Works matching DE "GENE regulatory networks"

Results: 5000

Epiregulon: Single-cell transcription factor activity inference to predict drug response and drivers of cell states.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-025-62252-5

By:

Włodarczyk, Tomasz;
Lun, Aaron;
Wu, Diana;
Shi, Minyi;
Ye, Xiaofen;
Menon, Shreya;
Toneyan, Shushan;
Seidel, Kerstin;
Wang, Liang;
Tan, Jenille;
Chen, Shang-Yang;
Keyes, Timothy;
Chlebowski, Aleksander;
Waddell, Adrian;
Zhou, Wei;
Wang, Yangmeng;
Yuan, Qiuyue;
Guo, Yu;
Chen, Liang-Fu;
Daniel, Bence

Publication type:

Article

Drug repositioning based on mutual information for the treatment of Alzheimer's disease patients.

Published in:

Medical & Biological Engineering & Computing, 2025, v. 63, n. 8, p. 2249, doi. 10.1007/s11517-025-03325-x

By:

Cava, Claudia;
Castiglioni, Isabella

Publication type:

Article

Molecular mechanism of nano-vitamin A-mediated regulation of intramuscular fat deposition involving noncoding RNAs in pigs.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11898-y

By:

Li, Meng;
Cai, Wenrun;
Li, Ruotong;
Zhao, Wenye;
Zhang, Jiaxin;
Rong, Xiaoyin;
Zhang, Ting;
Yang, Yang;
Li, Bugao;
Guo, Xiaohong

Publication type:

Article

Cross-species analysis of abiotic stress in hydroponic leafy crops reveals conserved regulatory networks and key divergences.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1613016

By:

Lee, Jia Min;
Goh, Jong Ching;
Koh, Eugene;
Mutwil-Anderwald, Daniela;
Mutwil, Marek

Publication type:

Article

Hsa_circ_0006834 represses intrahepatic cholangiocarcinoma proliferation through activating AMPK-mTOR pathway and autophagy via has-miR-637-NGFR network.

Published in:

PLoS ONE, 2025, v. 20, n. 8, p. 1, doi. 10.1371/journal.pone.0329847

By:

Wang, Ji;
Qi, Xinyue;
Zhao, Wangqian;
Hao, Ziyan;
Wang, Kehan;
Li, Yuting;
Wang, Yue;
Zhang, Yunshan

Publication type:

Article

Dynamic epigenomic landscape and gene regulatory networks during embryonic development in Pacific white shrimp (Litopenaeus vannamei) as revealed by histone modification profiling using CUT&Tag.

Published in:

Epigenetics & Chromatin, 2025, v. 18, n. 1, p. 1, doi. 10.1186/s13072-025-00615-4

By:

Shi, Jiale;
Qi, Zhangru;
Yin, Miaomiao;
Zeng, Qifan;
Hu, Jingjie;
Bao, Zhenmin;
Ye, Zhi

Publication type:

Article

Integrated analysis of microRNA and mRNA interactions regulating fecundity in the ovaries of two distinct sheep breeds.

Published in:

BMC Genomics, 2025, v. 26, n. 1, p. 1, doi. 10.1186/s12864-025-11408-0

By:

Yousuf, Salsabeel;
Malik, Waqar Afzal;
Feng, Hui;
Liu, Tianyi;
Xie, Lingli;
Miao, Xiangyang

Publication type:

Article

Human umbilical cord mesenchymal stem cells ameliorate liver fibrosis by inhibiting hepatocyte ferroptosis and macrophage polarization via the miR-455-3p/PLAU axis.

Published in:

Stem Cell Research & Therapy, 2025, v. 16, n. 1, p. 1, doi. 10.1186/s13287-025-04526-9

By:

Zhang, Yong;
Dou, Jin;
Dai, Shipeng;
Xie, Yuchen;
Wang, Hongyu;
Chen, Zhongda;
Zhuang, Haiwen;
Xu, Sanrong

Publication type:

Article

Cross-species analysis of abiotic stress in hydroponic leafy crops reveals conserved regulatory networks and key divergences.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1613016

By:

Lee, Jia Min;
Goh, Jong Ching;
Koh, Eugene;
Mutwil-Anderwald, Daniela;
Mutwil, Marek

Publication type:

Article

Cross-species analysis of abiotic stress in hydroponic leafy crops reveals conserved regulatory networks and key divergences.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1613016

By:

Lee, Jia Min;
Goh, Jong Ching;
Koh, Eugene;
Mutwil-Anderwald, Daniela;
Mutwil, Marek

Publication type:

Article

Machine learning-enhanced discovery of tsRNA-mRNA regulatory networks: identifying novel diagnostic biomarkers and therapeutic targets in breast cancer.

