Review
Published
Strategic roadmap for FAIR-compliant transcriptomic workflows: from technical challenges to bioinformatics democratization
Verónica Jiménez Jacinto · Leticia Vega-Alvarado
Frontiers in Bioinformatics
doi 10.3389/fbinf.2026.1882808
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Showing 92 articles
Review
Published
Trust but verify: a Verification-as-a-Service framework for sustainable infrastructure governance—An integrative conceptual review
Lacour M. Ayompe · Franklin M. Lartey
Frontiers in Sustainable Cities
doi 10.3389/frsc.2026.1975063
Systematic Review
Published
The CXCL12/CXCR4 axis in breast cancer-associated fibroblasts: a transcriptome analysis and systematic literature review
Sergey Vladimirov · David Sergeevichev · Maria Bogachek · Alina Kazakova · Anastasia Leonteva · Vladimir Richter · Anna Nushtaeva
Frontiers in Bioengineering and Biotechnology
doi 10.3389/fbioe.2026.1920541
Original Research
Published
Diffusible signals from Azospirillum brasilense promote rice growth and induce distinct gene expression changes in plant roots
Samuel Hoggard · Matthew Calhoun · Anna Bommes · Yasir Rahmatallah · Dylan Neuhaus · Galina Glazko · Arijit Mukherjee
Frontiers in Plant Science
doi 10.3389/fpls.2026.1911178
Original Research
Published
Genome-wide analysis of the GATA gene family in Castanea mollissima reveals key regulators involved in salt stress response
Xiangyu Wang · Xili Liu · Jun Liu · Le Niu · Huoqiang Quan · Tong Zhang · Qinuo Li · Guoyun Zhang · Liyang Yu
Frontiers in Plant Science
doi 10.3389/fpls.2026.1907055
Original Research
Published
Temporal RNA-seq analysis reveals previously uncharacterized B cell infiltration during late chronic cerebral toxoplasmosis
Gabriel Targino · Iasmin Aparecida Cunha Araújo · Anna Laura de Jesus Gomes · Duarte Eduardo Pereira · Valdemir Moreira · Paulo Czarnewski · Neide Maria Silva
Frontiers in Immunology
doi 10.3389/fimmu.2026.1885764
Original Research
Published
Comparative transcriptomics of outbreak-associated Salmonella Heidelberg, Typhimurium, and monophasic Typhimurium reveals differential expression of stress tolerance, virulence, and biofilm-associated genes
Chelsey A. Patch · Andrea J. Etter
Frontiers in Microbiology
doi 10.3389/fmicb.2026.1895105
Original Research
Published
Sub-lethal dose exposure of cyflufenamid, flutianil, quinoxyfen, trifloxystrobin and metrafenone effects on conidial germination and gene expression in the grape powdery mildew pathogen
Nancy Sharma · Mohit Mahey · Rachel P. Naegele · Timothy D. Miles
Frontiers in Microbiology
doi 10.3389/fmicb.2026.1944688
Original Research
Published
Integrative single-cell and bulk transcriptomic analysis identifies monocyte/macrophage senescence-associated candidate genes in pulmonary arterial hypertension
Xiaojun Chen · Weibin Wu · Yilong Liu · Guili Lian · Qingquan Liu
Frontiers in Immunology
doi 10.3389/fimmu.2026.1938985
Original Research
Published
TSC1-mTORC1 signaling in Alzheimer’s disease: an integrated bioinformatic analysis linking gene expression to neuropathology
Zheng Liu · Yuchen Yu · Yu Wang · Shuohan Ning · Tongshuai Huang · Jingqi Li · Sihan Fan · Chaolong Lu
Frontiers in Aging Neuroscience
doi 10.3389/fnagi.2026.1920487
Original Research
Published
The stiffness of three-dimensional biomimetic matrices regulates insulin secretion via the Piezo1 mechanosensitive ion channel
Xi Chen · Zhen Wang · Jiahao Gu · Yan Xue · Yang Xu · Yan Huang · Dongzhi Wang
Frontiers in Chemistry
doi 10.3389/fchem.2026.1981529
Original Research
Published
Study on the promoting effect of microplastic exposure on prostate cancer migration and invasion based on network toxicology and single-cell sequencing technology
Haiyang Jiang · Ying Bi · Longguo Dai · Yong Zhu · Ruikang Zhang · Chen Hu · Hong Yang · Jun Li · Chongjian Zhang · Yu Bai · Ruiqian Li
Frontiers in Oncology
