Works matching DE "GENE regulatory networks"

Results: 5000

Graph-Based Approaches in Bioinformatics.

Published in:

Ecology, Environment & Conservation (0971765X), 2025, v. 31, p. S349, doi. 10.53550/EEC.2025.v31i03s.057

By:

Jayakar, Meghna B.;
Subhash, Shruthi

Publication type:

Article

Integrative bioinformatics and machine learning identify iron metabolism genes MAP4, GPT, and HIRIP3 as diagnostic biomarkers and therapeutic targets in Alzheimer's disease.

Published in:

Frontiers in Cellular Neuroscience, 2025, p. 1, doi. 10.3389/fncel.2025.1610682

By:

An, Xiaoqiong;
Zeng, Xiangguang;
Yi, Zhenzhen;
Cao, Manni;
Wang, Yijia;
Yu, Wenfeng;
Ren, Zhenkui

Publication type:

Article

The rice miR171b-SCL6-IIs module controls blast resistance, grain yield, and flowering.

Published in:

Crop Journal (2095-5421), 2022, v. 10, n. 1, p. 117, doi. 10.1016/j.cj.2021.05.004

By:

Yan Li;
Ying Tong;
Xiaorong He;
Yong Zhu;
Tingting Li;
Xiaoyu Lin;
Wei Mao;
Nabi Gishkori, Zeeshan Ghulam;
Zhixue Zhao;
Jiwei Zhang;
Yanyan Huang;
Mei Pu;
Jing Fan;
Jing Wang;
Wenming Wang

Publication type:

Article

Identification of a circRNA-miRNA-mRNA interactome associated with Parkinson's disease progression.

Published in:

Journal of Parkinson's Disease, 2025, v. 15, n. 3, p. 495, doi. 10.1177/1877718X251331930

By:

Shrestha, Lisa;
Leier, André

Publication type:

Article

A network-based approach to discover diagnostic metabolite markers associated with depressive features for major depressive disorder.

Published in:

Frontiers in Psychiatry, 2025, p. 1, doi. 10.3389/fpsyt.2025.1610520

By:

Zheng, Yuzhen;
Zeng, Duan;
Tian, Ying;
Li, Siyuan;
He, Shen;
Li, Huafang

Publication type:

Article

Interrogation of macrophage-related prognostic signatures reveals a potential immune-mediated therapy strategy by histone deacetylase inhibition in glioma.

Published in:

Frontiers in Oncology, 2025, p. 1, doi. 10.3389/fonc.2025.1554845

By:

Wang, Xisen;
Wang, Xuya;
Chen, Lei;
Ding, Haozhe;
Fan, Jikang;
Liang, Jianshen;
Zhang, Yu;
Li, Yiming;
Zhang, Yiming;
Yu, Shengping;
Zhang, Chen;
Li, Yaohua;
Li, Tao;
Yang, Xuejun

Publication type:

Article

The role and prognostic value of PANoptosis-related genes in skin cutaneous melanoma.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1605977

By:

Feng, Huijing;
Jia, Linzi;
Ma, Yanan;
Liu, Pengmin;
Yang, Xiaoling;
Hu, Lina;
Xu, Kai;
Yang, Fan;
Zhang, Dongfeng;
Li, Jian;
Mei, Qi;
Han, Fei

Publication type:

Article

ANÁLISIS DE REDES COMPLEJAS PARA GENES ORTÓLOGOS EN VERTEBRADOS: UN ESTUDIO A NIVEL GENÉTICO DE LA EVOLUCIÓN.

Published in:

Acta Biológica Colombiana, 2025, v. 30, n. 1, p. 39, doi. 10.15446/abc.v30n1.111588

By:

ORJUELA VÁSQUEZ, Juan;
HURTADO-GIRALDO, Jaime;
BUCHELI, Víctor

Publication type:

Article

Time-course transcriptome landscape of achene development in lettuce.

