{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,1]],"date-time":"2026-09-01T21:44:35Z","timestamp":1788299075977,"version":"build-2803163510"},"reference-count":64,"publisher":"MDPI AG","issue":"6","license":[{"start":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T00:00:00Z","timestamp":1750204800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Genes"],"abstract":"<jats:p>Background: Tuberculosis (TB) remains a major global public health challenge, and diagnosing it can be difficult due to issues such as distinguishing active TB from latent TB infection (LTBI), as well as the sample collection process, which is often time-consuming and lacks sensitivity and specificity. Ferroptosis is emerging as an important factor in TB pathogenesis; however, its underlying molecular mechanisms are not fully understood. Thus, there is a critical need to establish ferroptosis-related diagnostic biomarkers for tuberculosis (TB). Methods: This study aimed to identify and validate potential ferroptosis-related genes in TB infection while enhancing clinical diagnostic accuracy through bioinformatics-driven gene identification. The microarray expression profile dataset GSE28623 from the Gene Expression Omnibus (GEO) database was used to identify ferroptosis-related differentially expressed genes (FR-DEGs) associated with TB. Subsequently, these genes were used for immune cell infiltration, Gene Set Enrichment Analysis (GSEA), functional enrichment and correlation analyses. Hub genes were identified using Weighted Gene Co-expression Network Analysis (WGCNA) and validated in independent datasets GSE37250, GSE39940, GSE19437, and GSE31348. Results: A total of 21 FR-DEGs were identified. Among them, four hub genes (ACSL1, PARP9, TLR4, and ATG3) were identified as diagnostic biomarkers. These biomarkers were enriched in immune-response related pathways and were validated. Immune cell infiltration, GSEA, functional enrichment and correlation analyses revealed that multiple immune cell types could be activated by FR-DEGs. Throughout anti-TB therapy, the expression of the four hub gene signatures significantly decreased in patients cured of TB. Conclusions: In conclusion, ferroptosis plays a key role in TB pathogenesis. These four hub gene signatures are linked with TB treatment effectiveness and show promise as biomarkers for differentiating TB from LTBI.<\/jats:p>","DOI":"10.3390\/genes16060716","type":"journal-article","created":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T05:30:42Z","timestamp":1750224642000},"page":"716","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["Bioinformatics-Driven Identification of Ferroptosis-Related Gene Signatures Distinguishing Active and Latent Tuberculosis"],"prefix":"10.3390","volume":"16","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2089-0891","authenticated-orcid":false,"given":"Rakesh","family":"Arya","sequence":"first","affiliation":[{"name":"Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7314-7148","authenticated-orcid":false,"given":"Hemlata","family":"Shakya","sequence":"additional","affiliation":[{"name":"Department of Biomedical Engineering, Shri G. S. Institute of Technology and Science, Indore 452003, Madhya Pradesh, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3030-0242","authenticated-orcid":false,"given":"Viplov","family":"Biswas","sequence":"additional","affiliation":[{"name":"Department of Cell Biology and Molecular Genetics, University of Maryland, Campus Drive, College Park, MD 20742, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0791-3094","authenticated-orcid":false,"given":"Gyanendra","family":"Kumar","sequence":"additional","affiliation":[{"name":"Department of IoT and Intelligent Systems, Manipal University Jaipur, Jaipur 303007, Rajasthan, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5151-2300","authenticated-orcid":false,"given":"Sumendra","family":"Yogarayan","sequence":"additional","affiliation":[{"name":"Faculty