Works matching DE "GENE regulatory networks"

Results: 5000

Transcriptome sequencing revealed the regulation of stem internode length associated with mechanical harvesting in three tea varieties.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1626915

By:

Mi, Xiaozeng;
Qiao, Dahe;
Yang, Chun;
Chen, Juan;
Liang, Sihui;
Guo, Yan

Publication type:

Article

Transcriptome Profiling of Spike Development Reveals Key Genes and Pathways Associated with Early Heading in Wheat– Psathyrstachys huashanica 7Ns Chromosome Addition Line.

Published in:

Plants (2223-7747), 2025, v. 14, n. 13, p. 2077, doi. 10.3390/plants14132077

By:

Tan, Binwen;
Xie, Yangqiu;
Peng, Hang;
Wang, Miaomiao;
Zhu, Wei;
Xu, Lili;
Cheng, Yiran;
Wang, Yi;
Zeng, Jian;
Fan, Xing;
Sha, Lina;
Zhang, Haiqin;
Qin, Peng;
Zhou, Yonghong;
Wu, Dandan;
Li, Yinghui;
Kang, Houyang

Publication type:

Article

The Tissue Expression Divergence of the WUSCHEL-Related Homeobox Gene Family in the Evolution of Nelumbo.

Published in:

Plants (2223-7747), 2025, v. 14, n. 13, p. 1909, doi. 10.3390/plants14131909

By:

Li, Juanjuan;
Zhang, Yue

Publication type:

Article

Role of LncRNA MRPS28 in Secondary Hair Follicle Development of Cashmere Goats.

Published in:

Animals (2076-2615), 2025, v. 15, n. 13, p. 1882, doi. 10.3390/ani15131882

By:

Rong, Youjun;
Ma, Rong;
Ma, Qing;
Ma, Bingjie;
Bao, Xuxu;
Zhang, Yiming;
Wang, Le;
Shang, Fangzheng;
Wang, Ruijun;
Su, Rui;
Wang, Yu;
Zhang, Yanjun

Publication type:

Article

Decoding complexity: tackling the challenge of how many transcription factors regulate a plant gene.

Published in:

Transcription (2154-1264), 2025, v. 16, n. 2/3, p. 261, doi. 10.1080/21541264.2025.2521767

By:

Gray, John;
Grotewold, Erich

Publication type:

Article

Identifying Molecular Modulators of the Vascular Invasion in Rectal Carcinoma: Role of ADAMTS8 and Its Co-Dependent Genes.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 13, p. 6261, doi. 10.3390/ijms26136261

By:

Kožik, Bojana;
Čorbo, Tarik;
Pojskić, Naris;
Božović, Ana;
Todorović, Lidija;
Kolaković, Ana;
Mandušić, Vesna;
Pojskić, Lejla

Publication type:

Article

Genome-Wide Characterization of DrRALF Genes in Yam (Dioscorea rotundata) Reveals Their Potential Roles in Tuber Expansion and the Gibberellin Response.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 13, p. 6151, doi. 10.3390/ijms26136151

By:

Qiao, Qinghua;
Sheng, Furui;
Qiao, Wei;
Li, Shanshan;
Wang, Liying;
Xiao, Dong;
He, Longfei

Publication type:

Article

A Module-Level Polygenic Risk Score-Based NetWAS Framework for Identifying AD Genetic Modules Mediated by Amygdala: An ADNI Study.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 13, p. 6060, doi. 10.3390/ijms26136060

By:

Luo, Haoran;
Fan, Shaoheng;
Liu, Hongwei;
Li, Wei;
Fan, Zhoujie;
Zhu, Xuancheng;
Zhang, Chen Jason;
Liang, Hong;
Cong, Shan;
Yao, Xiaohui

Publication type:

Article

Standard Calibration and On-Line Estimation of Cell-Specific Growth and Protein Synthesis Rates in Chi.Bio Mini-Bioreactors.

Published in:

Applied Sciences (2076-3417), 2025, v. 15, n. 13, p. 7442, doi. 10.3390/app15137442

By:

Díaz-Iza, Harold José;
Arboleda-García, Andrés;
Boada, Yadira;
Vignoni, Alejandro;
Picó, Jesús

Publication type:

Article

Genome-wide analysis of the TCP transcription factor family in mung bean and its dynamic regulatory network under salt stress.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1602810

By:

Wang, Zhi-Wei;
Li, Guan;
Li, Ru-Zhi;
Tian, Ru-Mei;
Liu, Min;
Chen, Xue;
Hou, Song;
Zhao, Jiu-Yan;
Yang, Yong-Yi;
Xie, Kun;
Qin, Na;
Wang, Longxin;
Zhang, Lian-He;
Jia, Kai-Hua;
Li, Na-Na

Publication type:

Article

EBV-miR-BART5-5p regulates RORA to promote proliferation and migration of gastric cancer cells.