Published in:

Horticulture Plant Journal, 2022, v. 8, n. 1, p. 99, doi. 10.1016/j.hpj.2021.06.003

By:

Chen Luo;
Shenglin Wang;
Kang Ning;
Zijing Chen;
Jingjing Yang;
Yixin Wang;
Meixia Qi;
Qian Wang

Publication type:

Article

Prognostic related signature predicts the benefits of immunotherapy for kidney renal clear cell carcinoma.

Published in:

Discover Oncology, 2025, v. 16, n. 1, p. 1, doi. 10.1007/s12672-025-02991-5

By:

Xiong, Feng;
Wang, Bowen;
Zhang, Haoxun;
Zhang, Guoling;
Tao, Boju;
Liu, Yiwen;
Wang, Chunyang

Publication type:

Article

Sphingolipid metabolism-related genes for the diagnosis of metabolic syndrome by integrated bioinformatics analysis and Mendelian randomization identification.

Published in:

Diabetology & Metabolic Syndrome, 2025, v. 17, n. 1, p. 1, doi. 10.1186/s13098-025-01803-8

By:

Li, Weidong;
Zhong, Qixing;
Deng, Naisheng;
Zhou, Xinhao;
Wang, Haitao;
Ouyang, Jun;
Guan, Zhifen;
Cheng, Bohao;
Xiang, Lijun;
Huang, Yueming;
Wang, Yao

Publication type:

Article

Cell identity and 5-hydroxymethylcytosine.

Published in:

Epigenetics & Chromatin, 2025, v. 18, n. 1, p. 1, doi. 10.1186/s13072-025-00601-w

By:

Honig, Floris;
Murrell, Adele

Publication type:

Article

An all-in-one MnO₂-DNA assembly nanoplatform for imaging, detection, and gene-chemodynamic combination therapy of MCF-7 cells.

Published in:

Microchimica Acta, 2025, v. 192, n. 6, p. 1, doi. 10.1007/s00604-025-07282-y

By:

Zhang, Ruyan;
Zhang, Zhiqing;
Zhang, Guodong;
Zhuang, Jingyun;
Huo, Xiaobing;
Ning, Gan;
Weng, Tianxin;
Wang, Xiufeng;
Zhou, Ting;
Wang, Fang

Publication type:

Article

Integrated machine learning and single-cell RNA sequencing reveal COL4A2 and CXCL6 as oxidative stress-associated biomarkers in periodontitis.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1598642

By:

Sun, Siyu;
Ren, Jing;
Zeng, Xiujuan;
Chen, Yanbin;
Zhou, Qianbing;
Yang, Junying;
Chen, Shan

Publication type:

Article

Identification of key genes in membranous nephropathy and non-alcoholic fatty liver disease by bioinformatics and machine learning.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1564288

By:

Fan, Jiachen;
Li, Na;
Lu, Yanfang;
Cao, Huixia

Publication type:

Article

The Molecular Substrates of Second-Order Conditioned Fear in the Basolateral Amygdala Complex.

Published in:

Journal of Neuroscience, 2025, v. 45, n. 25, p. 1, doi. 10.1523/JNEUROSCI.1087-24.2025

By:

Leake, Jessica;
Shvetcov, Artur;
Clemens, Kelly J.;
Kershaw, Kelly;
Westbrook, R. Frederick;
Holmes, Nathan M.

Publication type:

Article

CYBB identified as a key immune hub gene linking lung cancer and atrial fibrillation.

Published in:

Journal of Cardiothoracic Surgery, 2025, v. 20, n. 1, p. 1, doi. 10.1186/s13019-025-03510-x

By:

Lang, Tong;
Meng, Lingbing

Publication type:

Article

Comprehensive pan-cancer analysis and experimental validation reveal FCHSD1 as a potential biomarker for diagnosis, immune infiltration, and prognosis.