of Information Science and Technology (FIST), Multimedia University (MMU), Ayer Keroh 75450, Malaysia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Harish","family":"Shakya","sequence":"additional","affiliation":[{"name":"Department of Artificial Intelligence and Machine Learning, Manipal University Jaipur, Jaipur 303007, Rajasthan, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jong-Joo","family":"Kim","sequence":"additional","affiliation":[{"name":"Department of Biotechnology, Yeungnam University, Gyeongsan 38541, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2025,6,18]]},"reference":[{"key":"ref_1","unstructured":"WHO (2024). Global Tuberculosis Report 2024, World Health Organization."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"407","DOI":"10.1016\/S2213-2600(19)30469-2","article-title":"Blood Transcriptional Biomarkers for Active Pulmonary Tuberculosis in a High-Burden Setting: A Prospective, Observational, Diagnostic Accuracy Study","volume":"8","author":"Turner","year":"2020","journal-title":"Lancet Respir. Med."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"750","DOI":"10.1038\/s41579-022-00763-4","article-title":"Immune Evasion and Provocation by Mycobacterium tuberculosis","volume":"20","author":"Chandra","year":"2022","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"C1444","DOI":"10.1152\/ajpcell.00246.2022","article-title":"Different Modalities of Host Cell Death and Their Impact on Mycobacterium tuberculosis Infection","volume":"323","author":"Nisa","year":"2022","journal-title":"Am. J. Physiol.-Cell Physiol."},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"105880","DOI":"10.1016\/j.micpath.2022.105880","article-title":"Mycobacterium tuberculosis Protease Rv3090 Is Associated with Late Cell Apoptosis and Participates in Organ Injuries and Mycobacterial Dissemination in Mice","volume":"173","author":"Cui","year":"2022","journal-title":"Microb. Pathog."},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"273","DOI":"10.1016\/j.cell.2017.09.021","article-title":"Ferroptosis: A Regulated Cell Death Nexus Linking Metabolism, Redox Biology, and Disease","volume":"171","author":"Stockwell","year":"2017","journal-title":"Cell"},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"130","DOI":"10.1016\/j.freeradbiomed.2018.09.043","article-title":"The Development of the Concept of Ferroptosis","volume":"133","author":"Hirschhorn","year":"2019","journal-title":"Free Radic. Biol. Med."},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"556","DOI":"10.1084\/jem.20181776","article-title":"A Major Role for Ferroptosis in Mycobacterium tuberculosis\u2014Induced Cell Death and Tissue Necrosis","volume":"216","author":"Amaral","year":"2019","journal-title":"J. Exp. Med."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"448","DOI":"10.1080\/21505594.2018.1536598","article-title":"Autophagy: A New Strategy for Host-Directed Therapy of Tuberculosis","volume":"10","author":"Paik","year":"2019","journal-title":"Virulence"},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"L218","DOI":"10.1152\/ajplung.00162.2017","article-title":"Role of Apoptosis and Autophagy in Tuberculosis","volume":"313","author":"Lam","year":"2017","journal-title":"Am. J. Physiol.-Lung Cell. Mol. Physiol."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"110182","DOI":"10.1016\/j.isci.2024.110182","article-title":"Identification of Ferroptosis-Related Gene Signature for Tuberculosis Diagnosis and Therapy Efficacy","volume":"27","author":"Yang","year":"2024","journal-title":"iScience"},{"key":"ref_12","first-page":"000997","article-title":"Assessment of Ferroptosis-Associated Gene Signatures as Potential Biomarkers for Differentiating Latent from Active Tuberculosis in Children","volume":"9","author":"Chen","year":"2023","journal-title":"Microb. Genom."