Published in:

Frontiers in Pharmacology, 2025, p. 1, doi. 10.3389/fphar.2025.1640192

By:

Ma, Zhongling;
Wang, Rui;
Yuan, Ming;
Wang, Bo;
Li, Li;
Zhao, Tianfu;
Zhao, Xinhan

Publication type:

Article

A computational Evo-Devo approach for elucidating the roles of PLETHORA transcription factors in regulating root development.

Published in:

PLoS ONE, 2025, v. 20, n. 7, p. 1, doi. 10.1371/journal.pone.0327511

By:

Rodríguez-Herrera, Joel;
Galván-Alcaraz, Kenia Aislinn;
Albarrán-Hernández, Ramsés Uriel;
Villa-Núñez, Juan Pablo;
Rodríguez-Alonso, Gustavo;
Shishkova, Svetlana

Publication type:

Article

A TCN-CNN Hybrid Network for the Inference of Single-cell Gene Regulatory Networks.

Published in:

IAENG International Journal of Computer Science, 2025, v. 52, n. 8, p. 2557

By:

Siying Du;
Kui Jin;
Mingjing Tang;
Yanqiong Duan;
Wei Gao

Publication type:

Article

Cross-species analysis of abiotic stress in hydroponic leafy crops reveals conserved regulatory networks and key divergences.

Published in:

Frontiers in Plant Science, 2025, p. 1, doi. 10.3389/fpls.2025.1613016

By:

Lee, Jia Min;
Goh, Jong Ching;
Koh, Eugene;
Mutwil-Anderwald, Daniela;
Mutwil, Marek

Publication type:

Article

Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary Disease.

Published in:

COPD: Journal of Chronic Obstructive Pulmonary Disease, 2024, v. 21, n. 1, p. 1, doi. 10.1080/15412555.2024.2379811

By:

Li, Tian-Tian;
Bai, Hong-Yan;
Zhang, Jing-Hong;
Kang, Xiu-He;
Qu, Yi-Qing

Publication type:

Article

Finding Attractors in Synchronous Multiple-Valued Networks Using SAT-based Bounded Model Checking.

Published in:

Journal of Multiple-Valued Logic & Soft Computing, 2012, v. 19, n. 1-3, p. 109

By:

DUBROVA, ELENA;
MING LIU;
TESLENKO, MAXIM

Publication type:

Article

Revealing the Strong Functional Association of adipor2 and cdh13 with adipoq: A Gene Network Study.

Published in:

Cell Biochemistry & Biophysics, 2015, v. 71, n. 3, p. 1445, doi. 10.1007/s12013-014-0367-9

By:

Bag, Susmita;
Anbarasu, Anand

Publication type:

Article

Raloxifene Upregulated Mesangial Cell MMP-2 Activity via ER-β Through Transcriptional Regulation.

Published in:

Cell Biochemistry & Biophysics, 2013, v. 67, n. 2, p. 607, doi. 10.1007/s12013-013-9548-1

By:

Fang, Ming;
Wu, Xin-Chi;
Huang, Wenlong

Publication type:

Article

Multiple molecular events underlie stochastic switching between 2 heritable cell states in fungi.

Published in:

PLoS Biology, 2022, v. 20, n. 5, p. 1, doi. 10.1371/journal.pbio.3001657

By:

Ziv, Naomi;
Brenes, Lucas R.;
Johnson, Alexander

Publication type:

Article

Genome-wide gene expression noise in Escherichia coli is condition-dependent and determined by propagation of noise through the regulatory network.

Published in:

PLoS Biology, 2021, v. 19, n. 12, p. 1, doi. 10.1371/journal.pbio.3001491

By:

Urchueguía, Arantxa;
Galbusera, Luca;
Chauvin, Dany;
Bellement, Gwendoline;
Julou, Thomas;
van Nimwegen, Erik

Publication type:

Article

Secrets of the MIR172 family in plant development and flowering unveiled.

Published in:

PLoS Biology, 2021, v. 19, n. 2, p. 1, doi. 10.1371/journal.pbio.3001099

By:

Zhang, Bailong;
Chen, Xuemei

Publication type:

Article

Systematic analyses of the MIR172 family members of Arabidopsis define their distinct roles in regulation of APETALA2 during floral transition.

