{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,26]],"date-time":"2026-08-26T07:49:15Z","timestamp":1787730555306,"version":"build-2784847793"},"reference-count":161,"publisher":"MDPI AG","issue":"1","license":[{"start":{"date-parts":[[2024,12,24]],"date-time":"2024-12-24T00:00:00Z","timestamp":1734998400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Cells"],"abstract":"<jats:p>Inflammation can positively and negatively affect tumorigenesis based on the duration, scope, and sequence of related events through the regulation of signaling pathways. A transcriptomic analysis of five pulmonary arterial hypertension, twelve Crohn\u2019s disease, and twelve ulcerative colitis high throughput sequencing datasets using R language specialized libraries and gene enrichment analyses identified a regulatory network in each inflammatory disease. IRF9 and LINC01089 in pulmonary arterial hypertension are related to the regulation of signaling pathways like MAPK, NOTCH, human papillomavirus, and hepatitis c infection. ZNF91 and TP53TG1 in Crohn\u2019s disease are related to the regulation of PPAR, MAPK, and metabolic signaling pathways. ZNF91, VDR, DLEU1, SATB2-AS1, and TP53TG1 in ulcerative colitis are related to the regulation of PPAR, AMPK, and metabolic signaling pathways. The activation of the transcriptomic network and signaling pathways might be related to the interaction of the characteristic microbiota of the inflammatory disease, with the lung and gut cell receptors present in membrane rafts and complexes. The transcriptomic analysis highlights the impact of several coding and non-coding RNAs, suggesting their relationship with the unlocking of cell phenotypic plasticity for the acquisition of the hallmarks of cancer during lung and gut cell adaptation to inflammatory phenotypes.<\/jats:p>","DOI":"10.3390\/cells14010001","type":"journal-article","created":{"date-parts":[[2024,12,24]],"date-time":"2024-12-24T04:45:49Z","timestamp":1735015549000},"page":"1","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":9,"title":["Interplay of Transcriptomic Regulation, Microbiota, and Signaling Pathways in Lung and Gut Inflammation-Induced Tumorigenesis"],"prefix":"10.3390","volume":"14","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5668-0266","authenticated-orcid":false,"given":"Beatriz Andrea","family":"Ot\u00e1lora-Ot\u00e1lora","sequence":"first","affiliation":[{"name":"Grupo de Investigaci\u00f3n INPAC, Unidad de Investigaci\u00f3n, Fundaci\u00f3n Universitaria Sanitas, Bogot\u00e1 110131, Colombia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0633-1332","authenticated-orcid":false,"given":"C\u00e9sar","family":"Pay\u00e1n-G\u00f3mez","sequence":"additional","affiliation":[{"name":"Direcci\u00f3n Acad\u00e9mica, Universidad Nacional de Colombia, Sede de La Paz, La Paz 202017, Colombia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4989-4853","authenticated-orcid":false,"given":"Juan Javier","family":"L\u00f3pez-Rivera","sequence":"additional","affiliation":[{"name":"Grupo de Investigaci\u00f3n INPAC, Specialized Laboratory, Clinica Universitaria Colombia, Cl\u00ednica Colsanitas S.A., Bogot\u00e1 111321, Colombia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0003-7632-7931","authenticated-orcid":false,"given":"Natalia Bel\u00e9n","family":"Pedroza-Aconcha","sequence":"additional","affiliation":[{"name":"Direcci\u00f3n Acad\u00e9mica, Universidad Nacional de Colombia, Sede de La Paz, La Paz 202017, Colombia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sally Lorena","family":"Arboleda-Mojica","sequence":"additional","affiliation":[{"name":"Grupo de Investigaci\u00f3n INPAC, Facultad de Medicina, Fundaci\u00f3n Universitaria Sanitas, Bogot\u00e1 110131, Colombia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Claudia","family":"Aristiz\u00e1bal-Guzm\u00e1n","sequence":"additional","affiliation":[{"name":"Grupo de Investigaci\u00f3n INPAC, Unidad de Investigaci\u00f3n, Fundaci\u00f3n Universitaria Sanitas, Bogot\u00e1 110131, Colombia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mario Arturo","family":"Isaza-Ruget","sequence":"additional","affiliation":[{"name":"Keralty, Sanitas International Organization, Grupo de Investigaci\u00f3n INPAC, Fundaci\u00f3n Universitaria Sanitas, Bogot\u00e1 110131, Colombia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Carlos Arturo","family":"\u00c1lvarez-Moreno","sequence":"additional","affiliation":[{"name":"Infectious Diseases Department, Clinica Universitaria Colombia, Cl\u00ednica Colsanitas S.A., Bogot\u00e1 111321, Colombia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2024,12,24]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"151","DOI":"10.1016\/j.gendis.2021.09.006","article-title":"Inflammation and Cancer: Paradoxical Roles in Tumorigenesis and Implications in Immunotherapies","volume":"10","author":"Liu","year":"2023","journal-title":"Genes Dis."