Published in:

PLoS ONE, 2025, v. 20, n. 7, p. 1, doi. 10.1371/journal.pone.0327323

By:

Du, Changqi;
Liang, Shuang;
Wang, Xia;
Qi, Yujiao;
Li, Shangdong;
Li, Hongling

Publication type:

Article

Associative conditioning in gene regulatory network models increases integrative causal emergence.

Published in:

Communications Biology, 2025, v. 8, n. 1, p. 1, doi. 10.1038/s42003-025-08411-2

By:

Pigozzi, Federico;
Goldstein, Adam;
Levin, Michael

Publication type:

Article

The expression of Pax6 and retinal determination genes in the eyeless arachnid A. longisetosus reveals vestigial eye primordia.

Published in:

EvoDevo, 2025, v. 16, n. 1, p. 1, doi. 10.1186/s13227-025-00245-7

By:

Joyce, Isabella;
Barnett, Austen A.

Publication type:

Article

The engineering toolbox of Parageobacillus thermoglucosidasius.

Published in:

Applied Microbiology & Biotechnology, 2025, v. 109, n. 1, p. 1, doi. 10.1007/s00253-025-13508-z

By:

Millgaard, Marie;
Escher, Belinda;
Pogrebnyakov, Ivan;
Nielsen, Alex Toftgaard

Publication type:

Article

HBO1 determines epithelial-mesenchymal transition and promotes immunotherapy resistance in ovarian cancer cells.

Published in:

Cellular Oncology (2211-3428), 2025, v. 48, n. 4, p. 943, doi. 10.1007/s13402-025-01055-8

By:

Zhang, Cong;
Zhu, Jinmin;
Lin, Huaisong;
Zhang, Zhishuai;
Kang, Baoqiang;
Li, Fei;
Shan, Yongli;
Zhang, Yanqi;
Xing, Qi;
Gu, Jiaming;
Hu, Xing;
Cui, Yuanbin;
Huang, Jingxi;
Zhou, Tiancheng;
Mai, Yuchan;
Chen, Qianyu;
Mao, Rui;
Li, Peng;
Pan, Guangjin

Publication type:

Article

Transcriptomic profiling and bioinformatic insights into myocardial injury following aneurysmal subarachnoid hemorrhage.

Published in:

Frontiers in Neurology, 2025, p. 1, doi. 10.3389/fneur.2025.1492398

By:

Wu, Zuoli;
He, Wenbo;
Ye, Weihao;
Xu, Shang;
Wei, Shengwei;
Huang, Baozi;
Li, Pingping;
Tang, Yanyan;
Qin, Chao;
Liu, Ying;
Ye, Ziming

Publication type:

Article

Exploring ABHD5 as a Lipid-Related Biomarker in Idiopathic Pulmonary Fibrosis: Integrating Machine Learning, Bioinformatics, and In Vitro Experiments.

Published in:

Inflammation, 2025, v. 48, n. 3, p. 1176, doi. 10.1007/s10753-024-02107-1

By:

Liao, Yi;
Peng, Xiaying;
Yang, Yan;
Zhou, Guanghong;
Chen, Lijuan;
Yang, Yang;
Li, Hongyan;
Chen, Xianxia;
Guo, Shujin;
Zuo, Qiunan;
Zou, Jun

Publication type:

Article

A dataset of expression profile of certain microRNAs in Caenorhabditis elegans.

Published in:

Scientific Data, 2025, v. 12, n. 1, p. 1, doi. 10.1038/s41597-025-05486-8

By:

Gao, Yimeng;
Bai, Yuchuan;
Hu, Shipeng;
Tao, Zhiju;
Jiang, Yiru;
Zhao, Di

Publication type:

Article

Utilizing machine learning algorithms to identify biomarkers associated with Alzheimer's disease and ferroptosis-related genes.

Published in:

Technology & Health Care, 2025, v. 33, n. 4, p. 2041, doi. 10.1177/09287329251322278

By:

Wang, Di;
Lin, Chunsheng;
Liu, Gang;
Wang, Xin;
Han, Shengwang;
Han, Zengxin

Publication type:

Article

Role of Col1a2 and Postn in left ventricular noncompaction cardiomyopathy.