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"445","DOI":"10.1186\/s40001-023-01371-5","article-title":"Bioinformatics-Led Discovery of Ferroptosis-Associated Diagnostic Biomarkers and Molecule Subtypes for Tuberculosis Patients","volume":"28","author":"Wufuer","year":"2023","journal-title":"Eur. J. Med. Res."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1186\/s13568-025-01839-z","article-title":"Identification of Ferroptosis-Related Key Genes in Tuberculosis by Bioinformatics Methods","volume":"15","author":"Zhang","year":"2025","journal-title":"AMB Express."},{"key":"ref_15","doi-asserted-by":"crossref","unstructured":"Arya, R., Shakya, H., Chaurasia, R., Kumar, S., Vinetz, J.M., and Kim, J.J. (2024). Computational Reassessment of RNA-Seq Data Reveals Key Genes in Active Tuberculosis. PLoS ONE, 19.","DOI":"10.1371\/journal.pone.0305582"},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"1469","DOI":"10.1093\/infdis\/jiv238","article-title":"Dysregulation of Apoptosis Is a Risk Factor for Tuberculosis Disease Progression","volume":"212","author":"Elliott","year":"2015","journal-title":"J. Infect. Dis."},{"key":"ref_17","doi-asserted-by":"crossref","unstructured":"Kaforou, M., Wright, V.J., Oni, T., French, N., Anderson, S.T., Bangani, N., Banwell, C.M., Brent, A.J., Crampin, A.C., and Dockrell, H.M. (2013). Detection of Tuberculosis in HIV-Infected and -Uninfected African Adults Using Whole Blood RNA Expression Signatures: A Case-Control Study. PLoS Med., 10.","DOI":"10.1371\/journal.pmed.1001538"},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"1712","DOI":"10.1056\/NEJMoa1303657","article-title":"Diagnosis of Childhood Tuberculosis and Host RNA Expression in Africa","volume":"370","author":"Anderson","year":"2014","journal-title":"N. Engl. J. Med."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"973","DOI":"10.1038\/nature09247","article-title":"An Interferon-Inducible Neutrophil-Driven Blood Transcriptional Signature in Human Tuberculosis","volume":"466","author":"Berry","year":"2010","journal-title":"Nature"},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"18","DOI":"10.1093\/infdis\/jis499","article-title":"Distinct Phases of Blood Gene Expression Pattern Through Tuberculosis Treatment Reflect Modulation of the Humoral Immune Response","volume":"207","author":"Cliff","year":"2013","journal-title":"J. Infect. Dis."},{"key":"ref_21","doi-asserted-by":"crossref","unstructured":"Aran, D., Hu, Z., and Butte, A.J. (2017). XCell: Digitally Portraying the Tissue Cellular Heterogeneity Landscape. Genome Biol., 18.","DOI":"10.1186\/s13059-017-1349-1"},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"15545","DOI":"10.1073\/pnas.0506580102","article-title":"Gene Set Enrichment Analysis: A Knowledge-Based Approach for Interpreting Genome-Wide Expression Profiles","volume":"102","author":"Subramanian","year":"2005","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"267","DOI":"10.1038\/ng1180","article-title":"PGC-1\u03b1-Responsive Genes Involved in Oxidative Phosphorylation Are Coordinately Downregulated in Human Diabetes","volume":"34","author":"Mootha","year":"2003","journal-title":"Nat. Genet."},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"D991","DOI":"10.1093\/nar\/gks1193","article-title":"NCBI GEO: Archive for Functional Genomics Data Sets\u2014Update","volume":"41","author":"Barrett","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"D571","DOI":"10.1093\/nar\/gkac935","article-title":"FerrDb V2: Update of the Manually Curated Database of Ferroptosis Regulators and Ferroptosis-Disease Associations","volume":"51","author":"Zhou","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"D638","DOI":"10.1093\/nar\/gkac1000","article-title":"The STRING Database in 2023: Protein\u2013Protein Association Networks and Functional Enrichment Analyses for Any Sequenced Genome of