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For: Subramanian I, Verma S, Kumar S, Jere A, Anamika K. Multi-omics Data Integration, Interpretation, and Its Application. Bioinform Biol Insights 2020;14:1177932219899051. [PMID: 32076369 PMCID: PMC7003173 DOI: 10.1177/1177932219899051] [Citation(s) in RCA: 685] [Impact Index Per Article: 137.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Accepted: 11/09/2019] [Indexed: 12/22/2022]  Open
Number Cited by Other Article(s)
1
Zang JCS, May C, Marcus K, Kumsta R. Molecular correlates of childhood adversity - a multi-omics perspective on stress regulation. Stress 2025;28:2495918. [PMID: 40305005 DOI: 10.1080/10253890.2025.2495918] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Accepted: 03/31/2025] [Indexed: 05/02/2025]  Open
2
Wang Z, Sofer T. Recent Progress in Omics Studies of Sleep and Circadian Phenotypes. CURRENT SLEEP MEDICINE REPORTS 2025;11:17. [PMID: 40321983 PMCID: PMC12048028 DOI: 10.1007/s40675-025-00335-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/03/2025] [Indexed: 05/08/2025]
3
Shen K, Hu C, Zhang Y, Cheng X, Xu Z, Pan S. Advances and applications of multiomics technologies in precision diagnosis and treatment for gastric cancer. Biochim Biophys Acta Rev Cancer 2025;1880:189336. [PMID: 40311712 DOI: 10.1016/j.bbcan.2025.189336] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2025] [Revised: 04/24/2025] [Accepted: 04/25/2025] [Indexed: 05/03/2025]
4
Li M, Bai Y, Zhang J, Wang H, Li J, Wang W. Sperm metabolomics identifies freezability markers in Duroc, Landrace, and Large White boars. Theriogenology 2025;240:117395. [PMID: 40112454 DOI: 10.1016/j.theriogenology.2025.117395] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2024] [Revised: 02/14/2025] [Accepted: 03/15/2025] [Indexed: 03/22/2025]
5
Shovon MHJ, Biswas P, Imtiaz M, Mobin S, Hasan MN. Single-cell RNA seq data analysis reveals molecular markers and possible treatment targets for laryngeal squamous cell carcinoma (LSCC): an in-silico approach. In Silico Pharmacol 2025;13:89. [PMID: 40539082 PMCID: PMC12174029 DOI: 10.1007/s40203-025-00382-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2025] [Accepted: 06/04/2025] [Indexed: 06/22/2025]  Open
6
Liu H, Wu T, Zhang J, He P. Exploring the over-wintering and over-summering mechanisms of Ulva prolifera from physiological and transcriptome perspectives and their impacts on green tides. MARINE ENVIRONMENTAL RESEARCH 2025;210:107310. [PMID: 40541110 DOI: 10.1016/j.marenvres.2025.107310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2025] [Revised: 06/08/2025] [Accepted: 06/16/2025] [Indexed: 06/22/2025]
7
Isaac A, Klontzas ME, Dalili D, Akdogan AI, Fawzi M, Gugliemi G, Filippiadis D. Revolutionising osseous biopsy: the impact of artificial intelligence in the era of personalized medicine. Br J Radiol 2025;98:795-809. [PMID: 39878877 PMCID: PMC12089761 DOI: 10.1093/bjr/tqaf018] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2024] [Revised: 01/13/2025] [Accepted: 01/16/2025] [Indexed: 01/31/2025]  Open
8
Yang L, Xu Z, Liu J, Chang X, Ren Z, Xiao W. Multi-omics insights into bone tissue injury and healing: bridging orthopedic trauma and regenerative medicine. BURNS & TRAUMA 2025;13:tkaf019. [PMID: 40438296 PMCID: PMC12118463 DOI: 10.1093/burnst/tkaf019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/27/2024] [Revised: 06/18/2024] [Accepted: 02/27/2025] [Indexed: 06/01/2025]
9
Kumar R, Romano JD, Ritchie MD. Network-based analyses of multiomics data in biomedicine. BioData Min 2025;18:37. [PMID: 40426270 PMCID: PMC12117783 DOI: 10.1186/s13040-025-00452-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2024] [Accepted: 05/10/2025] [Indexed: 05/29/2025]  Open
10