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"71","DOI":"10.1111\/apm.13030","article-title":"Infection and the Role in Cancer Development","volume":"128","author":"Nejsum","year":"2020","journal-title":"APMIS"},{"key":"ref_3","doi-asserted-by":"crossref","unstructured":"Doocey, C.M., Finn, K., Murphy, C., and Guinane, C.M. (2022). The Impact of the Human Microbiome in Tumorigenesis, Cancer Progression, and Biotherapeutic Development. BMC Microbiol., 22.","DOI":"10.1186\/s12866-022-02465-6"},{"key":"ref_4","doi-asserted-by":"crossref","unstructured":"Ot\u00e1lora-Ot\u00e1lora, B.A., L\u00f3pez-Rivera, J.J., Aristiz\u00e1bal-Guzm\u00e1n, C., Isaza-Ruget, M.A., and \u00c1lvarez-Moreno, C.A. (2023). Host Transcriptional Regulatory Genes and Microbiome Networks Crosstalk through Immune Receptors Establishing Normal and Tumor Multiomics Metafirm of the Oral-Gut-Lung Axis. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms242316638"},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"181","DOI":"10.1097\/PPO.0000000000000048","article-title":"Microbiome, Inflammation, and Cancer","volume":"20","author":"Francescone","year":"2014","journal-title":"Cancer J."},{"key":"ref_6","doi-asserted-by":"crossref","unstructured":"Rahman, M.M., Islam, M.R., Shohag, S., Ahasan, M.T., Sarkar, N., Khan, H., Hasan, A.M., Cavalu, S., and Rauf, A. (2022). Microbiome in Cancer: Role in Carcinogenesis and Impact in Therapeutic Strategies. Biomed. Pharmacother., 149.","DOI":"10.1016\/j.biopha.2022.112898"},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"327","DOI":"10.1186\/s13046-021-02128-w","article-title":"The Role of the Tumor Microbe Microenvironment in the Tumor Immune Microenvironment: Bystander, Activator, or Inhibitor?","volume":"40","author":"Ma","year":"2021","journal-title":"J. Exp. Clin. Cancer Res."},{"key":"ref_8","doi-asserted-by":"crossref","unstructured":"Jarmakiewicz-Czaja, S., Zieli\u0144ska, M., Sokal, A., and Filip, R. (2022). Genetic and Epigenetic Etiology of Inflammatory Bowel Disease: An Update. Genes, 13.","DOI":"10.1155\/2022\/4344905"},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"502","DOI":"10.1016\/j.toxrep.2024.04.010","article-title":"Genetic and Epigenetic Modulations in Toxicity: The Two-Sided Roles of Heavy Metals and Polycyclic Aromatic Hydrocarbons from the Environment","volume":"12","author":"Adegbola","year":"2024","journal-title":"Toxicol. Rep."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"434","DOI":"10.3390\/cimb45010029","article-title":"Lung Cancer Gene Regulatory Network of Transcription Factors Related to the Hallmarks of Cancer","volume":"45","author":"Rojas","year":"2023","journal-title":"Curr. Issues Mol. Biol."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"558","DOI":"10.1164\/rccm.200709-1369PP","article-title":"The Cancer Paradigm of Severe Pulmonary Arterial Hypertension","volume":"178","author":"Rai","year":"2008","journal-title":"Am. J. Respir. Crit. Care Med."},{"key":"ref_12","doi-asserted-by":"crossref","unstructured":"Wu, P., Zhu, T., Tan, Z., Chen, S., and Fang, Z. (2022). Role of Gut Microbiota in Pulmonary Arterial Hypertension. Front. Cell. Infect. Microbiol., 12.","DOI":"10.3389\/fcimb.2022.812303"},{"key":"ref_13","doi-asserted-by":"crossref","unstructured":"Tian, Y., Cheng, C., Wei, Y., Yang, F., and Li, G. (2022). The Role of Exosomes in Inflammatory Diseases and Tumor-Related Inflammation. Cells, 11.","DOI":"10.3390\/cells11061005"},{"key":"ref_14","first-page":"e202010","article-title":"Cancer and Pulmonary Hypertension: Learning Lessons and Real-Life Interplay","volume":"2020","author":"Pullamsetti","year":"2020","journal-title":"Glob. Cardiol. Sci. Pract."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"e12000","DOI":"10.1002\/pul2.12000","article-title":"Pulmonary Hypertension Is Associated with an Increased Incidence of Cancer Diagnoses","volume":"12","author":"Roderburg","year":"2022","journal-title":"Pulm. Circ."},{"key":"ref_16","doi-asserted-by":"crossref","unstructured":"Ot\u00e1lora-Ot\u00e1lora, B.A., Florez, M., L\u00f3pez-Kleine, L., Canas Arboleda, A., Grajales Urrego, D.M., and Rojas, A. (2019). Joint Transcriptomic Analysis of Lung Cancer and Other Lung Diseases. Front. Genet., 10.","DOI":"10.3389\/fgene.2019.01260"},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"L1115","DOI":"10.1152\/ajplung.00476.2019","article-title":"The Hallmarks of Severe Pulmonary Arterial Hypertension: The Cancer Hypothesis-Ten Years Later","volume":"318","author":"Cool","year":"2020","journal-title":"Am. J. Physiol. Lung Cell. Mol. Physiol."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"260","DOI":"10.1164\/rccm.201108-1536PP","article-title":"Targeting Energetic Metabolism: A New Frontier in the Pathogenesis and Treatment of Pulmonary Hypertension","volume":"185","author":"Tuder","year":"2012","journal-title":"Am. J. Respir. Crit. Care Med."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"L548","DOI":"10.1152\/ajplung.00428.2006","article-title":"Hyperproliferative Apoptosis-Resistant Endothelial Cells in Idiopathic Pulmonary Arterial Hypertension","volume":"293","author":"Masri","year":"2007","journal-title":"Am. J. Physiol. Lung Cell. Mol. Physiol."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"285","DOI":"10.1177\/2045893217701438","article-title":"The Cancer Theory of Pulmonary Arterial Hypertension","volume":"7","author":"Boucherat","year":"2017","journal-title":"Pulm. Circ."