Interest","volume":"51","author":"Szklarczyk","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref_27","doi-asserted-by":"crossref","unstructured":"Tang, D., Chen, M., Huang, X., Zhang, G., Zeng, L., Zhang, G., Wu, S., and Wang, Y. (2023). SRplot: A Free Online Platform for Data Visualization and Graphing. PLoS ONE, 18.","DOI":"10.1371\/journal.pone.0294236"},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"2628","DOI":"10.1093\/bioinformatics\/btz931","article-title":"ShinyGO: A Graphical Gene-Set Enrichment Tool for Animals and Plants","volume":"36","author":"Ge","year":"2020","journal-title":"Bioinformatics"},{"key":"ref_29","doi-asserted-by":"crossref","unstructured":"Langfelder, P., and Horvath, S. (2008). WGCNA: An R Package for Weighted Correlation Network Analysis. BMC Bioinform., 9.","DOI":"10.1186\/1471-2105-9-559"},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"1733","DOI":"10.1016\/j.molp.2023.09.010","article-title":"TBtools-II: A \u201cOne for All, All for One\u201d Bioinformatics Platform for Biological Big-Data Mining","volume":"16","author":"Chen","year":"2023","journal-title":"Mol. Plant."},{"key":"ref_31","doi-asserted-by":"crossref","unstructured":"Goedhart, J., and Luijsterburg, M.S. (2020). VolcaNoseR Is a Web App for Creating, Exploring, Labeling and Sharing Volcano Plots. Sci. Rep., 10.","DOI":"10.1038\/s41598-020-76603-3"},{"key":"ref_32","doi-asserted-by":"crossref","unstructured":"Wickham, H. (2016). Data Analysis: In \u201cGgplot2\u201d, Use R! Springer.","DOI":"10.1007\/978-3-319-24277-4"},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"295","DOI":"10.1016\/j.ijtb.2020.02.005","article-title":"A Systemic Review on Tuberculosis","volume":"67","author":"Natarajan","year":"2020","journal-title":"Indian J. Tuberc."},{"key":"ref_34","doi-asserted-by":"crossref","unstructured":"Kunkel, A., Abel zur Wiesch, P., Nathavitharana, R.R., Marx, F.M., Jenkins, H.E., and Cohen, T. (2016). Smear Positivity in Paediatric and Adult Tuberculosis: Systematic Review and Meta-Analysis. BMC Infect. Dis., 16.","DOI":"10.1186\/s12879-016-1617-9"},{"key":"ref_35","doi-asserted-by":"crossref","unstructured":"Tsareva, A., Shelyakin, P.V., Shagina, I.A., Myshkin, M.Y., Merzlyak, E.M., Kriukova, V.V., Apt, A.S., Linge, I.A., Chudakov, D.M., and Britanova, O.V. (2024). Aberrant Adaptive Immune Response Underlies Genetic Susceptibility to Tuberculosis. Front. Immunol., 15.","DOI":"10.3389\/fimmu.2024.1380971"},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"2451","DOI":"10.24294\/ti.v7.i2.2451","article-title":"Routing Innate and Adaptive Immune Response against M. Tuberculosis and Boosting Mycobacterium Bovis Bacillus Calmette G\u00fcerin (BCG) Vaccine Immunity through Prime Boost Protocols","volume":"7","author":"Guerrero","year":"2023","journal-title":"Trends Immunother."},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"1431","DOI":"10.1038\/s41467-023-37149-w","article-title":"Ferroptosis Hijacking by Mycobacterium tuberculosis","volume":"14","author":"Gan","year":"2023","journal-title":"Nat. Commun."},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"471","DOI":"10.1084\/jem.20190038","article-title":"Die Another Way: Ferroptosis Drives Tuberculosis Pathology","volume":"216","author":"Meunier","year":"2019","journal-title":"J. Exp. Med."},{"key":"ref_39","doi-asserted-by":"crossref","unstructured":"Vu, A., Glassman, I., Campbell, G., Yeganyan, S., Nguyen, J., Shin, A., and Venketaraman, V. (2024). Host Cell Death and Modulation of Immune Response against Mycobacterium tuberculosis Infection. Int. J. Mol. Sci., 25.","DOI":"10.3390\/ijms25116255"},{"key":"ref_40","doi-asserted-by":"crossref","first-page":"e20220504","DOI":"10.1084\/jem.20220504","article-title":"GPX4 Regulates Cellular Necrosis and Host Resistance in Mycobacterium tuberculosis Infection","volume":"219","author":"Amaral","year":"2022","journal-title":"J. Exp. Med."