Anuarbekov A, Kléma J. Utilizing RNA-seq data in monotone iterative generalized linear model to elevate prior knowledge quality of the circRNA-miRNA-mRNA regulatory axis. BMC Bioinformatics 2025;26:139. [PMID: 40426030 PMCID: PMC12117772 DOI: 10.1186/s12859-025-06161-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2025] [Accepted: 05/07/2025] [Indexed: 05/29/2025]  Open
11
Shi L, Wang X, Li C, Bai Y, Zhang Y, Li H. Radiomics applications in the modern management of esophageal squamous cell carcinoma. Med Oncol 2025;42:221. [PMID: 40425893 DOI: 10.1007/s12032-025-02775-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2025] [Accepted: 05/11/2025] [Indexed: 05/29/2025]
12
Liao L, Xie M, Zheng X, Zhou Z, Deng Z, Gao J. Molecular insights fast-tracked: AI in biosynthetic pathway research. Nat Prod Rep 2025;42:911-936. [PMID: 40130306 DOI: 10.1039/d4np00003j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/26/2025]
13
Lee C, Park T. Deep learning health space model for ordered responses. BMC Med Inform Decis Mak 2025;25:191. [PMID: 40380121 DOI: 10.1186/s12911-025-03026-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2024] [Accepted: 05/09/2025] [Indexed: 05/19/2025]  Open
14
Hamidi H, Boudhabhay I, Dragon-Durey MA. Harnessing complement biomarkers for precision cancer care. Semin Immunol 2025;78:101963. [PMID: 40378538 DOI: 10.1016/j.smim.2025.101963] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/13/2025] [Revised: 05/02/2025] [Accepted: 05/02/2025] [Indexed: 05/19/2025]
15
Taha BA, Abdulrahm ZM, Addie AJ, Haider AJ, Alkawaz AN, Yaqoob IAM, Arsad N. Advancing optical nanosensors with artificial intelligence: A powerful tool to identify disease-specific biomarkers in multi-omics profiling. Talanta 2025;287:127693. [PMID: 39919475 DOI: 10.1016/j.talanta.2025.127693] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2024] [Revised: 01/30/2025] [Accepted: 02/03/2025] [Indexed: 02/09/2025]
16
Liou K, Wang JP. Integrating genetic and gene expression data in network-based stratification analysis of cancers. BMC Bioinformatics 2025;26:126. [PMID: 40360993 PMCID: PMC12070578 DOI: 10.1186/s12859-025-06143-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2024] [Accepted: 04/15/2025] [Indexed: 05/15/2025]  Open
17
Saxena A, Nixon B, Boyd A, Evans J, Faraone SV. A Systematic Review of the Application of Graph Neural Networks to Extract Candidate Genes and Biological Associations. Am J Med Genet B Neuropsychiatr Genet 2025:e33031. [PMID: 40317893 DOI: 10.1002/ajmg.b.33031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/29/2024] [Revised: 02/27/2025] [Accepted: 04/15/2025] [Indexed: 05/07/2025]
18
Agoro R, Churchill GA. Challenges and opportunities for conceiving genetically diverse sickle cell mice. Trends Mol Med 2025;31:413-423. [PMID: 39643521 PMCID: PMC12084145 DOI: 10.1016/j.molmed.2024.11.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2024] [Revised: 10/21/2024] [Accepted: 11/11/2024] [Indexed: 12/09/2024]
19
Ma Y, Zhu W. RETRACTED: Development of gene panel for predicting recurrence in early-stage cervical cancer patients. ENVIRONMENTAL TOXICOLOGY 2025;40:E44-E58. [PMID: 38563455 DOI: 10.1002/tox.24270] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2024] [Revised: 03/19/2024] [Accepted: 03/24/2024] [Indexed: 04/04/2024]
20
Srivastava R. Advancing precision oncology with AI-powered genomic analysis. Front Pharmacol 2025;16:1591696. [PMID: 40371349 PMCID: PMC12075946 DOI: 10.3389/fphar.2025.1591696] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2025] [Accepted: 04/21/2025] [Indexed: 05/16/2025]  Open
21
Šamec N, Krapež G, Skubic C, Jovčevska I, Videtič Paska A. From Biomarker Discovery to Clinical Applications of Metabolomics in Glioblastoma. Metabolites 2025;15:295. [PMID: 40422872 DOI: 10.3390/metabo15050295] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2025] [Revised: 04/18/2025] [Accepted: 04/26/2025] [Indexed: 05/28/2025]  Open
22