Published in:

Frontiers in Oncology, 2025, p. 1, doi. 10.3389/fonc.2025.1547067

By:

Liu, Ming;
Ding, Guixin;
Tang, Gonglin;
Liu, Shangjing;
Mao, Qiancheng;
Wang, Xidong;
Zou, Qingsong;
Wu, Jitao

Publication type:

Article

ANALYSIS OF ARCHAEAL DIVERSITY AND ITS INFLUENCING FACTORS IN THE SOIL OF NY-ÅLESUND MELTWATER AREAS IN ARCTIC NORWAY.

Published in:

Applied Ecology & Environmental Research, 2025, v. 23, n. 3, p. 4167, doi. 10.15666/aeer/2303_41674181

By:

XU, X.;
XING, L.;
QIN, Y.;
ZHANG, H.;
WANG, J.;
ZHANG, X.;
KONG, L.;
LI, X.;
WANG, N.

Publication type:

Article

Efficient expression of recombinant proteins in Bacillus subtilis using a rewired gene circuit of quorum sensing.

Published in:

Biotechnology Progress, 2025, v. 41, n. 3, p. 1, doi. 10.1002/btpr.70007

By:

Hao, Wenliang;
Yang, Shihao;
Sheng, Yuou;
Ye, Chengfeng;
Han, Laichuang;
Zhou, Zhemin;
Cui, Wenjing

Publication type:

Article

The PavMYB.C2-UFGT module contributes to fruit coloration via modulating anthocyanin biosynthesis in sweet cherry.

Published in:

PLoS Genetics, 2025, v. 21, n. 6, p. 1, doi. 10.1371/journal.pgen.1011761

By:

Pei, Yangang;
Tang, Wanjia;
Huang, Yidi;
Li, Hongfen;
Liu, Xiaowei;
Chen, Hongxu;
He, Runmei;
Niu, Wenyi;
Du, Quanyan;
Chu, Yizhe;
Deng, Heng;
Liu, Mingchun;
Gong, Ronggao

Publication type:

Article

A comprehensive bioinformatics analysis of fatty acid metabolism-associated genes in the diagnosis and prognosis of head and neck squamous cell carcinoma.

Published in:

Research in Pharmaceutical Sciences, 2025, v. 20, n. 3, p. 356, doi. 10.4103/RPS.RPS_209_23

By:

Fesharaki, Shirin Alsadat Hashemi;
Abari, Sara Kiani;
Yazdani, Behnaz;
Farajollahi, Hadi;
Kalashami, Fatemeh Padidari;
Zadsar, Anahita;
Sirous, Hajar

Publication type:

Article

Identification of Therapeutic Targets in Autism Spectrum Disorder through CHD8-Notch Pathway Interaction Analysis.

Published in:

PLoS ONE, 2025, v. 20, n. 6, p. 1, doi. 10.1371/journal.pone.0325893

By:

Zhang, Hewei;
Hua, Shenghao;
Jiao, Daiyan;
Chen, Dong;
Gu, Qin;
Bao, Chao

Publication type:

Article

Identification and validation of differentially expressed genes in intramuscular fat metabolism in Guizhou yellow chickens using RNA-Seq analysis.

Published in:

PLoS ONE, 2025, v. 20, n. 6, p. 1, doi. 10.1371/journal.pone.0326128

By:

Tian, Yingping;
Wang, Xiaoya;
Rao, Yongchao;
Zhou, Xiaohong;
Jiang, Yaozhou;
Liu, Qinsong;
Wu, Sheng;
Zhang, Fuping

Publication type:

Article

Passivity analysis of discrete-time genetic regulatory networks with reaction-diffusion coupling and delay-dependent stability criteria.

Published in:

Electronic Research Archive, 2025, v. 33, n. 5, p. 1, doi. 10.3934/era.2025136

By:

Yang, Yongwei;
Yu, Yang;
Xu, Chunyun;
Zou, Chengye

Publication type:

Article

Shared Genetic Characteristics of Coronary Artery Disease and Peripheral artery Disease: Insights From Integrated Bioinformatics Analysis of RNA-Sequencing Data.