},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"101978","DOI":"10.1016\/j.tube.2020.101978","article-title":"Mycobacterium tuberculosis-Specific Plasmablast Levels Are Differentially Modulated in Tuberculosis Infection and Disease","volume":"124","author":"Gindeh","year":"2020","journal-title":"Tuberculosis"},{"key":"ref_42","doi-asserted-by":"crossref","unstructured":"Cardona, P., and Cardona, P.-J. (2019). Regulatory T Cells in Mycobacterium tuberculosis Infection. Front. Immunol., 10.","DOI":"10.3389\/fimmu.2019.02139"},{"key":"ref_43","doi-asserted-by":"crossref","unstructured":"Luo, M., Zou, X., Zeng, Q., Wu, Y., Yang, H., Qin, L., Zheng, R., Yu, F., Hu, Y., and Liu, Z. (2023). Monocyte at Diagnosis as a Prognosis Biomarker in Tuberculosis Patients with Anemia. Front. Med., 10.","DOI":"10.3389\/fmed.2023.1141949"},{"key":"ref_44","doi-asserted-by":"crossref","unstructured":"Ahmad, F., Rani, A., Alam, A., Zarin, S., Pandey, S., Singh, H., Hasnain, S.E., and Ehtesham, N.Z. (2022). Macrophage: A Cell With Many Faces and Functions in Tuberculosis. Front. Immunol., 13.","DOI":"10.3389\/fimmu.2022.747799"},{"key":"ref_45","doi-asserted-by":"crossref","first-page":"86","DOI":"10.1016\/j.molimm.2017.08.007","article-title":"Profiling Dendritic Cell Subsets in the Patients with Active Pulmonary Tuberculosis","volume":"91","author":"Lu","year":"2017","journal-title":"Mol. Immunol."},{"key":"ref_46","doi-asserted-by":"crossref","unstructured":"Lo, C.-Y., Huang, Y.-C., Huang, H.-Y., Chung, F.-T., Lin, C.-W., Chung, K.F., and Wang, C.-H. (2021). Increased Th1 Cells with Disease Resolution of Active Pulmonary Tuberculosis in Non-Atopic Patients. Biomedicines, 9.","DOI":"10.3390\/biomedicines9070724"},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"825","DOI":"10.1016\/j.mucimm.2024.05.007","article-title":"Metabolically Active Neutrophils Represent a Permissive Niche for Mycobacterium tuberculosis","volume":"17","author":"Andrews","year":"2024","journal-title":"Mucosal Immunol."},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"102140","DOI":"10.1016\/j.tube.2021.102140","article-title":"Ferroptosis-Related Gene SOCS1, a Marker for Tuberculosis Diagnosis and Treatment, Involves in Macrophage Polarization and Facilitates Bone Destruction in Tuberculosis","volume":"132","author":"Liang","year":"2022","journal-title":"Tuberculosis"},{"key":"ref_49","doi-asserted-by":"crossref","unstructured":"Ma, R., Yang, W., Guo, W., Zhang, H., Wang, Z., and Ge, Z. (2025). Single-Cell Transcriptome Analysis Reveals the Dysregulated Monocyte State Associated with Tuberculosis Progression. BMC Infect. Dis., 25.","DOI":"10.1186\/s12879-025-10612-3"},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"16724","DOI":"10.1074\/jbc.RA118.004049","article-title":"Long-Chain Acyl-CoA Synthetase 1 Interacts with Key Proteins That Activate and Direct Fatty Acids into Niche Hepatic Pathways","volume":"293","author":"Young","year":"2018","journal-title":"J. Biol. Chem."},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"37246","DOI":"10.1074\/jbc.M604427200","article-title":"Overexpression of Rat Long Chain Acyl-CoA Synthetase 1 Alters Fatty Acid Metabolism in Rat Primary Hepatocytes","volume":"281","author":"Li","year":"2006","journal-title":"J. Biol. Chem."},{"key":"ref_52","doi-asserted-by":"crossref","first-page":"104919","DOI":"10.1016\/j.phrs.2020.104919","article-title":"The Application of Ferroptosis in Diseases","volume":"159","author":"Qiu","year":"2020","journal-title":"Pharmacol. Res."},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"258","DOI":"10.1002\/emmm.201000079","article-title":"Caseation of Human Tuberculosis Granulomas Correlates with Elevated Host Lipid Metabolism","volume":"2","author":"Kim","year":"2010","journal-title":"EMBO Mol. Med."},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"1787","DOI":"10.1016\/j.bbapap.2016.06.014","article-title":"NAD + Metabolism: Bioenergetics, Signaling and Manipulation for Therapy","volume":"1864","author":"Yang","year":"2016","journal-title":"Biochim. Biophys. Acta (BBA)-Proteins Proteom."