Dai H, Ren J, Wang C, Huang J, Wang X. Prognostic molecular subtype reveals the heterogeneity of tumor immune microenvironment in gastric cancer. Sci Rep 2025;15:14453. [PMID: 40281016 PMCID: PMC12032113 DOI: 10.1038/s41598-025-96686-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2024] [Accepted: 03/31/2025] [Indexed: 04/29/2025]  Open
23
Srivastav AK, Mishra MK, Lillard JW, Singh R. Transforming Pharmacogenomics and CRISPR Gene Editing with the Power of Artificial Intelligence for Precision Medicine. Pharmaceutics 2025;17:555. [PMID: 40430848 PMCID: PMC12114816 DOI: 10.3390/pharmaceutics17050555] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2025] [Revised: 04/16/2025] [Accepted: 04/22/2025] [Indexed: 05/29/2025]  Open
24
May SA, Rosenbaum SW, Pearse DE, Kardos M, Primmer CR, Baetscher DS, Waples RS. The Genomics Revolution in Nonmodel Species: Predictions vs. Reality for Salmonids. Mol Ecol 2025:e17758. [PMID: 40249276 DOI: 10.1111/mec.17758] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2024] [Revised: 03/12/2025] [Accepted: 03/28/2025] [Indexed: 04/19/2025]
25
Jaffe IS, Aljabban I, Kim JI, Dundas N, Khalil K, Rosa S, Zayas Z, Nally M, Gallego E, Griesemer A, Montgomery RA, Stern JM. Unused Samples from Clinical Blood Draws as a Resource for Maximizing Research Samples while Mitigating Iatrogenic Anemia Risks: A Pilot Study. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2025:2025.04.17.25326023. [PMID: 40321263 PMCID: PMC12047949 DOI: 10.1101/2025.04.17.25326023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 05/11/2025]
26
Zhao B, Lu W, Chen Y, Cai X. Predictive model for prognosis, immune microenvironment and drug sensitivity of colon carcinoma based on cuproptosis-related genes. INTERNATIONAL JOURNAL OF CLINICAL AND EXPERIMENTAL PATHOLOGY 2025;18:148-165. [PMID: 40371092 PMCID: PMC12070126 DOI: 10.62347/feef1483] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2024] [Accepted: 03/08/2025] [Indexed: 05/16/2025]
27
Choi J, Shakeri M, Bowker B, Zhuang H, Kong B. Differentially abundant proteins, metabolites, and lipid molecules in spaghetti meat compared to normal chicken breast meat: Multiomics analysis. Poult Sci 2025;104:105165. [PMID: 40286572 DOI: 10.1016/j.psj.2025.105165] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2025] [Revised: 04/08/2025] [Accepted: 04/14/2025] [Indexed: 04/29/2025]  Open
28
England-Mason G, MacEachern SJ, Amador K, Soomro MH, Reardon AJF, MacDonald AM, Kinniburgh DW, Letourneau N, Giesbrecht GF, Martin JW, Forkert ND, Dewey D. Using machine learning to investigate the influence of the prenatal chemical exposome on neurodevelopment of young children. Neurotoxicology 2025;108:218-230. [PMID: 40222479 DOI: 10.1016/j.neuro.2025.04.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2024] [Revised: 03/31/2025] [Accepted: 04/01/2025] [Indexed: 04/15/2025]
29
Ding X, Liang S, Zhang T, Zhang M, Fang H, Tian J, Liu J, Peng Y, Zheng L, Wang B, Feng W. Surface Modification of Gold Nanoparticle Impacts Distinct Lipid Metabolism. Molecules 2025;30:1727. [PMID: 40333646 PMCID: PMC12029855 DOI: 10.3390/molecules30081727] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2025] [Revised: 04/01/2025] [Accepted: 04/09/2025] [Indexed: 05/09/2025]  Open
30
Danaeifar M, Najafi A. Artificial Intelligence and Computational Biology in Gene Therapy: A Review. Biochem Genet 2025;63:960-983. [PMID: 38635012 DOI: 10.1007/s10528-024-10799-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Accepted: 04/02/2024] [Indexed: 04/19/2024]
31
Ponce Alencastro JA, Salinas Lucero DA, Solis RP, Herrera Giron CG, Estrella López AS, Anda Suárez PX. Molecular Mechanisms and Emerging Precision Therapeutics in the Gut Microbiota-Cardiovascular Axis. Cureus 2025;17:e83022. [PMID: 40421334 PMCID: PMC12104768 DOI: 10.7759/cureus.83022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/26/2025] [Indexed: 05/28/2025]  Open
32