Published in:

Bioinformatics & Biology Insights, 2025, p. 1, doi. 10.1177/11779322251344123

By:

Nawabi, Abdul Qadir;
Chen, Lijuan

Publication type:

Article

Prognostic analysis of bladder cancer with neddylation-related genes.

Published in:

Hereditas, 2025, v. 162, n. 1, p. 1, doi. 10.1186/s41065-025-00463-y

By:

Xiaolong, Huang;
Min, Deng;
Sizhou, Zhang;
Daorong, Hu;
Juncheng, Pan;
Yanjian, Wang;
Hong, Li Jie Gu;
Ji, Zheng;
Qingjian, Wu

Publication type:

Article

Genome-wide transcriptome analysis reveal the molecular mechanism for triggering the formation of purple leaves in rice mutants nip-lpl and nip-dpl.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1584423

By:

Wang, Chengyu;
Zhao, Hongyu;
Zhou, Yujie;
Zhang, Haipeng;
Chen, Xinyu;
Liang, Weifang;
Zheng, Han;
Hou, Fan;
Zhang, Junjie;
Xie, Liujie;
Zhao, Mingwei;
Zheng, Bingsong;
Li, Jianzhong

Publication type:

Article

Translational studies on pancreatic cancer and gastric cancer: a methodology in PhD thesis.

Published in:

Frontiers in Pharmacology, 2025, p. 1, doi. 10.3389/fphar.2025.1604017

By:

Resell, Mathilde;
Qvigstad, Gunnar;
Wang, Timothy C.;
Quante, Anne S.;
González-Fernández, África;
Waldum, Helge;
Chen, Duan;
Zhao, Chun-Mei

Publication type:

Article

Transcriptional regulatory logic orchestrating lymphoid and myeloid cell fate decisions.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1544483

By:

Godini, Rasoul;
Yan, Jingjing;
Chopin, Michaël

Publication type:

Article

Integrative transcriptomics and single-cell transcriptomics analyses reveal potential biomarkers and mechanisms of action in papillary thyroid carcinoma.

Published in:

Frontiers in Genetics, 2025, p. 1, doi. 10.3389/fgene.2025.1536198

By:

Cao, Wanchen;
Gao, Kai;
Zhao, Yi

Publication type:

Article

基于微阵列数据的circRNA-miRNA-mRNA竞争性内源RNA网络构建及其与自身免疫性肝炎小鼠模型肝损伤的相关性分析

Published in:

Journal of Clinical Hepatology / Linchuang Gandanbing Zazhi, 2025, v. 41, n. 5, p. 878, doi. 10.12449/JCH250513

By:

郭, 地;
刘, 莹;
刘, 杨

Publication type:

Article

Epigenetic changes and serotype-specific responses of alveolar type II epithelial cells to Streptococcus pneumoniae in resolving influenza A virus infection.

Published in:

Cell Communication & Signaling, 2025, v. 23, n. 1, p. 1, doi. 10.1186/s12964-025-02284-y

By:

Boehme, Julia D;
Jeron, Andreas;
Schultz, Kristin;
Melcher, Lars;
Schott, Katharina;
Gelmez, Elif;
Kröger, Andrea;
Stegemann-Koniszewski, Sabine;
Bruder, Dunja

Publication type:

Article

Repurposing the memory-promoting meclofenoxate hydrochloride as a treatment for Parkinson's disease through integrative multi-omics analysis.

Published in:

NPJ Parkinson's Disease, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41531-025-01027-7

By:

Zhang, Huasong;
Fan, Cong;
Li, Ling;
Liu, Feiyi;
Li, Shaoying;
Ma, Linyun;
Yang, Yuanhao;
Cooper, David N.;
Yang, Yuedong;
Hu, Ronggui;
Zhao, Huiying

Publication type:

Article

MAFB: a key regulator of myeloid commitment involved in hematological diseases.