},{"key":"ref_21","doi-asserted-by":"crossref","unstructured":"Pokharel, M.D., Marciano, D.P., Fu, P., Franco, M.C., Unwalla, H., Tieu, K., Fineman, J.R., Wang, T., and Black, S.M. (2023). Metabolic Reprogramming, Oxidative Stress, and Pulmonary Hypertension. Redox Biol., 64.","DOI":"10.1016\/j.redox.2023.102797"},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"5638","DOI":"10.1172\/JCI137558","article-title":"Hypoxia-Inducible Factor Signaling in Pulmonary Hypertension","volume":"130","author":"Pullamsetti","year":"2020","journal-title":"J. Clin. Investig."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"155","DOI":"10.1016\/j.mayocp.2018.09.013","article-title":"Mechanisms of Disease: Inflammatory Bowel Diseases","volume":"94","author":"Ramos","year":"2019","journal-title":"Mayo Clin. Proc."},{"key":"ref_24","doi-asserted-by":"crossref","unstructured":"Cui, G., and Yuan, A. (2018). A Systematic Review of Epidemiology and Risk Factors Associated with Chinese Inflammatory Bowel Disease. Front. Med., 5.","DOI":"10.3389\/fmed.2018.00183"},{"key":"ref_25","doi-asserted-by":"crossref","unstructured":"Fanizza, J., Bencardino, S., Allocca, M., Furfaro, F., Zilli, A., Parigi, T.L., Fiorino, G., Peyrin-Biroulet, L., Danese, S., and D\u2019Amico, F. (2024). Inflammatory Bowel Disease and Colorectal Cancer. Cancers, 16.","DOI":"10.20944\/preprints202407.2568.v1"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"1077","DOI":"10.1007\/s00432-020-03496-0","article-title":"Inflammatory Bowel Disease and Risk of Gastric, Small Bowel and Colorectal Cancer: A Meta-Analysis of 26 Observational Studies","volume":"147","author":"Wan","year":"2021","journal-title":"J. Cancer Res. Clin. Oncol."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"547","DOI":"10.4251\/wjgo.v14.i3.547","article-title":"Inflammatory Bowel Disease-Related Colorectal Cancer: Past, Present and Future Perspectives","volume":"14","author":"Majumder","year":"2022","journal-title":"World J. Gastrointest. Oncol."},{"key":"ref_28","doi-asserted-by":"crossref","unstructured":"Burgos-Molina, A.M., T\u00e9llez Santana, T., Redondo, M., and Bravo Romero, M.J. (2024). The Crucial Role of Inflammation and the Immune System in Colorectal Cancer Carcinogenesis: A Comprehensive Perspective. Int. J. Mol. Sci., 25.","DOI":"10.3390\/ijms25116188"},{"key":"ref_29","doi-asserted-by":"crossref","unstructured":"Huang, L., Zhang, H., Liu, Y., and Long, Y. (2022). The Role of Gut and Airway Microbiota in Pulmonary Arterial Hypertension. Front. Microbiol., 13.","DOI":"10.3389\/fmicb.2022.929752"},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"27","DOI":"10.21037\/tgh-23-36","article-title":"From Random to Precise: Updated Colon Cancer Screening and Surveillance for Inflammatory Bowel Disease","volume":"9","author":"Fatakhova","year":"2024","journal-title":"Transl. Gastroenterol. Hepatol."},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"100829","DOI":"10.1016\/j.neo.2022.100829","article-title":"Microbiota-Driven Mechanisms at Different Stages of Cancer Development","volume":"32","author":"Ivleva","year":"2022","journal-title":"Neoplasia"},{"key":"ref_32","doi-asserted-by":"crossref","unstructured":"Armstrong, H., Bording-Jorgensen, M., Dijk, S., and Wine, E. (2018). The Complex Interplay between Chronic Inflammation, the Microbiome, and Cancer: Understanding Disease Progression and What We Can Do to Prevent It. Cancers, 10.","DOI":"10.3390\/cancers10030083"},{"key":"ref_33","doi-asserted-by":"crossref","unstructured":"Potrykus, M., Czaja-Stolc, S., Stankiewicz, M., Kaska, \u0141., and Ma\u0142gorzewicz, S. (2021). Intestinal Microbiota as a Contributor to Chronic Inflammation and Its Potential Modifications. Nutrients, 13.","DOI":"10.3390\/nu13113839"},{"key":"ref_34","doi-asserted-by":"crossref","unstructured":"Pe\u00f1a-Romero, A.C., and Orenes-Pi\u00f1ero, E. (2022). Dual Effect of Immune Cells within Tumour Microenvironment: Pro-and Anti-Tumour Effects and Their Triggers. Cancers, 14.","DOI":"10.3390\/cancers14071681"},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"uqad032","DOI":"10.1093\/femsml\/uqad032","article-title":"Epigenetic Effects of Short-Chain Fatty Acids from the Large Intestine on Host Cells","volume":"4","author":"Stein","year":"2023","journal-title":"MicroLife"},{"key":"ref_36","doi-asserted-by":"crossref","unstructured":"Ot\u00e1lora-Ot\u00e1lora, B.A., Pay\u00e1n-G\u00f3mez, C., L\u00f3pez-Rivera, J.J., Pedroza-Aconcha, N.B., Aristiz\u00e1bal-Guzm\u00e1n, C., Isaza-Ruget, M.A., and \u00c1lvarez-Moreno, C.A. (2024). Global Transcriptomic Network Analysis of the Crosstalk between Microbiota and Cancer-Related Cells in the Oral-Gut-Lung Axis. Front. Cell Infect. Microbiol., 14.","DOI":"10.3389\/fcimb.2024.1425388"},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"W459","DOI":"10.1093\/nar\/gkab435","article-title":"NcFANs v2.0: An Integrative Platform for Functional Annotation of Non-Coding RNAs","volume":"49","author":"Zhang","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"ref_38","doi-asserted-by":"crossref","unstructured":"Otasek, D., Morris, J.H., Bou\u00e7as, J., Pico, A.R., and Demchak, B. (2019). Cytoscape Automation: Empowering Workflow-Based Network Analysis. Genome Biol., 20.","DOI":"10.1186\/s13059-019-1758-4"},{"key":"ref_39","doi-asserted-by":"crossref","unstructured":"Huynh-Thu, V.A., Irrthum, A., Wehenkel, L., and Geurts, P. (2010). Inferring Regulatory Networks from Expression Data Using Tree-Based Methods. PLoS ONE, 5.","DOI":"10.1371\/journal.pone.0012776"},{"key":"ref_40","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1007\/s10142-021-00821-9","article-title":"BioNERO: An All-in-One R\/Bioconductor Package for Comprehensive and Easy Biological Network Reconstruction","volume":"22","author":"Venancio","year":"2022","journal-title":"Funct. Integr. Genom."