data. We applied this method to analyze infarct border zone transcriptomes from wild-type (WT) and cardiomyocyte-specific α1A-adrenergic receptor knockout (cmAKO) mice subjected to MI via left coronary artery ligation or sham surgery. …”
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The inconsistent pathogenesis of endometriosis and adenomyosis: insights from endometrial metabolome and microbiome by Chao Li, Xinxin Xu, Xiaojie Zhao, Bin Du

“…Additionally, we integrated transcriptomic analysis using nine transcriptomic data sets to investigate the biological basis of these conditions. …”
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Mechanisms of Cannabis Growth Promotion by <i>Bacillus velezensis</i> S141 by Phirom Aunkam, Surachat Sibponkrung, Sirawich Limkul, Tuangrak Seabkongseng, Kanjana Mahanil, Kamolchanok Umnajkitikorn, Nantakorn Boonkerd, Neung Teaumroong, Shusei Sato, Panlada Tittabutr, Pakpoom Boonchuen

“…This study evaluated the effects of S141 on cannabis growth and utilized transcriptomic analysis to identify the responsive pathways. …”
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Fitness and transcriptional plasticity of human breast cancer single-cell-derived clones by Long V. Nguyen, Yaniv Eyal-Lubling, Daniel Guerrero-Romero, Sarah Kronheim, Suet-Feung Chin, Raquel Manzano Garcia, Stephen-John Sammut, Giulia Lerda, Allan J.W. Lui, Helen A. Bardwell, Wendy Greenwood, Hee Jin Shin, Riccardo Masina, Katarzyna Kania, Alejandra Bruna, Elham Esmaeilishirazifard, Emily A. Kolyvas, Samuel Aparicio, Oscar M. Rueda, Carlos Caldas

“…By directly linking clonal growth with single-cell transcriptomes, these findings provide a profound understanding of clonal fitness and plasticity with implications for cancer biology and therapy.…”
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Quantifying the regulatory potential of genetic variants via a hybrid sequence-oriented model with SVEN by Yu Wang, Nan Liang, Ge Gao

“…We further systematically screen a large-scale structural variants dataset derived from 3622 individuals and clinical structural variants from ClinVar, and provide an overview of transcriptomic impacts of structural variants in population. …”
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Endothelial cell proliferation and extracellular matrix-related pathways regulate pulmonary arterial hypertension in rat models by LU Xiaoxuan, GUO Lina, ZHANG Hong, SONG Wanlu, HU Yufei, YANG Peiran

“…Methods Rat PAH models were established using subcutaneous monocrotaline (MCT) injection and the SU5416/hypoxia (SU/Hx) method. Transcriptomic sequencing of lung tissues was performed to identify gene expression and pathway alterations in PAH rats, followed by a comparative analysis with transcriptomic data of patients with idiopathic pulmonary arterial hypertension (IPAH) in NCBI database. …”
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Integrative single-cell and exosomal multi-omics uncovers SCNN1A and EFNA1 as non-invasive biomarkers and drivers of ovarian cancer metastasis by Liping Tang, Dong Pang, Chengbang Wang, Jiali Lin, Shaohua Chen, Jiangchun Wu, Junqi Cui

“…We then applied ten machine learning algorithm to exosomal transcriptomic data to evaluate diagnostic performance and identify the optimal classifier. …”
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Dynamical systems theory as an organizing principle for single-cell biology by Samia Islam, Sudin Bhattacharya

“…Abstract The emergence of single-cell transcriptomics has given us novel views of gene expression heterogeneity and cellular trajectories in development and disease at unprecedented resolution. …”
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Multiomics Approach Distinguishes SPTBN4 as a Key Molecule in Diagnosis, Prognosis, and Immune Suppression of Testicular Seminomas by Jianfeng Xiang, Yanjie Xiang, Qintao Ge, Yunhong Zhou, Hailiang Zhang, Wenhao Xu, Shifang Zhou, Liang Chen

“…These findings provide a foundation for leveraging multiomics approaches to advance the clinical management of testicular seminomas and other heterogeneous malignancies.…”
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Developing risk stratification strategies and biomarkers for recurrent hepatocellular carcinoma by Jia‐Hao Law, Huilin Shao, Ramanuj DasGupta, Daniel Q. Huang

“…Advanced technologies such as single‐cell and spatial transcriptomics provide unprecedented insights into fibrosis progression and tumor evolution. …”
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Temporal analysis of doxorubicin-induced cardiac toxicity and hypertrophy by Yu-Te Lin, Yi-Ju Lee, Wen-Wei Tseng, Zih-Hua Chen, Huai-Ching Hsieh, Ko-Hong Lin, Jin-Yu Su, An-Chi Wei

“…In this study, we collected time-course transcriptomics and metabolomics data from the human cardiomyocyte cell line AC16, which we analyzed along with curated public transcriptomics data on DOX-induced toxicity. …”
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