Published in:

Journal of Cardiothoracic Surgery, 2025, v. 20, n. 1, p. 1, doi. 10.1186/s13019-025-03509-4

By:

Liu, Huibing;
Meng, Ling-bing;
Liu, Qian

Publication type:

Article

Integrated transcriptomic and metabolomic analysis of flavonoid biosynthesis in cigar tobacco leaves under variable nitrogen regimes.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1589215

By:

Jia, Kai;
Shi, Juanjuan;
Bai, Lingli;
Wang, Xueren;
Wang, Yuemin;
Li, Xiangzhen;
Li, Wenqing;
Zheng, Chaoyuan

Publication type:

Article

Insights into the evolution and regulation of miRNAs from the view of their DNA replication temporal domains.

Published in:

Frontiers in Genetics, 2025, p. 1, doi. 10.3389/fgene.2025.1544802

By:

Wu, Xudong;
Liu, Tingting

Publication type:

Article

The human infertility single‐cell testis atlas (HISTA): an interactive molecular scRNA‐Seq reference of the human testis.

Published in:

Andrology, 2025, v. 13, n. 5, p. 1190, doi. 10.1111/andr.13637

By:

Mahyari, Eisa;
Vigh‐Conrad, Katinka A.;
Daube, Clément;
Lima, Ana C.;
Guo, Jingtao;
Carrell, Douglas T.;
Hotaling, James M.;
Aston, Kenneth I.;
Conrad, Donald F.

Publication type:

Article

Early transcriptional responses reveal cell type-specific vulnerability and neuroprotective mechanisms in the neonatal ischemic hippocampus.

Published in:

Acta Neuropathologica Communications, 2025, v. 13, n. 1, p. 1, doi. 10.1186/s40478-025-02062-4

By:

Ianevski, Aleksandr;
Cámara-Quílez, María;
Wang, Wei;
Suganthan, Rajikala;
Hildrestrand, Gunn;
Grini, Jonas Viken;
Døskeland, Dagny Sanden;
Ye, Jing;
Bjørås, Magnar

Publication type:

Article

Genetic and transcriptome analyses of the effect of genotype-by-environment interactions on Brassica napus seed oil content.

Published in:

Plant Cell, 2025, v. 37, n. 4, p. 1, doi. 10.1093/plcell/koaf062

By:

Han, Xu;
Wu, Xiaowei;
Zhang, Yawen;
Tang, Qingqing;
Zeng, Lingju;
Liu, Yunhao;
Xiang, Yuyan;
Hou, Keqin;
Fang, Shuai;
Lei, Weixia;
Li, Haojie;
Tang, Shan;
Zhao, Hu;
Peng, Yan;
Yao, Xuan;
Guo, Tingting;
Zhang, Yuan-Ming;
Guo, Liang

Publication type:

Article

scNucMap: mapping the nucleosome landscapes at single-cell resolution Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 6, p. 1, doi. 10.1093/bioinformatics/btaf324

By:

Xiang, Qianming;
Lai, Binbin

Publication type:

Article

BiGSM: Bayesian inference of gene regulatory network via sparse modelling Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 6, p. 1, doi. 10.1093/bioinformatics/btaf318

By:

Qin, Hang;
Garbulowski, Mateusz;
Sonnhammer, Erik L L;
Chatterjee, Saikat

Publication type:

Article

TRENDY: gene regulatory network inference enhanced by transformer Open Access.

Published in:

Bioinformatics, 2025, v. 41, n. 6, p. 1, doi. 10.1093/bioinformatics/btaf314

By:

Tian, Xueying;
Patel, Yash;
Wang, Yue

Publication type:

Article

Molecular mechanisms of s-methoprene-induced growth inhibition in Ephestia elutella (Hübner) (Lepidoptera: Pyralidae): insights from transcriptomic analysis Open Access.

Published in:

Journal of Insect Science, 2025, v. 25, n. 3, p. 1, doi. 10.1093/jisesa/ieaf035

By:

Huang, Chao;
Lü, Jianhua;
Bai, Chunqi;
Guo, Yafei;
Guo, Chao;
Song, Jizhen;
Xi, Jiaqin

Publication type:

Article

Generalized information criteria for personalized gene network inference.

Published in:

Frontiers in Genetics, 2025, p. 1, doi. 10.3389/fgene.2025.1583756

By:

Park, Heewon;
Imoto, Seiya;
Konishi, Sadanori

Publication type:

Article

Identification and validation of key genes involved in cellular senescence in multiple sclerosis using bioinformatics.