},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"W216","DOI":"10.1093\/nar\/gkac194","article-title":"DAVID: A Web Server for Functional Enrichment Analysis and Functional Annotation of Gene Lists (2021 Update)","volume":"50","author":"Sherman","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"W305","DOI":"10.1093\/nar\/gkp427","article-title":"ToppGene Suite for Gene List Enrichment Analysis and Candidate Gene Prioritization","volume":"37","author":"Chen","year":"2009","journal-title":"Nucleic Acids Res."},{"key":"ref_43","doi-asserted-by":"crossref","unstructured":"Scorrano, G., Laura, B., Spiaggia, R., Basile, A., Palmucci, S., Foti, P.V., David, E., Marinangeli, F., Mascilini, I., and Corsello, A. (2023). Neuroimaging in PRUNE1 Syndrome: A Mini-Review of the Literature. Front. Neurol., 14.","DOI":"10.3389\/fneur.2023.1301147"},{"key":"ref_44","doi-asserted-by":"crossref","unstructured":"Bibb\u00f2, F., Sorice, C., Ferrucci, V., and Zollo, M. (2021). Functional Genomics of PRUNE1 in Neurodevelopmental Disorders (NDDs) Tied to Medulloblastoma (MB) and Other Tumors. Front. Oncol., 11.","DOI":"10.3389\/fonc.2021.758146"},{"key":"ref_45","doi-asserted-by":"crossref","unstructured":"Zhou, Z., Yang, Z., Zhou, L., Yang, M., and He, S. (2023). The Versatile Roles of Testrapanins in Cancer from Intracellular Signaling to Cell\u2013Cell Communication: Cell Membrane Proteins without Ligands. Cell Biosci., 13.","DOI":"10.1186\/s13578-023-00995-8"},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"8815","DOI":"10.2147\/OTT.S167902","article-title":"TSPAN7 Promotes the Migration and Proliferation of Lung Cancer Cells via Epithelial-to-Mesenchymal Transition","volume":"11","author":"Wang","year":"2018","journal-title":"OncoTargets Ther."},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1183\/13993003.01913-2018","article-title":"Haemodynamic Definitions and Updated Clinical Classification of Pulmonary Hypertension","volume":"53","author":"Simonneau","year":"2019","journal-title":"Eur. Respir. J."},{"key":"ref_48","doi-asserted-by":"crossref","unstructured":"Liu, S.F., Nambiar Veetil, N., Li, Q., Kucherenko, M.M., Knosalla, C., and Kuebler, W.M. (2022). Pulmonary Hypertension: Linking Inflammation and Pulmonary Arterial Stiffening. Front. Immunol., 13.","DOI":"10.3389\/fimmu.2022.959209"},{"key":"ref_49","doi-asserted-by":"crossref","unstructured":"Zhao, Y.D., Chu, L., Lin, K., Granton, E., Yin, L., Peng, J., Hsin, M., Wu, L., Yu, A., and Waddell, T. (2015). A Biochemical Approach to Understand the Pathogenesis of Advanced Pulmonary Arterial Hypertension: Metabolomic Profiles of Arginine, Sphingosine-1-Phosphate, and Heme of Human Lung. PLoS ONE, 10.","DOI":"10.1371\/journal.pone.0134958"},{"key":"ref_50","doi-asserted-by":"crossref","unstructured":"Zhao, Y., Peng, J., Lu, C., Hsin, M., Mura, M., Wu, L., Chu, L., Zamel, R., Machuca, T., and Waddell, T. (2014). Metabolomic Heterogeneity of Pulmonary Arterial Hypertension. PLoS ONE, 9.","DOI":"10.1371\/journal.pone.0088727"},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"1169","DOI":"10.1007\/s11306-014-0653-y","article-title":"De Novo Synthesize of Bile Acids in Pulmonary Arterial Hypertension Lung","volume":"10","author":"Zhao","year":"2014","journal-title":"Metabolomics"},{"key":"ref_52","doi-asserted-by":"crossref","first-page":"329","DOI":"10.1164\/rccm.202307-1310OC","article-title":"Digital Spatial Profiling Identifies Distinct Molecular Signatures of Vascular Lesions in Pulmonary Arterial Hypertension","volume":"3","author":"Tuder","year":"2024","journal-title":"Am. J. Respir. Crit. Care Med."},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"637","DOI":"10.1165\/rcmb.2018-0368OC","article-title":"Systems Analysis of the Human Pulmonary Arterial Hypertension Lung Transcriptome","volume":"60","author":"Stearman","year":"2019","journal-title":"Am. J. Respir. Cell Mol. Biol."},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"2045894020968531","DOI":"10.1177\/2045894020968531","article-title":"Transcriptomic Profiles in Pulmonary Arterial Hypertension Associate with Disease Severity and Identify Novel Candidate Genes","volume":"10","author":"Romanoski","year":"2020","journal-title":"Pulm. Circ."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"1235","DOI":"10.1152\/ajpheart.00254.2009","article-title":"Genomewide RNA Expression Profiling in Lung Identifies Distinct Signatures in Idiopathic Pulmonary Arterial Hypertension and Secondary Pulmonary Hypertension","volume":"298","author":"Rajkumar","year":"2010","journal-title":"Am. J. Physiol. Heart Circ. Physiol."