Published in:

PLoS Biology, 2021, v. 19, n. 2, p. 1, doi. 10.1371/journal.pbio.3001043

By:

Ó'Maoiléidigh, Diarmuid S.;
van Driel, Annabel D.;
Singh, Anamika;
Sang, Qing;
Le Bec, Nolwenn;
Vincent, Coral;
de Olalla, Enric Bertran Garcia;
Vayssières, Alice;
Romera Branchat, Maida;
Severing, Edouard;
Martinez Gallegos, Rafael;
Coupland, George

Publication type:

Article

Subpopulations of sensorless bacteria drive fitness in fluctuating environments.

Published in:

PLoS Biology, 2020, v. 18, n. 12, p. 1, doi. 10.1371/journal.pbio.3000952

By:

Julou, Thomas;
Zweifel, Ludovit;
Blank, Diana;
Fiori, Athos;
van Nimwegen, Erik

Publication type:

Article

Perinatal Gene-Gene and Gene-Environment Interactions on IgE Production and Asthma Development.

Published in:

Clinical & Developmental Immunology, 2012, p. 1, doi. 10.1155/2012/270869

By:

Chang, Jen-Chieh;
Wang, Lin;
Chang, Rong-Fu;
Liu, Chieh-An

Publication type:

Article

Three Survival-Related Genes of Esophageal Squamous Cell Carcinoma Identified by Weighted Gene Coexpression Network Analysis.

Published in:

Complexity, 2021, p. 1, doi. 10.1155/2021/9997783

By:

Lu, Di;
Wang, He;
Wu, Xuanzhen;
Zhai, Jianxue;
Liu, Xiguang;
Dong, Xiaoying;
Feng, Siyang;
Shi, Xiaoshun;
Jiang, Jianjun;
Wang, Zhizhi;
Chen, Zhiming;
Zhao, Shuhua;
Zhong, Jinhua;
Xiong, Gang;
Wu, Hua;
Wang, Haofei;
Cai, Kaican

Publication type:

Article

AdpA<sub>lin</sub> regulates lincomycin and melanin biosynthesis by modulating precursors flux in Streptomyces lincolnensis.

Published in:

Journal of Basic Microbiology, 2023, v. 63, n. 6, p. 622, doi. 10.1002/jobm.202200692

By:

Kang, Yajing;
Wu, Wei;
Zhang, Feixue;
Chen, Lei;
Wang, Ruida;
Ye, Jiang;
Wu, Haizhen;
Zhang, Huizhan

Publication type:

Article

Identification of two two‐component signal transduction mutants with enhanced sucrose biosynthesis in Synechococcus elongatus PCC 7942.

Published in:

Journal of Basic Microbiology, 2019, v. 59, n. 5, p. 465, doi. 10.1002/jobm.201800676

By:

Qiao, Cuncun;
Zhang, Mingyi;
Luo, Quan;
Lu, Xuefeng

Publication type:

Article

Selection and validation of reference genes for qPCR analysis of miRNAs and their targets during somatic embryogenesis in tamarillo (Solanum betaceum Cav.).

Published in:

Plant Cell, Tissue & Organ Culture, 2020, v. 143, n. 1, p. 109, doi. 10.1007/s11240-020-01901-7

By:

Cordeiro, Daniela;
Rito, Miguel;
Borges, Filipe;
Canhoto, Jorge;
Correia, Sandra

Publication type:

Article

Cloning and characterization of FcWRKY40, A WRKY transcription factor from Fortunella crassifolia linked to oxidative stress tolerance.

Published in:

Plant Cell, Tissue & Organ Culture, 2014, v. 119, n. 1, p. 197, doi. 10.1007/s11240-014-0526-0

By:

Gong, Xiao-Qing;
Hu, Jian-Bing;
Liu, Ji-Hong

Publication type:

Article

A transient gene expression system using barley protoplasts to evaluate microRNAs for post-transcriptional regulation of their target genes.

Published in:

Plant Cell, Tissue & Organ Culture, 2014, v. 119, n. 1, p. 211, doi. 10.1007/s11240-014-0527-z

By:

Bai, Yu;
Han, Ning;
Wu, Jinxia;
Yang, Yinong;
Wang, Junhui;
Zhu, Muyuan;
Bian, Hongwu

Publication type:

Article

A comparative study of thermodynamic properties of R466A using linear regression, artificial neural network and gene expression programming.

Published in:

Journal of Thermal Analysis & Calorimetry, 2024, v. 149, n. 21, p. 12265, doi. 10.1007/s10973-024-13509-6

By:

Dikmen, Erkan

Publication type:

Article

Single-cell RNA-seq reveals diverse molecular signatures associated with Methotrexate resistance in primary central nervous system lymphoma cells: scRNA Analyses of Methotrexate Resistant Brain Lymphoma Cells: R. Osako et al.