doi 10.3389/fonc.2026.1973812
Original Research
Published
Single cell RNA-seq analysis identifies junctional adhesion molecule two positive endothelial cells aggravate osteoarthritis by mediating vascular permeability and macrophage adhesion
Yang Xing · Chengxin Li · Chao Wang · Linli Zheng · Puyi Sheng
Frontiers in Cell and Developmental Biology
doi 10.3389/fcell.2026.1937741
Original Research
Published
A novel CAF-related gene signature for prognostic and immunotherapy response prediction in PDAC based on single-cell RNA-seq and bulk RNA-seq data
Xuezhi Du · Zesheng Li · Yuwei Wang · Lei Han · Jinjin Sun · Weipeng Gong
Frontiers in Pharmacology
doi 10.3389/fphar.2026.1873756
Original Research
Published
Histopathology-guided spatial transcriptomic analysis identifies an ECM-associated stromal pattern in lacrimal gland adenoid cystic carcinoma with complementary proteomic and functional analyses
Rong Luan · Difei Zuo · Yeqing Wang · Meixia Jiang · Xun Liu · Limin Zhu · Tingting Lin
Frontiers in Pharmacology
doi 10.3389/fphar.2026.1949721
Original Research
Published
Characterizing and mitigating protocol-dependent gene expression bias in 3′ and 5′ single-cell RNA sequencing
Valeryia Shydlouskaya · S. M. Mansour Haeryfar · Tallulah S. Andrews
Frontiers in Bioinformatics
doi 10.3389/fbinf.2026.1931243
Original Research
Published
A RIPK2-associated macrophage program links mycobacterial sensing to osteoclastogenesis in bone tuberculosis
Yuyang Zhang · Ziyang Zhang · Dongyang Zhang · Jiulin Tan · Zhaoxin Ma · Qingyang Xiao · Jie Zhang · Qixiu Yu · Zehua Zhang · Yong Tang · Ce Dou · Fei Luo
Frontiers in Cellular and Infection Microbiology
doi 10.3389/fcimb.2026.1970405
Original Research
Published
Integrated physiological and transcriptomic analyses reveal cell wall remodeling underlying firmness retention in a firm-fruited blueberry genotype
Bowei Wang · Chenxin Yu · Yibo Ma · Xiaoxuan Tang · Yadong Li · Haiyue Sun
Frontiers in Plant Science
doi 10.3389/fpls.2026.1962192
Original Research
Published
Integrative phenotypic and transcriptomic validation of an alveolar-like macrophage model reveals early host–pathogen dynamics during Aspergillus fumigatus infection
Jeany Söhnlein · Sascha Schäuble · Juan Prada Salcedo · Zahraa Abboud · Dalia Sheta · Kerstin Hünniger-Ast · Michelle Seif · Hermann Einsele · Thomas Dandekar · Gianni Panagiotou · Andreas Beilhack · Juergen Loeffler
Frontiers in Microbiology
doi 10.3389/fmicb.2026.1922948
Original Research
Published
Direct RNA sequencing-based multi-omics profiling reveals transcriptional and post-transcriptional remodeling in mice with diet-induced atherosclerosis
Xin Liu · Xueyu Han · Wenjun Qiu · Fengming Guo · Yan Guo · Yipeng Gao · Yuxin Liu · Ruichen Xu · Ke Hu · Bo Shen
Frontiers in Cell and Developmental Biology
doi 10.3389/fcell.2026.1953461
Original Research
Published
Multi-omics integration reveals the role of PFOS in sarcopenia via ESRRG and RBP4: from computational prediction to experimental validation
Xingyao Yang · Xin Wang · Shuxing Xing · Zhangzhen Du
Frontiers in Pharmacology
doi 10.3389/fphar.2026.1926144
Original Research
Published
Identification of microglia-associated hub genes and a CX3CR1/P2RY12 two-gene diagnostic model for cross-subtype epilepsy-associated cortical malformations: integrated transcriptomic analysis with external validation
Hongliang Zeng · Bin Li
Frontiers in Neuroscience
doi 10.3389/fnins.2026.1954412
Perspective
Published
Physical education teacher education for intercultural citizenship in a traumatized society
Mahmood Sindiani · Devora Hellerstein
Frontiers in Sports and Active Living
doi 10.3389/fspor.2026.1936237
Original Research
Published
Building a deeply AI over a substrate you cannot retrain: the Clara Nexus reference implementation of layered intelligence theory
Richard Dobson