},{"key":"ref_56","doi-asserted-by":"crossref","first-page":"1104","DOI":"10.1111\/resp.13557","article-title":"Osteopontin Lung Gene Expression Is a Marker of Disease Severity in Pulmonary Arterial Hypertension","volume":"24","author":"Mura","year":"2019","journal-title":"Respirology"},{"key":"ref_57","doi-asserted-by":"crossref","unstructured":"Sharma, B.R., Karki, R., Sundaram, B., Wang, Y., Vogel, P., and Kanneganti, T.D. (2022). The Transcription Factor IRF9 Promotes Colorectal Cancer via Modulating the IL-6\/STAT3 Signaling Axis. Cancers, 14.","DOI":"10.3390\/cancers14040919"},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"282","DOI":"10.1038\/s41392-024-01980-4","article-title":"The Multiple Roles of Interferon Regulatory Factor Family in Health and Disease","volume":"9","author":"Wang","year":"2024","journal-title":"Signal Transduct. Target. Ther."},{"key":"ref_59","doi-asserted-by":"crossref","unstructured":"Chen, Y.-J., Li, Y., Guo, X., Huo, B., Chen, Y., He, Y., Xiao, R., Zhu, X.-H., Jiang, D.-S., and Wei, X. (2021). Upregulation of IRF9 Contributes to Pulmonary Artery Smooth Muscle Cell Proliferation During Pulmonary Arterial Hypertension. Front. Pharmacol., 12.","DOI":"10.3389\/fphar.2021.773235"},{"key":"ref_60","doi-asserted-by":"crossref","first-page":"987","DOI":"10.1038\/s12276-023-00990-6","article-title":"An MRTF-A\u2013ZEB1\u2013IRF9 Axis Contributes to Fibroblast\u2013Myofibroblast Transition and Renal Fibrosis","volume":"55","author":"Zhao","year":"2023","journal-title":"Exp. Mol. Med."},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"1899","DOI":"10.4049\/jimmunol.2300081","article-title":"Twist1\u2013IRF9 Interaction Is Necessary for IFN-Stimulated Gene Anti-Zika Viral Infection","volume":"210","author":"You","year":"2023","journal-title":"J. Immunol."},{"key":"ref_62","doi-asserted-by":"crossref","unstructured":"Zhou, Y., Wang, F., Li, G., Xu, J., Zhang, J., Gullen, E., Yang, J., and Wang, J. (2024). From Immune Checkpoints to Therapies: Understanding Immune Checkpoint Regulation and the Influence of Natural Products and Traditional Medicine on Immune Checkpoint and Immunotherapy in Lung Cancer. Front. Immunol., 15.","DOI":"10.3389\/fimmu.2024.1340307"},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"4080","DOI":"10.1158\/0008-5472.CAN-23-0544","article-title":"Super Enhancer\u2013Regulated LncRNA LINC01089 Induces Alternative Splicing of DIAPH3 to Drive Hepatocellular Carcinoma Metastasis","volume":"83","author":"Su","year":"2023","journal-title":"Cancer Res."},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"858","DOI":"10.1186\/s12967-024-05693-8","article-title":"LINC01089 in Cancer: Multifunctional Roles and Therapeutic Implications","volume":"22","author":"Yi","year":"2024","journal-title":"J. Transl. Med."},{"key":"ref_65","doi-asserted-by":"crossref","first-page":"769","DOI":"10.1016\/j.tim.2018.04.001","article-title":"Emerging Role of Retromer in Modulating Pathogen Growth","volume":"26","author":"Elwell","year":"2018","journal-title":"Trends Microbiol."},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"113","DOI":"10.25122\/jml-2018-0075","article-title":"A Review of the Diagnosis, Prevention, and Treatment Methods of Inflammatory Bowel Disease","volume":"12","author":"Seyedian","year":"2019","journal-title":"J. Med. Life"},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"807","DOI":"10.1002\/ibd.20110","article-title":"Genome-Wide Gene Expression Differences in Crohn\u2019s Disease and Ulcerative Colitis from Endoscopic Pinch Biopsies: Insights into Distinctive Pathogenesis","volume":"13","author":"Wu","year":"2007","journal-title":"Inflamm. Bowel Dis."},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"1335","DOI":"10.1093\/ecco-jcc\/jjx091","article-title":"Usefulness of Transcriptional Blood Biomarkers as a Non-Invasive Surrogate Marker of Mucosal Healing and Endoscopic Response in Ulcerative Colitis","volume":"11","author":"Planell","year":"2017","journal-title":"J. Crohns Colitis"},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"111439","DOI":"10.1016\/j.celrep.2022.111439","article-title":"Cytokine Responsive Networks in Human Colonic Epithelial Organoids Unveil a Molecular Classification of Inflammatory Bowel Disease","volume":"40","author":"Pavlidis","year":"2022","journal-title":"Cell Rep."},{"key":"ref_70","doi-asserted-by":"crossref","first-page":"1437","DOI":"10.1038\/ng.3947","article-title":"A Functional Genomics Predictive Network Model Identifies Regulators of Inflammatory Bowel Disease","volume":"49","author":"Peters","year":"2017","journal-title":"Nat. Genet."},{"key":"ref_71","doi-asserted-by":"crossref","first-page":"2245","DOI":"10.4049\/jimmunol.2100220","article-title":"Regulation and Role of AE Integrin and Gut Homing Integrins in Migration and Retention of Intestinal Lymphocytes during Inflammatory Bowel Disease","volume":"207","author":"Keir","year":"2021","journal-title":"J. Immunol."