Published in:

Journal of Neuro-Oncology, 2025, v. 172, n. 1, p. 163, doi. 10.1007/s11060-024-04893-y

By:

Osako, Ryosuke;
Hayano, Azusa;
Kawaguchi, Atsushi;
Yamanaka, Ryuya

Publication type:

Article

Study of prediction model for high-grade meningioma using fractal geometry combined with radiological features.

Published in:

Journal of Neuro-Oncology, 2025, v. 171, n. 2, p. 431, doi. 10.1007/s11060-024-04867-0

By:

Fan, Zhaoxin;
Gao, Aili;
Zhang, Jie;
Meng, Xiangyi;
Yin, Qunxin;
Shen, Yongze;
Hu, Renjie;
Gao, Shang;
Yang, Hongge;
Xu, Yingqi;
Liang, Hongsheng

Publication type:

Article

Exploring the prognostic value of BRMS1 + microglia based on single-cell anoikis regulator patterns in the immunologic microenvironment of GBM.

Published in:

Journal of Neuro-Oncology, 2024, v. 170, n. 1, p. 101, doi. 10.1007/s11060-024-04781-5

By:

Zhao, Songyun;
Ni, Kaixiang;
Xie, Jiaheng;
Cheng, Chao;
Zhao, Ning;
Liu, Jinhui;
Ji, Wei;
Wang, Qi;
Zhang, Pengpeng;
Liu, Yuankun

Publication type:

Article

Bmi1 regulates human glioblastoma stem cells through activation of differential gene networks in CD133+ brain tumor initiating cells.

Published in:

Journal of Neuro-Oncology, 2019, v. 143, n. 3, p. 417, doi. 10.1007/s11060-019-03192-1

By:

Vora, Parvez;
Seyfrid, Mathieu;
Venugopal, Chitra;
Qazi, Maleeha A.;
Salim, Sabra;
Isserlin, Ruth;
Subapanditha, Minomi;
O'Farrell, Erin;
Mahendram, Sujeivan;
Singh, Mohini;
Bakhshinyan, David;
Chokshi, Chirayu;
McFarlane, Nicole;
Dvorkin-Gheva, Anna;
Brown, Kevin R.;
Murty, Naresh;
Moffat, Jason;
Bader, Gary D.;
Singh, Sheila K.

Publication type:

Article

Identification of biomarkers in common chronic lung diseases by co-expression networks and drug-target interactions analysis.

Published in:

Molecular Medicine, 2020, v. 26, n. 1, p. 1, doi. 10.1186/s10020-019-0135-9

By:

Maghsoudloo, Mazaher;
Azimzadeh Jamalkandi, Sadegh;
Najafi, Ali;
Masoudi-Nejad, Ali

Publication type:

Article

Integrated transcriptomic analysis reveals hub genes involved in diagnosis and prognosis of pancreatic cancer.

Published in:

Molecular Medicine, 2019, v. 25, n. 1, p. 1, doi. 10.1186/s10020-019-0113-2

By:

Yang-Yang Zhou;
Li-Ping Chen;
Yi Zhang;
Sun-Kuan Hu;
Zhao-Jun Dong;
Ming Wu;
Qiu-Xiang Chen;
Zhi-Zhi Zhuang;
Xiao-Jing Du

Publication type:

Article

Stemness-Related Transcriptional Factors and Homing Gene Expression Profiles in Hepatic Differentiation and Cancer.

Published in:

Molecular Medicine, 2016, v. 22, p. 653, doi. 10.2119/molmed.2016.00096

By:

Toraih, Eman A.;
Fawzy, Manal S.;
El-Falouji, Abdullah I.;
Hamed, Elham O.;
Nemr, Nader A.;
Hussein, Mohammad H.;
Abd El Fadeal, Noha M.

Publication type:

Article

Common Variants of the Genes Encoding Erythropoietin and Its Receptor Modulate Cognitive Performance in Schizophrenia.

Published in:

Molecular Medicine, 2012, v. 18, n. 6, p. 1029, doi. 10.2119/molmed.2012.00190

By:

Kästner, Anne;
Grube, Sabrina;
El-Kordi, Ahmed;
Stepniak, Beata;
Friedrichs, Heidi;
Sargin, Derya;
Schwitulla, Judith;
Begemann, Martin;
Giegling, Ina;
Miskowiak, Kamilla W.;
Sperling, Swetlana;
Hannke, Kathrin;
Ramin, Anna;
Heinrich, Ralf;
Gefeller, Olaf;
Nave, Klaus-Armin;
Rujescu, Dan;
Ehrenreich, Hannelore

Publication type:

Article

Genetic factors underlying Mandibular prognathism: insights from recent human and animal studies.