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"12849","DOI":"10.1038\/ncomms12849","article-title":"PARP9 and PARP14 Cross-Regulate Macrophage Activation via STAT1 ADP-Ribosylation","volume":"7","author":"Iwata","year":"2016","journal-title":"Nat. Commun."},{"key":"ref_56","doi-asserted-by":"crossref","first-page":"eaay0233","DOI":"10.1126\/scitranslmed.aay0233","article-title":"Immune Correlates of Tuberculosis Disease and Risk Translate across Species","volume":"12","author":"Ahmed","year":"2020","journal-title":"Sci. Transl. Med."},{"key":"ref_57","doi-asserted-by":"crossref","unstructured":"Chen, Y.-C., Hsiao, C.-C., Chen, T.-W., Wu, C.-C., Chao, T.-Y., Leung, S.-Y., Eng, H.-L., Lee, C.-P., Wang, T.-Y., and Lin, M.-C. (2020). Whole Genome DNA Methylation Analysis of Active Pulmonary Tuberculosis Disease Identifies Novel Epigenotypes: PARP9\/MiR-505\/RASGRP4\/GNG12 Gene Methylation and Clinical Phenotypes. Int. J. Mol. Sci., 21.","DOI":"10.3390\/ijms21093180"},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"1318","DOI":"10.1093\/infdis\/jiy006","article-title":"Prospective Discrimination of Controllers From Progressors Early After Low-Dose Mycobacterium tuberculosis Infection of Cynomolgus Macaques Using Blood RNA Signatures","volume":"217","author":"Thompson","year":"2018","journal-title":"J. Infect. Dis."},{"key":"ref_59","doi-asserted-by":"crossref","unstructured":"Wei, J., Zhang, Y., Li, H., Wang, F., and Yao, S. (2023). Toll-like Receptor 4: A Potential Therapeutic Target for Multiple Human Diseases. Biomed. Pharmacother., 166.","DOI":"10.1016\/j.biopha.2023.115338"},{"key":"ref_60","doi-asserted-by":"crossref","first-page":"3010","DOI":"10.4049\/jimmunol.176.5.3010","article-title":"Myobacterium tuberculosis Induces Selective Up-Regulation of TLRs in the Mononuclear Leukocytes of Patients with Active Pulmonary Tuberculosis","volume":"176","author":"Chang","year":"2006","journal-title":"J. Immunol."},{"key":"ref_61","doi-asserted-by":"crossref","unstructured":"Feng, Z., Meng, F., Huo, F., Zhu, Y., Qin, Y., Gui, Y., Zhang, H., Lin, P., He, Q., and Li, Y. (2024). Inhibition of Ferroptosis Rescues M2 Macrophages and Alleviates Arthritis by Suppressing the HMGB1\/TLR4\/STAT3 Axis in M1 Macrophages. Redox Biol., 75.","DOI":"10.1016\/j.redox.2024.103255"},{"key":"ref_62","doi-asserted-by":"crossref","first-page":"205","DOI":"10.1038\/s41419-023-05716-0","article-title":"The Interaction between Ferroptosis and Inflammatory Signaling Pathways","volume":"14","author":"Chen","year":"2023","journal-title":"Cell Death Dis."},{"key":"ref_63","doi-asserted-by":"crossref","unstructured":"Fang, D., Xie, H., Hu, T., Shan, H., and Li, M. (2021). Binding Features and Functions of ATG3. Front. Cell Dev. Biol., 9.","DOI":"10.3389\/fcell.2021.685625"},{"key":"ref_64","doi-asserted-by":"crossref","unstructured":"Etna, M.P., Sinigaglia, A., Grassi, A., Giacomini, E., Romagnoli, A., Pardini, M., Severa, M., Cruciani, M., Rizzo, F., and Anastasiadou, E. (2018). Mycobacterium tuberculosis-Induced MiR-155 Subverts Autophagy by Targeting ATG3 in Human Dendritic Cells. PLoS Pathog., 14.","DOI":"10.1371\/journal.ppat.1006790"}],"container-title":["Genes"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2073-4425\/16\/6\/716\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,12,24]],"date-time":"2025-12-24T12:33:37Z","timestamp":1766579617000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2073-4425\/16\/6\/716"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,6,18]]},"references-count":64,"journal-issue":{"issue":"6","published-online":{"date-parts":[[2025,6]]}},"alternative-id":["genes16060716"],"URL":"https:\/\/doi.org\/10.3390\/genes16060716","relation":{},"ISSN":["2073-4425"],"issn-type":[{"value":"2073-4425","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,6,18]]}}}