},{"key":"ref_72","doi-asserted-by":"crossref","first-page":"1269","DOI":"10.1093\/ecco-jcc\/jjac021","article-title":"Identification of Gene Expression Profiles Associated with an Increased Risk of Post-Operative Recurrence in Crohn\u2019s Disease","volume":"16","author":"Ngollo","year":"2022","journal-title":"J. Crohns Colitis"},{"key":"ref_73","doi-asserted-by":"crossref","unstructured":"Palmer, N.P., Silvester, J.A., Lee, J.J., Beam, A.L., Fried, I., Valtchinov, V.I., Rahimov, F., Kong, S.W., Ghodoussipour, S., and Hood, H.C. (2019). Concordance between Gene Expression in Peripheral Whole Blood and Colonic Tissue in Children with Inflammatory Bowel Disease. PLoS ONE, 14.","DOI":"10.1371\/journal.pone.0222952"},{"key":"ref_74","doi-asserted-by":"crossref","first-page":"916","DOI":"10.1093\/ecco-jcc\/jjz007","article-title":"Gene and Mirna Regulatory Networks During Different Stages of Crohn\u2019s Disease","volume":"13","author":"Verstockt","year":"2019","journal-title":"J. Crohns Colitis"},{"key":"ref_75","doi-asserted-by":"crossref","first-page":"1718","DOI":"10.1097\/MIB.0000000000001246","article-title":"Genetic and Transcriptomic Bases of Intestinal Epithelial Barrier Dysfunction in Inflammatory Bowel Disease","volume":"23","author":"Vancamelbeke","year":"2017","journal-title":"Inflamm. Bowel Dis."},{"key":"ref_76","doi-asserted-by":"crossref","first-page":"2673","DOI":"10.1097\/MIB.0000000000000535","article-title":"Strong Upregulation of AIM2 and IFI16 Inflammasomes in the Mucosa of Patients with Active Inflammatory Bowel Disease","volume":"21","author":"Vanhove","year":"2015","journal-title":"Inflamm. Bowel Dis."},{"key":"ref_77","doi-asserted-by":"crossref","first-page":"1717","DOI":"10.1002\/ibd.21263","article-title":"Characterization of Intestinal Gene Expression Profiles in Crohn\u2019s Disease by Genome-Wide Microarray Analysis","volume":"16","author":"Noble","year":"2010","journal-title":"Inflamm. Bowel Dis."},{"key":"ref_78","doi-asserted-by":"crossref","unstructured":"Ye, S., Lyu, Y., Chen, L., Wang, Y., He, Y., Li, Q., Tian, L., Liu, F., Wang, X., and Ai, F. (2023). Construction of a Molecular Inflammatory Predictive Model with Histone Modification-Related Genes and Identification of CAMK2D as a Potential Response Signature to Infliximab in Ulcerative Colitis. Front. Immunol., 14.","DOI":"10.3389\/fimmu.2023.1282136"},{"key":"ref_79","doi-asserted-by":"crossref","first-page":"2340","DOI":"10.1097\/MIB.0000000000000235","article-title":"Transcriptional Analysis of Left-Sided Colitis, Pancolitis, and Ulcerative Colitis-Associated Dysplasia","volume":"20","author":"Bjerrum","year":"2014","journal-title":"Inflamm. Bowel Dis."},{"key":"ref_80","doi-asserted-by":"crossref","unstructured":"Van der Goten, J., Vanhove, W., Lemaire, K., Van Lommel, L., Machiels, K., Wollants, W.-J., De Preter, V., De Hertogh, G., Ferrante, M., and Van Assche, G. (2015). Integrated MiRNA and MRNA Expression Profiling in Inflamed Colon of Patients with Ulcerative Colitis. PLoS ONE, 9.","DOI":"10.1371\/journal.pone.0116117"},{"key":"ref_81","doi-asserted-by":"crossref","first-page":"85","DOI":"10.1053\/j.gastro.2013.05.048","article-title":"Subcutaneous Golimumab Induces Clinical Response and Remission in Patients with Moderate-to-Severe Ulcerative Colitis","volume":"146","author":"Sandborn","year":"2014","journal-title":"Gastroenterology"},{"key":"ref_82","doi-asserted-by":"crossref","first-page":"1211","DOI":"10.1038\/ng.203","article-title":"Loci on 20q13 and 21q22 Are Associated with Pediatric-Onset Inflammatory Bowel Disease","volume":"40","author":"Kugathasan","year":"2008","journal-title":"Nat. Genet."},{"key":"ref_83","doi-asserted-by":"crossref","first-page":"1398","DOI":"10.1136\/gut.2008.148395","article-title":"Regional Variation in Gene Expression in the Healthy Colon Is Dysregulated in Ulcerative Colitis","volume":"57","author":"Noble","year":"2008","journal-title":"Gut"},{"key":"ref_84","doi-asserted-by":"crossref","unstructured":"Montero-Mel\u00e9ndez, T., Llor, X., Garc\u00eda-Planella, E., Perretti, M., and Su\u00e1rez, A. (2013). Identification of Novel Predictor Classifiers for Inflammatory Bowel Disease by Gene Expression Profiling. PLoS ONE, 8.","DOI":"10.1371\/journal.pone.0076235"},{"key":"ref_85","doi-asserted-by":"crossref","first-page":"242","DOI":"10.1038\/nature13760","article-title":"An Evolutionary Arms Race between KRAB Zinc-Finger Genes ZNF91\/93 and SVA\/L1 Retrotransposons","volume":"516","author":"Jacobs","year":"2014","journal-title":"Nature"},{"key":"ref_86","doi-asserted-by":"crossref","unstructured":"Hong, K., Yang, Q., Yin, H., Wei, N., Wang, W., and Yu, B. (2023). Comprehensive Analysis of ZNF Family Genes in Prognosis, Immunity, and Treatment of Esophageal Cancer. BMC Cancer, 23.","DOI":"10.1186\/s12885-023-10779-5"},{"key":"ref_87","doi-asserted-by":"crossref","first-page":"584","DOI":"10.1101\/gr.4843906","article-title":"Evolutionary Expansion and Divergence in the ZNF91 Subfamily of Primate-Specific Zinc Finger Genes","volume":"16","author":"Hamilton","year":"2006","journal-title":"Genome Res."