Published in:

2025

By:

Fang, Han;
Li, Peiran;
Zhu, Songsong;
Bi, Ruiye

Publication type:

Literature Review

Genes related to microglia polarization and immune infiltration in Alzheimer's Disease.

Published in:

Mammalian Genome, 2024, v. 35, n. 4, p. 749, doi. 10.1007/s00335-024-10073-0

By:

Xing, Dianxia;
Zhang, Wenjin;
Liu, Yan;
Huang, Hong;
Xie, Junjie

Publication type:

Article

CDC167 exhibits potential as a biomarker for airway inflammation in asthma.

Published in:

Mammalian Genome, 2024, v. 35, n. 2, p. 135, doi. 10.1007/s00335-024-10037-4

By:

Zhong, Yukai;
Wu, Qiong;
Cai, Li;
Chen, Yuanjing;
Shen, Qi

Publication type:

Article

Exploring key genes and pathways associated with sex differences in autism spectrum disorder: integrated bioinformatic analysis.

Published in:

Mammalian Genome, 2024, v. 35, n. 2, p. 280, doi. 10.1007/s00335-024-10036-5

By:

Nautiyal, Himani;
Jaiswar, Akanksha;
Jha, Prabhash Kumar;
Dwivedi, Shubham

Publication type:

Article

Pyroptosis is involved in the immune microenvironment regulation of unexplained recurrent miscarriage.

Published in:

Mammalian Genome, 2024, v. 35, n. 2, p. 256, doi. 10.1007/s00335-024-10038-3

By:

Wang, Jing;
Nuray, Uskenbayeva;
Yan, Hongchao;
Xu, Yang;
Fang, Lisha;
Li, Ranran;
Zhou, Xin;
Zhang, Hong

Publication type:

Article

EEF1A1 transcription cofactor gene polymorphism is associated with muscle gene expression and residual feed intake in Nelore cattle.

Published in:

Mammalian Genome, 2022, v. 33, n. 4, p. 619, doi. 10.1007/s00335-022-09959-8

By:

Cardoso, T. F.;
Bruscadin, J. J.;
Afonso, J.;
Petrini, J.;
Andrade, B. G. N.;
de Oliveira, P. S. N.;
Malheiros, J. M.;
Rocha, M. I. P.;
Zerlotini, A.;
Ferraz, J. B. S.;
Mourão, G. B.;
Coutinho, L. L.;
Regitano, L. C. A.

Publication type:

Article

LncRNAs at the heart of development and disease.

Published in:

Mammalian Genome, 2022, v. 33, n. 2, p. 354, doi. 10.1007/s00335-021-09937-6

By:

Anderson, Kelly M.;
Anderson, Douglas M.

Publication type:

Article

Anterior Gradient 2 is a Significant Prognostic Biomarker in Bone Metastasis of Breast Cancer.

Published in:

Pathology & Oncology Research, 2022, p. 1, doi. 10.3389/pore.2022.1610538

By:

Jin-Jin Li;
Shuai Wang;
Zhong-Ning Guan;
Jin-Xi Zhang;
Ri-Xin Zhan;
Jian-Long Zhu

Publication type:

Article

Prognostic Role of Krüppel-Like Factors 5, 9, and 11 in Endometrial Endometrioid Cancer.

Published in:

Pathology & Oncology Research, 2020, v. 26, n. 4, p. 2265, doi. 10.1007/s12253-020-00817-z

By:

Viola, Luigi;
Londero, Ambrogio P;
Bertozzi, Serena;
Orsaria, Maria;
Marzinotto, Stefania;
Antoniazzi, Fulvio;
Renda, Valentina;
Cinel, Jacqueline;
Fruscalzo, Arrigo;
Lellé, Ralph J;
Mariuzzi, Laura

Publication type:

Article

Identifying Potential Prognostic Markers for Muscle-Invasive Bladder Urothelial Carcinoma by Weighted Gene Co-Expression Network Analysis.

Published in:

Pathology & Oncology Research, 2020, v. 26, n. 2, p. 1063, doi. 10.1007/s12253-019-00657-6

By:

Feng, Yueyi;
Jiang, Yiqing;
Wen, Tao;
Meng, Fang;
Shu, Xiaochen

Publication type:

Article

A Novel Genes Signature Associated with the Progression of Polycystic Ovary Syndrome.

Published in:

Pathology & Oncology Research, 2020, v. 26, n. 1, p. 575, doi. 10.1007/s12253-019-00676-3

By:

He, Dongyun;
Liu, Li;
Wang, Yang;
Sheng, Minjia

Publication type:

Article