Frontiers in Artificial Intelligence
doi 10.3389/frai.2026.1936295
Brief Research Report
Published
Transcriptomic insights into loperamide-induced gastric dysmotility: RNA-seq analysis of a mouse model
Chunggeon Lee · Seung-Ju Hwang · Young-Su Yang · Bokyung Kim · Dong-Seon Kim · Daeui Park · Chang-Woo Song · Chang-Gue Son
Frontiers in Physiology
doi 10.3389/fphys.2026.1924065
Original Research
Published
Genome-wide analysis of cork oak NLRs reveals RNL-associated duplications and immune receptor candidates associated with biotic and abiotic stress response
L. M. Gonçalves · M. M. Oliveira · P. M. Barros
Frontiers in Genetics
doi 10.3389/fgene.2026.1894037
Original Research
Published
Multi-cohort meta-analysis, single-cell and Mendelian randomization analyses with experimental validation identify RHBDF2 as a shared mediator of ulcerative colitis and blood–brain barrier disruption
Jiongjiong Cheng · Aman Xu
Frontiers in Synaptic Neuroscience
doi 10.3389/fnsyn.2026.1970578
Original Research
Published
Nicotine and tobacco smoke reshape neuronal signaling networks from a single-nucleus transcriptomic perspective
Jian Jiang · Anfu Hu · Yixiao Jin · Xia Li · Guo-Jun Zhou · Yi Shen · Chengyun Xu · Xing Ji · Ximei Wu · Hong-Juan Wang
Frontiers in Neuroscience
doi 10.3389/fnins.2026.1953804
Original Research
Published
Uterine infection-induced transcriptomic changes in the bovine endometrium
Mahfuz Rahman Adnan · Chin N. Lee · Vedbar S. Khadka · Birendra Mishra
Frontiers in Veterinary Science
doi 10.3389/fvets.2026.1916650
Original Research
Published
Interpretable machine learning prioritizes transcriptomic features associated with ferroptosis-mitochondrial permeability transition net activity states in cervical cancer
Huiying Zhang · Yidong Zhu · Weijie Shao · Kai Xu
Frontiers in Genetics
doi 10.3389/fgene.2026.1930345
Original Research
Published
Genetic algorithm–optimized SEIR-V: robust parameter estimation for wastewater-based infectious disease modeling across multiple regions
Bin Li · Sadaruddin Chachar · Chenhao Zhang · Zhang Rui · Nuoting Lu · Jieren Liu · Badaruddin Chachar · Zaid Chachar · Feijuan Huang · Yuanzhe Cai
Frontiers in Water
doi 10.3389/frwa.2026.1874972
Original Research
Published
Integrated transcriptome and single-cell RNA sequencing identifies transient receptor potential channel-related biomarkers in ulcerative colitis
Tiantian Bao · Tianru Xie · Jiang Chen · Yibo Cao · Jian Zhu · Pingliang Sun · Tao Yang
Frontiers in Molecular Biosciences
doi 10.3389/fmolb.2026.1902447
Original Research
Published
Mechanism of luteolin in treating chronic heart failure by regulating HIF-1 signaling pathway-mediated mitochondrial damage to inhibit cardiomyocyte apoptosis
Weiqi Shi · Zhide Zhu · Junshen Lu · Meiling Tang · Yan Pang · Zhilin Peng · Jie Lu · Puwei Huang · Shanyun Zou · Jiaji Wu · Yarou Tu · Chunmei Fan · Yuyun Gan · Lihui Hu · Qi Lin · Liuqin Qin · Rusheng Shi · Fei Zhong · Yuxuan Shen · Jianqi Lu
Frontiers in Cell and Developmental Biology
doi 10.3389/fcell.2026.1977166
Original Research
Published
Methylglyoxal hampers the angiogenic capacity of human retinal endothelial cells modifying cell transcriptome with the contribution of NRSF/REST
Marianna Aprile · Cecilia Nigro · Caterina Perfetto · Alessia Leone · Simona Cataldi · Antonella Nicolò · Mariagiovanna Tramontano · Antonella Desiderio · Francesco Beguinot · Valerio Costa · Claudia Miele · Alfredo Ciccodicola
Frontiers in Cell and Developmental Biology
doi 10.3389/fcell.2026.1762167
Original Research
Published
Longitudinal single-cell analysis identifies a chemotherapy-suppressed proliferative program associated with adverse prognosis in neuroblastoma
Aiguo Zhu · Jian Wang
Frontiers in Genetics
doi 10.3389/fgene.2026.1878093
Review
Published
Mitochondrial dysfunction and PANoptosis-related signaling in acute central nervous system injuries: mechanistic convergence and therapeutic opportunities