},{"key":"ref_88","first-page":"E7535","article-title":"Epigenetic Inactivation of the P53-Induced Long Noncoding RNA TP53 Target 1 in Human Cancer","volume":"113","author":"Crujeiras","year":"2016","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_89","doi-asserted-by":"crossref","unstructured":"Lu, Q., Guo, Q., Xin, M., Lim, C., Gamero, A.M., Gerhard, G.S., and Yang, L. (2021). Lncrna Tp53tg1 Promotes the Growth and Migration of Hepatocellular Carcinoma Cells via Activation of Erk Signaling. Noncoding RNA, 7.","DOI":"10.3390\/ncrna7030052"},{"key":"ref_90","doi-asserted-by":"crossref","unstructured":"El-Sharkawy, A., and Malki, A. (2020). Vitamin D Signaling in Inflammation and Cancer: Molecular Mechanisms and Therapeutic Implications. Molecules, 25.","DOI":"10.3390\/molecules25143219"},{"key":"ref_91","doi-asserted-by":"crossref","first-page":"1672","DOI":"10.1093\/ecco-jcc\/jjae074","article-title":"Influence of Vitamin D Receptor Signalling and Vitamin D on Colonic Epithelial Cell Fate Decisions in Ulcerative Colitis","volume":"18","author":"Kellermann","year":"2024","journal-title":"J. Crohns Colitis"},{"key":"ref_92","doi-asserted-by":"crossref","first-page":"101377","DOI":"10.11131\/2018\/101377","article-title":"Regulation of Microbiota by Vitamin D Receptor: A Nuclear Weapon in Metabolic Diseases","volume":"5","author":"Bakke","year":"2018","journal-title":"Nucl. Recept. Res."},{"key":"ref_93","doi-asserted-by":"crossref","unstructured":"Chatterjee, I., Lu, R., Zhang, Y., Zhang, J., Dai, Y., Xia, Y., and Sun, J. (2020). Vitamin D Receptor Promotes Healthy Microbial Metabolites and Microbiome. Sci. Rep., 10.","DOI":"10.1038\/s41598-020-64226-7"},{"key":"ref_94","doi-asserted-by":"crossref","first-page":"1261","DOI":"10.3390\/cancers5041261","article-title":"Peroxisome Proliferator-Activated Receptor and Vitamin D Receptor Signaling Pathways in Cancer Cells","volume":"5","author":"Matsuda","year":"2013","journal-title":"Cancers"},{"key":"ref_95","doi-asserted-by":"crossref","first-page":"1742","DOI":"10.2174\/1381612826666200122145305","article-title":"DLEU1: A Functional Long Noncoding RNA in Tumorigenesis","volume":"26","author":"Song","year":"2020","journal-title":"Curr. Pharm. Des."},{"key":"ref_96","doi-asserted-by":"crossref","unstructured":"Aboudehen, K. (2020). Regulation of MTOR Signaling by Long Non-Coding RNA. Biochim. Biophys. Acta Gene Regul. Mech., 1863.","DOI":"10.1016\/j.bbagrm.2019.194449"},{"key":"ref_97","doi-asserted-by":"crossref","first-page":"4801","DOI":"10.3892\/mmr.2020.11573","article-title":"MiR-31 Promotes Tumorigenesis in Ulcerative Colitis-Associated Neoplasia via Downregulation of SATB2","volume":"22","author":"Song","year":"2020","journal-title":"Mol. Med. Rep."},{"key":"ref_98","doi-asserted-by":"crossref","first-page":"100491","DOI":"10.1016\/j.jbo.2023.100491","article-title":"LncRNA SATB2-AS1 Promotes Tumor Growth and Metastasis and Affects the Tumor Immune Microenvironment in Osteosarcoma by Regulating SATB2","volume":"41","author":"Wang","year":"2023","journal-title":"J. Bone Oncol."},{"key":"ref_99","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1186\/s12943-019-1063-6","article-title":"LncRNA SATB2-AS1 Inhibits Tumor Metastasis and Affects the Tumor Immune Cell Microenvironment in Colorectal Cancer by Regulating SATB2","volume":"18","author":"Xu","year":"2019","journal-title":"Mol. Cancer"},{"key":"ref_100","doi-asserted-by":"crossref","first-page":"3542","DOI":"10.1158\/0008-5472.CAN-18-2900","article-title":"SATB2-AS1 Suppresses Colorectal Carcinoma Aggressiveness by Inhibiting SATB2-Dependent Snail Transcription and Epithelial\u2013Mesenchymal Transition","volume":"79","author":"Wang","year":"2019","journal-title":"Cancer Res."},{"key":"ref_101","doi-asserted-by":"crossref","first-page":"1909","DOI":"10.1038\/s12276-024-01307-x","article-title":"The Roles and Mechanisms of Coding and Noncoding RNA Variations in Cancer","volume":"56","author":"Kim","year":"2024","journal-title":"Exp. Mol. Med."},{"key":"ref_102","doi-asserted-by":"crossref","unstructured":"Actis, G.C., Pellicano, R., Fagoonee, S., and Ribaldone, D.G. (2019). History of Inflammatory Bowel Diseases. J. Clin. Med., 8.","DOI":"10.3390\/jcm8111970"},{"key":"ref_103","doi-asserted-by":"crossref","unstructured":"Ripa, I., Andreu, S., L\u00f3pez-Guerrero, J.A., and Bello-Morales, R. (2021). Membrane Rafts: Portals for Viral Entry. Front. Microbiol., 12.","DOI":"10.3389\/fmicb.2021.631274"},{"key":"ref_104","doi-asserted-by":"crossref","first-page":"884","DOI":"10.1038\/s41573-020-0086-4","article-title":"Targeting Receptor Complexes: A New Dimension in Drug Discovery","volume":"19","author":"Rosenbaum","year":"2020","journal-title":"Nat. Rev. Drug Discov."},{"key":"ref_105","doi-asserted-by":"crossref","first-page":"109929","DOI":"10.1016\/j.cellsig.2021.109929","article-title":"Lipid Rafts as Platforms for Sphingosine 1-Phosphate Metabolism and Signalling","volume":"80","author":"Prioni","year":"2021","journal-title":"Cell. Signal."