Sun H, Wang Y, Deng G, Gao R, Zhang M, Huang L, He W, Zhang Z, Yu D, Chen P, Lu F, Liu S. Cortex Dictamni-induced hepatotoxicity by enhanced oxidative phosphorylation: Insights from integrative transcriptomics, proteomics, and metabolomics analyses. PHYTOMEDICINE : INTERNATIONAL JOURNAL OF PHYTOTHERAPY AND PHYTOPHARMACOLOGY 2025;139:156511. [PMID: 39954621 DOI: 10.1016/j.phymed.2025.156511] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2024] [Revised: 02/11/2025] [Accepted: 02/12/2025] [Indexed: 02/17/2025]
33
Coletti R, Carrilho JF, Martins EP, Gonçalves CS, Costa BM, Lopes MB. A novel tool for multi-omics network integration and visualization: A study of glioma heterogeneity. Comput Biol Med 2025;188:109811. [PMID: 39965391 DOI: 10.1016/j.compbiomed.2025.109811] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2024] [Revised: 01/29/2025] [Accepted: 02/04/2025] [Indexed: 02/20/2025]
34
Nguyen JH, Curtis MA, Imami AS, Ryan WG, Alganem K, Neifer KL, Saferin N, Nawor CN, Kistler BP, Miller GW, Shukla R, McCullumsmith RE, Burkett JP. Developmental pyrethroid exposure disrupts molecular pathways for MAP kinase and circadian rhythms in mouse brain. Physiol Genomics 2025;57:240-253. [PMID: 39961078 DOI: 10.1152/physiolgenomics.00033.2024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 05/07/2024] [Accepted: 02/10/2025] [Indexed: 02/26/2025]  Open
35
Mukherjee A, Abraham S, Singh A, Balaji S, Mukunthan KS. From Data to Cure: A Comprehensive Exploration of Multi-omics Data Analysis for Targeted Therapies. Mol Biotechnol 2025;67:1269-1289. [PMID: 38565775 PMCID: PMC11928429 DOI: 10.1007/s12033-024-01133-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2023] [Accepted: 02/27/2024] [Indexed: 04/04/2024]
36
Reza M, Qiu C, Lin X, Su K, Liu A, Zhang X, Gong Y, Luo Z, Tian Q, Nwadiugwu M, Liang S, Shen H, Deng H. An Attention-Aware Multi-Task Learning Framework Identifies Candidate Targets for Drug Repurposing in Sarcopenia. J Cachexia Sarcopenia Muscle 2025;16:e13661. [PMID: 40045692 PMCID: PMC11883102 DOI: 10.1002/jcsm.13661] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/11/2024] [Revised: 09/19/2024] [Accepted: 10/31/2024] [Indexed: 03/09/2025]  Open
37
Gandara L, Foreman AL, Crocker J. Using AI to prevent the insect apocalypse: toward new environmental risk assessment procedures. CURRENT OPINION IN INSECT SCIENCE 2025;68:101324. [PMID: 39731925 DOI: 10.1016/j.cois.2024.101324] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2024] [Revised: 10/25/2024] [Accepted: 12/06/2024] [Indexed: 12/30/2024]
38
Liu W, Pratte KA, Castaldi PJ, Hersh C, Bowler RP, Banaei-Kashani F, Kechris KJ. A generalized higher-order correlation analysis framework for multi-omics network inference. PLoS Comput Biol 2025;21:e1011842. [PMID: 40228208 PMCID: PMC11996223 DOI: 10.1371/journal.pcbi.1011842] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2024] [Accepted: 01/31/2025] [Indexed: 04/16/2025]  Open
39
Tian KJ, Yang Y, Chen GS, Deng NH, Tian Z, Bai R, Zhang F, Jiang ZS. Omics research in atherosclerosis. Mol Cell Biochem 2025;480:2077-2102. [PMID: 39446251 DOI: 10.1007/s11010-024-05139-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2024] [Accepted: 10/12/2024] [Indexed: 10/25/2024]
40
Guan H, Zhang P, Park RF, Ding Y. Genomics Research on the Road of Studying Biology and Virulence of Cereal Rust Fungi. MOLECULAR PLANT PATHOLOGY 2025;26:e70082. [PMID: 40181494 PMCID: PMC11968332 DOI: 10.1111/mpp.70082] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/09/2024] [Revised: 03/06/2025] [Accepted: 03/23/2025] [Indexed: 04/05/2025]
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Jiang W, Ye W, Tan X, Bao YJ. Network-based multi-omics integrative analysis methods in drug discovery: a systematic review. BioData Min 2025;18:27. [PMID: 40155979 PMCID: PMC11954193 DOI: 10.1186/s13040-025-00442-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2024] [Accepted: 03/17/2025] [Indexed: 04/01/2025]  Open