Hongbo Zhang · Ruoxin Tu · Dawei Zhang · Hao Tian · Hongna Yin
Frontiers in Molecular Neuroscience
doi 10.3389/fnmol.2026.1982074
Original Research
Published
Patient classification using single-cell RNA-sequencing data with deep learning convolutional neural networks
Anastasis Oulas · Nestoras Karathanasis · Theodosios Lampadarios · Raphael Antartis · George M. Spyrou
Frontiers in Bioinformatics
doi 10.3389/fbinf.2026.1919127
Hypothesis and Theory
Published
From metric to model: a five-stage pipeline for building and sustaining valid AI predictive systems in consumer neuroscience
Thomas Zoëga Ramsøy
Frontiers in Human Neuroscience
doi 10.3389/fnhum.2026.1837923
Original Research
Published
Cellular, chromatin-accessibility, and spatial contextualization of bulk transcriptional patterns linked to positive peritoneal cytology in endometrial cancer
Jiangang Huang · Binglai Luo · Zhiqing Hu · Shuping Lin · Jinyong Wang · Meiyan Lin
Frontiers in Genetics
doi 10.3389/fgene.2026.1924936
Original Research
Published
Integrative bioinformatics screening of a M2 macrophage-associated gene signature for osimertinib resistance
Yajie Huang · Yaozhong Zhang · Jian Shi
Frontiers in Genetics
doi 10.3389/fgene.2026.1928986
Original Research
Published
Single-cell transcriptomic analysis identifies vascular smooth muscle cell transcriptional programs associated with human carotid plaque remodeling
Yi-Jie Lu · Xue-Guang Lin · Ting Wang · Fan-Xuan Huang · Ying Deng · Shuai Jiang · Jing Dong Tang · Bo Yu
Frontiers in Molecular Biosciences
doi 10.3389/fmolb.2026.1950061
Original Research
Published
Integrative multi-omics characterization of KLRB1/CD161 in diffuse large B-cell lymphoma: associations with immune context, subtype biology, and therapeutic response
Erwei Li · Yingying Tang · Yuanyuan Wanyan · Yu Liang
Frontiers in Molecular Biosciences
doi 10.3389/fmolb.2026.1903725
Original Research
Published
Experimental evaluation of compression algorithms for memory-constrained embedded systems
Tomáš Bača · Lukáš Formanek · Peter Ševčík · Ondrej Karpiš
Frontiers in Computer Science
doi 10.3389/fcomp.2026.1925314
Original Research
Published
Integrative oxidative stress–disulfidptosis analysis identifies NPR3 and ZNF366 as cell-type-associated candidate markers in clear cell renal cell carcinoma
Ping Wang · Zhixuan Cai · Gaofeng Wu · Guangfeng Zhu
Frontiers in Molecular Biosciences
doi 10.3389/fmolb.2026.1912537
Original Research
Published
Mechanical strength prediction of steel fiber-reinforced recycled aggregate concrete: model accuracy and key influencing parameters
Wafaa Abbas Hasan · Alaa Jaleel Naji · Ali Jaafar Dakhil · Wael Hamd · Firas Barraj · Ali Jahami
Frontiers in Built Environment
doi 10.3389/fbuil.2026.1952751
Original Research
Published
Cross-species gene expression analysis identifies a type I interferon-associated transcriptional signature in Tregs from atopic dermatitis
Naoya Kase · Hina Nakamura · Chizuru Nakakomi · Manami Shimakata · Mai Banno · Ryotaro Kanari · Yohsuke Harada
Journal of Cutaneous Immunology and Allergy
doi 10.3389/jcia.2026.17310
Brief Research Report
Published
Assessment of microexon-associated junction usage in Parkinson’s disease and spinocerebellar Ataxia type 3
Kira Mehnert · Jeannette Hübener-Schmid · Jakob Admard · Vladislav Lysenkov · German Demidov · Chrisovalantou Huridou · Jonasz Jeremiasz Weber · Olaf Riess · Nicolas Casadei
Frontiers in Molecular Neuroscience
doi 10.3389/fnmol.2026.1872346
Original Research
Published
The role of goat FTO/IGF2BP1-mediated BCL11A m6A modification in intramuscular adipocyte differentiation
Wuqie QuBi · Yong Wang · Xin Li · Kehan Liu · Fangjun Lin · Yanyan Li · Jiani Xing · Youli Wang · Haitao Shi · Jiangjiang Zhu · Yaqiu Lin
Frontiers in Animal Science
doi 10.3389/fanim.2026.1875964