Published in:

Cell Death Discovery, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41420-025-02551-4

By:

Ventura, Antonio Benedetto;
Loconte, Tiziana;
Negri, Antonio;
Viggiano, Luigi;
Fiermonte, Giuseppe;
Ciavarella, Sabino;
Guarini, Attilio;
Volpe, Giacomo

Publication type:

Article

Genome mining based on transcriptional regulatory networks uncovers a novel locus involved in desferrioxamine biosynthesis.

Published in:

PLoS Biology, 2025, v. 23, n. 6, p. 1, doi. 10.1371/journal.pbio.3003183

By:

Augustijn, Hannah E.;
Reitz, Zachary L.;
Zhang, Le;
Boot, Jeanine A.;
Elsayed, Somayah S.;
Challis, Gregory L.;
Medema, Marnix H.;
van Wezel, Gilles P.

Publication type:

Article

Identification of mitophagy-related biomarkers in severe acute pancreatitis: integration of WGCNA, machine learning algorithms and scRNA-seq.

Published in:

Frontiers in Immunology, 2025, p. 1, doi. 10.3389/fimmu.2025.1594085

By:

Xie, Xiaozhou;
Wang, Zheng;
Zhang, Haoyu;
Lu, Jiongdi;
Cao, Feng;
Li, Fei

Publication type:

Article

Integrated Analysis of Differential Expression Profiles of miRNA and mRNA in Gonads of Scatophagus argus Provides New Insights into Sexually Biased Gene Expression.

Published in:

Animals (2076-2615), 2025, v. 15, n. 11, p. 1564, doi. 10.3390/ani15111564

By:

Lei, Yaling;
Jiao, Kaizhi;
Huang, Yuanqing;
Wu, Yuwei;
Shi, Gang;
Shi, Hongjuan;
Chen, Huapu;
Deng, Siping;
Li, Guangli;
Tao, Wenjing;
Jiang, Dongneng

Publication type:

Article

Construction of Coexpression Networks Affecting Litter Size in Goats Based on Transcriptome Analysis.

Published in:

Animals (2076-2615), 2025, v. 15, n. 11, p. 1505, doi. 10.3390/ani15111505

By:

Ren, Yifan;
He, Junmin;
Liu, Guifen;
Wei, Chen;
Li, Xue;
Mao, Jingyi;
Zhang, Guoping;
Zhang, Wenhao;
Long, Li;
Wang, Ming;
Tian, Kechuan;
Huang, Xixia

Publication type:

Article

GePIF4 Increases the Multi-Flower/Capsule-Bearing Traits and Gastrodin Biosynthesis in Gastrodia elata.

Published in:

Plants (2223-7747), 2025, v. 14, n. 11, p. 1684, doi. 10.3390/plants14111684

By:

Xu, Yue;
Wu, Zhiqing;
Gao, Yugang;
Zang, Pu;
Yang, Xinyu;
Zhao, Yan;
Liu, Qun

Publication type:

Article

Unraveling the Multilayered Regulatory Networks of miRNAs and PhasiRNAs in Ginkgo biloba.

Published in:

Plants (2223-7747), 2025, v. 14, n. 11, p. 1650, doi. 10.3390/plants14111650

By:

Wei, Qixuan;
Xu, Ang;
Zhao, Anqi;
Shi, Lisha;
Wang, Qi;
Yang, Xiaoming;
Ming, Meiling;
Xue, Liangjiao;
Cao, Fuliang;
Fu, Fangfang

Publication type:

Article

Elucidating the Molecular Mechanisms of Physiological Fruit Abscission in Actinidia arguta Through Comparative Transcriptomics and Transient Genetic Transformation.