Published in:

Journal of Chinese Pharmaceutical Sciences, 2025, v. 34, n. 6, p. 530, doi. 10.5246/jcps.2025.06.040

By:

Xiaoqin Zhang;
Qiuhong Qin;
Xiaojie Li;
Jiangang Yang;
Jibin Ma;
Jianping Ren

Publication type:

Article

Joint analysis of transcriptome and metabolome on the accumulation mechanism of flavonoids in quinoa seedlings under flooding stress.

Published in:

BMC Plant Biology, 2025, v. 25, n. 1, p. 1, doi. 10.1186/s12870-025-06867-2

By:

Wang, Xuqin;
Zhang, Ping;
Qin, Zhiwei;
Jiang, Guofei;
Bai, Yutao;
Zhang, Lingyuan;
Liu, Junna;
Li, Li;
Li, Hanxue;
Huang, Liubin;
Yang, Jie;
Xie, Yuming;
Zhou, Jianlong;
Xia, Huanyao;
Qin, Peng

Publication type:

Article

Analysing the loss of embryogenic competence in long-term cell lines of Solanum betaceum Cav.: involvement of miR827, phosphate and sugar.

Published in:

BMC Plant Biology, 2025, v. 25, n. 1, p. 1, doi. 10.1186/s12870-025-06786-2

By:

Cordeiro, Daniela;
Canhoto, Jorge;
Correia, Sandra

Publication type:

Article

OsMADS55 nuclear translocation enhances OsATL15‐mediated thiamethoxam uptake in rice for controlling the brown planthopper.

Published in:

New Phytologist, 2025, v. 247, n. 3, p. 1382, doi. 10.1111/nph.70234

By:

Xiao, Yuyan;
Li, Zepu;
Deng, Shuqi;
Wang, Keyi;
Huang, Tinghong;
Liu, Linchuan;
Li, Youzhi;
Akihiro, Takashi;
Jia, Chunsheng;
Lin, Fei;
Xu, Hanhong

Publication type:

Article

Bridging aging, immunity, and atherosclerosis: novel insights into senescence-related genes.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1557266

By:

Lu, Yan;
Yuan, Rong;
Xin, Qiqi;
Chen, Keji;
Cong, Weihong

Publication type:

Article

Identification of biomarkers associated with mitochondrial dysfunction and programmed cell death in chronic obstructive pulmonary disease via transcriptomics.

Published in:

Frontiers in Genetics, 2025, p. 1, doi. 10.3389/fgene.2025.1567173

By:

Yang, Xiaojuan;
Duan, Yutao;
Qiu, Lei;
Huang, Xia;
Li, Fei

Publication type:

Article

Meta-analysis of probiotics metabolites in gastrointestinal tract and metabolic health.

Published in:

Frontiers in Cellular & Infection Microbiology, 2025, p. 1, doi. 10.3389/fcimb.2025.1619501

By:

Ma, Xiangning;
Zhang, Hongjun

Publication type:

Article

Epilepsy Gene Discovery Needs Another Big Leap Forward.

Published in:

Epilepsy Currents, 2025, v. 25, n. 3, p. 201, doi. 10.1177/15357597251325685

By:

Frankel, Wayne N.

Publication type:

Article

Machine learning-based integration identifies plasma cells-related gene signature ST6GAL1 in idiopathic pulmonary fibrosis.

Published in:

BMC Pulmonary Medicine, 2025, v. 25, n. 1, p. 1, doi. 10.1186/s12890-025-03696-9

By:

Lin, Fanjie;
Lin, Ken;
Li, Donglei;
Kong, Weiguo;
Zhuang, Jiayu;
He, Wei;
Wei, Xinguang;
Xiao, Tianchi;
Zu, Hao;
Zhang, Zili;
Lu, Wenju

Publication type:

Article

Comparative transcriptomic analysis reveals the important role of hepatic fatty acid metabolism in the acute heat stress response in chickens.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11832-2

By:

Mei, Zi;
Song, Zhenquan;
Zhou, Haobo;
Zheng, Bin;
Xiong, Yiwei;
Sheng, Zheya;
Gong, Yanzhang

Publication type:

Article

Site- and cell-type-specific miRNA and mRNA genes and networks across the cortex, striatum, and hypothalamus.

