Single-nucleus transcriptomics reveals a distinct microglial state and increased MSR1-mediated phagocytosis as common features across dementia subtypes by Sook-Yoong Chia, Mengwei Li, Zhihong Li, Haitao Tu, Jolene Wei Ling Lee, Lifeng Qiu, Jingjing Ling, Richard Reynolds, Salvatore Albani, Eng-King Tan, Adeline Su Lyn Ng, Jinmiao Chen, Li Zeng

“…Abstract Background Alzheimer’s disease (AD), dementia with Lewy bodies (DLB), and Parkinson’s disease dementia (PDD) collectively represent the majority of dementia cases worldwide. While these subtypes share clinical, genetic, and pathological features, their transcriptomic similarities and differences remain poorly understood. …”
Get full text

Poneratoxin as a key tool for investigating the relationship between sodium channel hypersensitivity and impaired nerve cell function by Zirui Lü, Xiandong Dai, Jianjie Xu, Mu Zhu, Bo Chen, Yongbiao Guo, Zhenhua Gao, Fanhua Meng

“…It also impaired autophagy by inhibiting ULK1 expression and activity, while concurrently downregulating multiple proteins associated with neuronal excitability. …”
Get full text

Functional Differentiation Reconfiguration in the Midgut of <i>Nezara viridula</i> (Hemiptera: Pentatomidae) Based on Transcriptomics: Multilayer Enrichment Analysis and Topologica... by Dongyue Yu, Jingyu Liang, Wenjun Bu

“…These data reveal that the M1 region is primarily enriched in metabolic processes and neural signaling; the M2 region emphasizes cellular junctions and immune responses, while the M3 region is mainly responsible for cellular senescence and renewal. …”
Get full text

Evaluating the Effectiveness of Various Small RNA Alignment Techniques in Transcriptomic Analysis by Examining Different Sources of Variability Through a Multi-Alignment Approach by Xinwei Zhao, Eberhard Korsching

“…Its script structure streamlines processing steps, saving time when repeating procedures with various datasets. While the focus is on microRNA analysis, the templates provided can be adapted for all transcriptomic and genomic analyses. …”
Get full text

Transcriptome analysis identifies CCR7 and cell adhesion molecules as mediators of B cell migration to the bursa of Fabricius during chicken embryonic development by Milena Brunner, Catarina L. C. T. Cavaleiro, Tom V. L. Berghof, Theresa von Heyl, Mohanned Naif Alhussien, Christine Wurmser, Daniel Elleder, Benjamin Schusser

“…These findings suggest that sphingosine-1-phosphate (S1P) and its receptors regulate B cell presence in the bloodstream, while CCR7 and CXCR4 guide B cells to the bursa. …”
Get full text

Exploring Alternative Splicing in Response to Salinity: A Tissue-Level Comparative Analysis Using <i>Arabidopsis thaliana</i> Public Transcriptomic Data by Jesús Hernández-Urrieta, José Miguel Álvarez, José Antonio O’Brien

“…Plants responses to salinity involve multiple regulatory layers, from transcriptome reprogramming to proteomic and metabolomic changes. …”
Get full text

Integrated transcriptomic analysis of COVID-19 stages and recovery: insights into key gene signatures, immune features, and diagnostic biomarkers through machine learning by Zhiyuan Gong, He An

“…Adaptive immune cells (e.g., B cells and T cells) decreased, while innate immune cells (e.g., monocytes and neutrophils) increased, particularly in ICU patients. …”
Get full text

Retrospective Identification of Herpes Simplex 2 Virus-Associated Acute Liver Failure in an Immunocompetent Patient Detected Using Whole Transcriptome Shotgun Sequencing by Atsushi Ono, C. Nelson Hayes, Sakura Akamatsu, Michio Imamura, Hiroshi Aikata, Kazuaki Chayama

“…Acute liver failure (ALF) is a severe condition in which liver function rapidly deteriorates in individuals without prior history of liver disease. While most cases result from acetaminophen overdose or viral hepatitis, in up to a third of patients, no clear cause can be identified. …”
Get full text

Deciphering the Olfactory Mechanisms of <i>Sitotroga cerealella</i> Olivier (Lepidoptera: <i>Gelechiidae</i>): Insights from Transcriptome Analysis and Molecular Docking by Hui Li, Sheng Qiao, Xiwen Hong, Yangyang Wei

“…Olfaction is crucial for insect activities such as host seeking, foraging, oviposition, and predator avoidance. While olfactory proteins have been identified across several insect species, their specific functions are largely enigmatic. …”
Get full text

Vitamin D exerts endogenous control over TH2 cell fate and immune plasticity by Vrushali D. Fangal, Ayşe Kılıç, Hooman Mirzakhani, Augusto A. Litonjua, Marie B. Demay, Bruce D. Levy, Scott T. Weiss

“…Our findings demonstrate that Vit-D exposure promotes intracellular calcium ion homeostasis while suppressing prominent inflammatory cytokines characteristic of asthma. …”
Get full text

Peroxiredoxin 1-Toll-like receptor 4-p65 axis inhibits receptor activator of nuclear factor kappa-B ligand-mediated osteoclast differentiation by Jisu Park, Sanggil Kim, Hye-Yeon Jung, Eun Hwan Bae, Minhye Shin, Jae-Il Park, So-Young Choi, Sun-Ju Yi, Kyunghwan Kim