Published in:

Plants (2223-7747), 2025, v. 14, n. 11, p. 1645, doi. 10.3390/plants14111645

By:

Yuan, Pengqiang;
Wang, Yanli;
Sun, Yining;
Liu, Guoliang;
Qin, Hongyan;
Fan, Shutian;
Yan, Yiping;
Sun, Bowei;
Lu, Wenpeng

Publication type:

Article

Synergistic Response Mechanisms in Rice Seedlings Exposed to Brown Planthopper Infestation and High-Temperature Stress.

Published in:

Plants (2223-7747), 2025, v. 14, n. 11, p. 1644, doi. 10.3390/plants14111644

By:

Cao, Danyun;
Ping, Yuchen;
Lin, Yiru;
Hu, Jinyan;
Wang, Zimeng;
Yuan, Wei;
Li, Tongtong;
Liu, Linxin;
Zhang, Bo;
Xiong, Shijiao;
Dang, Cong;
Xue, Dawei

Publication type:

Article

Transcriptome and Co-Expression Network Analyses of Resistant and Susceptible Rice Cultivars in Response to Meloidogyne graminicola.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 11, p. 5315, doi. 10.3390/ijms26115315

By:

Zhang, Shirui;
Xiao, Zitong;
Shen, Kexiang;
Lai, Wentao;
Du, Shunbiao;
Zhou, Linyan;
Chen, Jiansong

Publication type:

Article

The Light-Regulated SsMYB106 Transcription Factor Promotes Flavonoids in Spatholobus suberectus.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 11, p. 5292, doi. 10.3390/ijms26115292

By:

Qin, Shuangshuang;
Liang, Ying;
Wei, Fan;
Wei, Guili;
Lin, Quan;
Chen, Xiaoying

Publication type:

Article

Transcriptome Analysis Reveals Co-Expression Regulation of Sugar Transport and Signaling Networks in Initiating Stolon-to-Tuber Transition in Potato.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 11, p. 5278, doi. 10.3390/ijms26115278

By:

Hu, Jun;
Hu, Jinxue;
Duan, Shaoguang;
Xiang, Congchao;
Duan, Yanfeng;
Zhang, Shuqing;
Li, Guangcun

Publication type:

Article

Machine Learning-Based Analysis of Differentially Expressed Genes in the Muscle Transcriptome Between Beef Cattle and Dairy Cattle.

Published in:

International Journal of Molecular Sciences, 2025, v. 26, n. 11, p. 5046, doi. 10.3390/ijms26115046

By:

Li, Shuai;
Guo, Yaqiang;
Huo, Chenxi;
Zhu, Lin;
Shi, Caixia;
Na, Risu;
Gu, Mingjuan;
Zhang, Wenguang

Publication type:

Article

Identification and Analysis of Key miRNA for Sex Differentiation in Hermaphroditic Juglans mandshurica Maxim.

Published in:

Plant Molecular Biology Reporter, 2025, v. 43, n. 2, p. 777, doi. 10.1007/s11105-024-01510-0

By:

Li, Jingze;
Zhang, Mengmeng;
Wu, Jingwen;
Qin, Baiting;
Liu, ChunPing;
Zhang, Lijie

Publication type:

Article

Computational modeling and dynamical analysis for B. subtilis competence genic regulation circuit with multiple time delays and external noisy regulation.

Published in:

Journal of Bioinformatics & Computational Biology, 2025, v. 23, n. 2, p. 1, doi. 10.1142/S0219720025500052

By:

Zhao, Na;
Liu, Haihong;
Yan, Fang

Publication type:

Article

Watkins wheat landraces decode nitrogen-driven biomass trade-offs: GWAS exposes root-shoot dialectics and elite landraces for resilient agriculture.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1603577

By:

Waheed, Abdul;
Iqbal, Muhammad Shahid;
Sarfraz, Zareen;
Hou, Junliang;
Wei, Yanping;
Song, Bo;
Cheng, Shifeng

Publication type:

Article