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Yang SY, Han SM, Lee JY, Kim KS, Lee JE, Lee DW. Advancing Gut Microbiome Research: The Shift from Metagenomics to Multi-Omics and Future Perspectives. J Microbiol Biotechnol 2025;35:e2412001. [PMID: 40223273 PMCID: PMC12010094 DOI: 10.4014/jmb.2412.12001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2024] [Revised: 02/14/2025] [Accepted: 02/24/2025] [Indexed: 04/15/2025]
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Zhang H, Goedegebuure SP, Ding L, DeNardo D, Fields RC, Province M, Chen Y, Payne P, Li F. M3NetFlow: A multi-scale multi-hop graph AI model for integrative multi-omic data analysis. iScience 2025;28:111920. [PMID: 40034855 PMCID: PMC11872513 DOI: 10.1016/j.isci.2025.111920] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2024] [Revised: 10/17/2024] [Accepted: 01/27/2025] [Indexed: 03/05/2025]  Open
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Rozera T, Pasolli E, Segata N, Ianiro G. Machine Learning and Artificial Intelligence in the Multi-Omics Approach to Gut Microbiota. Gastroenterology 2025:S0016-5085(25)00526-8. [PMID: 40118220 DOI: 10.1053/j.gastro.2025.02.035] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 12/10/2024] [Revised: 01/26/2025] [Accepted: 02/10/2025] [Indexed: 03/23/2025]
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Feng J, Liu Y, Li K, Wu Y. Challenges and opportunities in targeting epigenetic mechanisms for pulmonary arterial hypertension treatment. Int J Pharm 2025;672:125332. [PMID: 39929327 DOI: 10.1016/j.ijpharm.2025.125332] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2024] [Revised: 01/16/2025] [Accepted: 02/07/2025] [Indexed: 02/14/2025]
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Lateef Junaid MA. Artificial intelligence driven innovations in biochemistry: A review of emerging research frontiers. BIOMOLECULES & BIOMEDICINE 2025;25:739-750. [PMID: 39819459 PMCID: PMC11959397 DOI: 10.17305/bb.2024.11537] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2024] [Revised: 12/15/2024] [Accepted: 12/15/2024] [Indexed: 01/19/2025]
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Zhou X, Parisi L, Huang W, Zhang Y, Huang X, Youseffi M, Javid F, Ma R. A novel integrative multimodal classifier to enhance the diagnosis of Parkinson's disease. Brief Bioinform 2025;26:bbaf088. [PMID: 40062615 PMCID: PMC11891661 DOI: 10.1093/bib/bbaf088] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2024] [Revised: 12/30/2024] [Accepted: 02/18/2025] [Indexed: 05/13/2025]  Open
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Hu Y, Li X, Yi Y, Huang Y, Wang G, Wang D. Deep learning-driven survival prediction in pan-cancer studies by integrating multimodal histology-genomic data. Brief Bioinform 2025;26:bbaf121. [PMID: 40116660 PMCID: PMC11926983 DOI: 10.1093/bib/bbaf121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2024] [Revised: 02/10/2025] [Accepted: 02/28/2025] [Indexed: 03/23/2025]  Open
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Tran D, Nguyen H, Pham VD, Nguyen P, Nguyen Luu H, Minh Phan L, Blair DeStefano C, Jim Yeung SC, Nguyen T. A comprehensive review of cancer survival prediction using multi-omics integration and clinical variables. Brief Bioinform 2025;26:bbaf150. [PMID: 40221959 PMCID: PMC11994034 DOI: 10.1093/bib/bbaf150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2024] [Revised: 01/29/2025] [Accepted: 03/19/2025] [Indexed: 04/15/2025]  Open
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Jiang J, Xie H, Cao S, Xu X, Zhou J, Liu Q, Ding C, Liu M. Post-stroke depression: exploring gut microbiota-mediated barrier dysfunction through immune regulation. Front Immunol 2025;16:1547365. [PMID: 40098959 PMCID: PMC11911333 DOI: 10.3389/fimmu.2025.1547365] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2024] [Accepted: 02/17/2025] [Indexed: 03/19/2025]  Open
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