“…Mechanistically, PRDX1-TLR4 signaling activates p65, promoting Saa3 and Acod1 expression while inhibiting Nfatc1, a master regulator of osteoclastogenesis. …”
Get full text

Integrating multiple “omics” analysis for plant metabolites and their functions by ZHOU Guoyan, HU Wangxiong, XU Jianhong, XUE Qingzhong

“…Glucosinolate (GSL) metabolic pathways provide a useful model system for the research of genome structure of the quantitative characters, while the genome-wide association studies (GWAS) fast become the preferred method for analyzing complex quantitative traits. …”
Get full text

Multimodal sequencing of neoadjuvant nivolumab treatment in hepatocellular carcinoma reveals cellular and molecular immune landscape for drug response by Fanhong Zeng, Qingyang Zhang, Yu-Man Tsui, Huanhuan Ma, Lu Tian, Abdullah Husain, Jingyi Lu, Joyce Man-Fong Lee, Vanilla Xin Zhang, Po-Man Li, Gary Cheuk-Hang Cheung, Tan-To Cheung, Daniel Wai-Hung Ho, Irene Oi-Lin Ng

“…We used spatially-resolved transcriptomics, single- and bulk-cell transcriptomics, and TCR clonotype analyses to examine the spatiotemporal dynamics of the effects of nivolumab. …”
Get full text

Single-cell transcriptomic analysis identifies systemic immunosuppressive myeloid cells and local monocytes/macrophages as key regulators in polytrauma-induced immune dysregulation by Drishti Maniar, M. Cole Keenum, Casey E. Vantucci, Tyler Guyer, Paramita Chatterjee, Kelly Leguineche, Kaitlyn Cheung, Robert E. Guldberg, Krishnendu Roy

Get full text

Transcriptomic Insights into Salt Stress Tolerance Mechanisms in <i>Melia azedarach</i>: 24-Epibrassinolide-Mediated Modulation of Auxin and ABA Signaling Pathways by Xiaoxian Li, Zin Myo Htet, Hong Chen, Jianbing Liu, Fangyuan Yu

“…This study investigates the molecular basis of salt stress responses in <i>Melia azedarach</i> L. and the modulating role of 24-epibrassinolide (EBR) through transcriptomic analysis. While salt stress significantly inhibited seedling growth, EBR application substantially mitigated these effects. …”
Get full text

Phenotypic and transcriptomic analysis reveals key genes associated with plant height in rubber tree and functional characterization of the candidate gene HbFLA11 by Baoyi Yang, Yuanyuan Zhang, Weiguo Li, Xiao Huang, Xinsheng Gao, Juncang Qi, Xiangjun Wang

“…Phytohormone analysis revealed that gibberellin levels were reduced in both the apex and stem of MU73397, while jasmonic acid was increased in the apex and auxin was reduced in the stem. …”
Get full text

Impact of dietary inclusion of bile acid and fat percent on growth, intestinal histomorphology, immune-physiological and transcriptomic responses of Nile tilapia (Oreochromis nilot... by Yi Yuan, Amira A. Omar, Wasseem Emam, Radi A. Mohamed

“…Aim: The aim of this study is to investigate the effects of dietary bile acid (BA) supplementation and dietary fat percent on the growth performance, morphology of intestine, immune-physiological responses, and transcriptomic responses of Nile tilapia (Oreochromis niloticus). …”
Get full text

Transcriptomic analysis reveals candidate molecular pathways involved in pea (Pisum sativum L.) resistance to pea aphid (Acyrthosiphon pisum Harris) biotypes by Rémi Ollivier, Stéphanie Robin, Marc Galland, Po-Yuan Shih, Stéphanie Morlière, Maria K. Paulmann, Jonathan Gershenzon, Grit Kunert, Marie-Laure Pilet-Nayel, Jean-Christophe Simon, Akiko Sugio

“…This locus confers partial resistance to the pea-adapted and non-adapted A. pisum biotypes. Transcriptomic analyses of pea genotypes with and without aphid infestation revealed 9,217 differentially expressed genes in pea genotypes infested with the pea-adapted aphids, while fewer genes, 1,561 genes total, were expressed in response to the pea non-adapted aphids. …”
Get full text

Single-cell transcriptomic analyses reveal heterogeneity and key subsets associated with survival and response to PD-1 blockade in cervical squamous cell carcinoma by Xia Li, Zhao Zhao, Yanmei Cheng, Jiaqin Yan, Fang Ren, Yanyan Jia, Juanhua Li, Binhui Wang, Junqi Liu, Chenyin Wang, Meimei Gao, Hao Gu, Mingliang Fan, Huirong Shi, Mei Ji, Qitai Zhao

Get full text

Comparative Physiological and Transcriptomics Profiling Provides Integrated Insight into Melatonin Mediated Salt and Copper Stress Tolerance in <i>Selenicereus undatus</i> L. by Darya Khan, Xin Yang, Gong He, Raja Asad Ali Khan, Babar Usman, Liu Hui, Aamir Ali Khokhar, Qamar U Zaman, Hua-Feng Wang

“…SCu stress reduced plant biomass by ~54%, while melatonin application mitigated stress effects and increased plant growth by ~73.26% under SCuM compared to SCu treatment. …”
Get full text