Published in:

Communications Biology, 2025, v. 8, n. 1, p. 1, doi. 10.1038/s42003-025-08371-7

By:

Zacharias, Amanda M.;
O'Connor, Ciara D.;
Topouza, Danai G.;
Fang, Zhi Yi;
Ghazinejad, Helia;
Chen, Hanlin;
Duan, Qingling;
Ghasemlou, Nader

Publication type:

Article

A cross-talk established by tumor-targeted cytokines rescues CAR T cell activity and engages host T cells against glioblastoma in mice.

Published in:

Science Translational Medicine, 2025, v. 17, n. 805, p. 1, doi. 10.1126/scitranslmed.ado9511

By:

Rossari, Federico;
Alvisi, Giorgia;
Cusimano, Melania;
Beretta, Stefano;
Birocchi, Filippo;
Ambrosecchia, Deborah I.;
Vitaloni, Ottavia;
Brombin, Chiara;
Rancoita, Paola Maria Vittoria;
Canu, Tamara;
Orofino, Giorgio;
Annoni, Andrea;
Gentner, Bernhard;
Squadrito, Mario Leonardo;
Genua, Marco;
Ostuni, Renato;
Merelli, Ivan;
Coltella, Nadia;
Naldini, Luigi

Publication type:

Article

Integrating bioinformatics and machine learning to investigate the mechanisms by which three major respiratory infectious diseases exacerbate heart failure.

Published in:

Scientific Reports, 2025, v. 15, n. 1, p. 1, doi. 10.1038/s41598-025-07090-7

By:

Yu, Yiding;
Han, Quancheng;
Zhang, Juan;
Shi, Jingle;
Yuan, Huajing;
Xue, Yitao;
Li, Yan

Publication type:

Article

Exploring the molecular mechanisms of comorbidity between thyroid cancer and breast cancer through multi-omics data.

Published in:

Scientific Reports, 2025, v. 15, n. 1, p. 1, doi. 10.1038/s41598-025-06566-w

By:

Yang, Rui;
Li, Jiayi;
Zhang, Hongyang;
Liu, Huan;
Lian, Bin;
Li, Jinping

Publication type:

Article

Identification and verification of oxidative stress-related genes in the diagnosis of osteoporosis.

Published in:

Scientific Reports, 2025, v. 15, n. 1, p. 1, doi. 10.1038/s41598-025-06118-2

By:

Liu, Zhenchuan;
Yang, Xu;
Wang, Zexin;
Li, Qi;
Gu, Hanwen;
Meng, Qunbo;
Zhang, Yuanqiang

Publication type:

Article

Building a Hand-Curated ceRNET for Endometrial Cancer, Striving for Clinical as Well as Medicolegal Soundness: A Systematic Review.

Published in:

Non-Coding RNA, 2025, v. 11, n. 3, p. 34, doi. 10.3390/ncrna11030034

By:

Piergentili, Roberto;
Sechi, Stefano;
De Paola, Lina;
Zaami, Simona;
Marinelli, Enrico

Publication type:

Article

Integrating Equation Coding with Residual Networks for Efficient ODE Approximation in Biological Research.

Published in:

Mathematical & Computational Applications, 2025, v. 30, n. 3, p. 47, doi. 10.3390/mca30030047

By:

Yi, Ziyue

Publication type:

Article

A novel gene signature for forecasting time to next relapse in multiple sclerosis using peripheral blood mononuclear cells.

Published in:

BMC Neurology, 2025, v. 25, n. 1, p. 1, doi. 10.1186/s12883-025-04231-3

By:

Zhang, Huimin;
Yang, Jiahui;
Zhang, Xiaobo;
Wu, Chaoyi;
Zhao, Zhen;
Yang, Ming;
Wu, Zhaoping

Publication type:

Article

Transcriptome and co-expression network analysis reveal the genetic basis of cell wall components in maize stalks.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11816-2

By:

He, Yao;
Deng, Zhike;
He, Shijiang;
Qi, Zhaojie;
Chang, Hengshuo;
Liu, Peng;
Chen, Zhong;
Zou, Chaoying;
Shen, Yaou;
Ma, Langlang

Publication type:

Article

RNA binding protein HuR regulated by OIP5-AS1 may be involved in maternal transcript degradation during the human maternal-to-zygotic transition.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11807-3

By:

Liu, Yan-na;
Li, Ke-Yi;
Wei, Hao;
Li, Wen-xiu;
Zhang, Yue-hua;
Qiu, Jia-jun;
Zeng, Fanyi;
Yan, Jing-bin

Publication type:

Article