},{"key":"ref_106","doi-asserted-by":"crossref","unstructured":"Gluschke, H., Siegert, E., Minich, W.B., Hackler, J., Riemekasten, G., Kuebler, W.M., Simmons, S., and Schomburg, L. (2022). Autoimmunity to Sphingosine-1-Phosphate-Receptors in Systemic Sclerosis and Pulmonary Arterial Hypertension. Front. Immunol., 13.","DOI":"10.3389\/fimmu.2022.935787"},{"key":"ref_107","doi-asserted-by":"crossref","first-page":"3671","DOI":"10.1111\/cas.13802","article-title":"The Role of Sphingosine-1-Phosphate in Inflammation and Cancer Progression","volume":"109","author":"Nagahashi","year":"2018","journal-title":"Cancer Sci."},{"key":"ref_108","doi-asserted-by":"crossref","first-page":"369","DOI":"10.1186\/s13046-019-1369-7","article-title":"S1PR1 Promotes Proliferation and Inhibits Apoptosis of Esophageal Squamous Cell Carcinoma through Activating STAT3 Pathway","volume":"38","author":"Liu","year":"2019","journal-title":"J. Exp. Clin. Cancer Res."},{"key":"ref_109","doi-asserted-by":"crossref","unstructured":"Thomas, S., Samuel, S.V., Hoch, A., Syphurs, C., and Diray-Arce, J. (2023). The Implication of Sphingolipids in Viral Infections. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms242417303"},{"key":"ref_110","doi-asserted-by":"crossref","unstructured":"Sun, G., Wang, B., Wu, X., Cheng, J., Ye, J., Wang, C., Zhu, H., and Liu, X. (2024). How Do Sphingosine-1-Phosphate Affect Immune Cells to Resolve Inflammation?. Front. Immunol., 15.","DOI":"10.3389\/fimmu.2024.1362459"},{"key":"ref_111","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1016\/j.diff.2018.07.003","article-title":"Presenilin Gene Function and Notch Signaling Feedback Regulation in the Developing Mouse Lens","volume":"102","author":"Azimi","year":"2018","journal-title":"Differentiation"},{"key":"ref_112","doi-asserted-by":"crossref","first-page":"1007","DOI":"10.1016\/j.bbadis.2011.02.014","article-title":"PPARs Are a Unique Set of Fatty Acid Regulated Transcription Factors Controlling Both Lipid Metabolism and Inflammation","volume":"1812","author":"Varga","year":"2011","journal-title":"Biochim. Biophys. Acta Mol. Basis Dis."},{"key":"ref_113","doi-asserted-by":"crossref","first-page":"246","DOI":"10.1016\/j.pharmthera.2009.03.003","article-title":"Significance of Peroxisome Proliferator-Activated Receptors in the Cardiovascular System in Health and Disease","volume":"122","author":"Robinson","year":"2009","journal-title":"Pharmacol. Ther."},{"key":"ref_114","doi-asserted-by":"crossref","first-page":"1830626","DOI":"10.1155\/2017\/1830626","article-title":"The Interplay between Metabolism, PPAR Signaling Pathway, and Cancer","volume":"2017","author":"Fanale","year":"2017","journal-title":"PPAR Res."},{"key":"ref_115","doi-asserted-by":"crossref","first-page":"332","DOI":"10.1016\/j.clnu.2023.12.005","article-title":"Peroxisome Proliferator-Activated Receptors: A Key Link between Lipid Metabolism and Cancer Progression","volume":"43","author":"Li","year":"2024","journal-title":"Clin. Nutr."},{"key":"ref_116","doi-asserted-by":"crossref","first-page":"110558","DOI":"10.1016\/j.cellsig.2022.110558","article-title":"\u03b2-Arrestins and G Protein-Coupled Receptor Kinases in Viral Entry: A Graphical Review","volume":"102","author":"Maginnis","year":"2023","journal-title":"Cell. Signal."},{"key":"ref_117","doi-asserted-by":"crossref","unstructured":"Mahadik, K., Prakhar, P., Rajmani, R.S., Singh, A., and Balaji, K.N. (2018). C-Abl-TWIST1 Epigenetically Dysregulate Inflammatory Responses during Mycobacterial Infection by Co-Regulating Bone Morphogenesis Protein and MiR27a. Front. Immunol., 9.","DOI":"10.3389\/fimmu.2018.00085"},{"key":"ref_118","doi-asserted-by":"crossref","first-page":"115472","DOI":"10.1016\/j.bone.2020.115472","article-title":"Bone Morphogenetic Protein Receptors: Structure, Function and Targeting by Selective Small Molecule Kinase Inhibitors","volume":"138","author":"Williams","year":"2020","journal-title":"Bone"},{"key":"ref_119","doi-asserted-by":"crossref","unstructured":"Velapasamy, S., Dawson, C.W., Young, L.S., Paterson, I.C., and Yap, L.F. (2018). The Dynamic Roles of TGF-\u03b2 Signalling in EBV-Associated Cancers. Cancers, 10.","DOI":"10.3390\/cancers10080247"},{"key":"ref_120","doi-asserted-by":"crossref","unstructured":"Piscione, M., Mazzone, M., Di Marcantonio, M.C., Muraro, R., and Mincione, G. (2021). Eradication of Helicobacter Pylori and Gastric Cancer: A Controversial Relationship. Front. Microbiol., 12.","DOI":"10.3389\/fmicb.2021.630852"},{"key":"ref_121","doi-asserted-by":"crossref","unstructured":"Fernandes, Q., Allouch, S., Gupta, I., Elmakaty, I., Elzawawi, K.E., Amarah, A., Al-Thawadi, H., Al-Farsi, H., Vranic, S., and Al Moustafa, A.E. (2022). Human Papillomaviruses-Related Cancers: An Update on the Presence and Prevention Strategies in the Middle East and North African Regions. Pathogens, 11.","DOI":"10.3390\/pathogens11111380"},{"key":"ref_122","doi-asserted-by":"crossref","first-page":"181","DOI":"10.1038\/s41392-020-00222-7","article-title":"FGF\/FGFR Signaling in Health and Disease","volume":"5","author":"Xie","year":"2020","journal-title":"Signal Transduct. Target. Ther."},{"key":"ref_123","doi-asserted-by":"crossref","first-page":"157","DOI":"10.1016\/j.micinf.2008.11.001","article-title":"Chlamydia Pneumoniae Induces Macrophage-Derived Foam Cell Formation by up-Regulating Acyl-Coenzyme A: Cholesterol Acyltransferase 1","volume":"11","author":"He","year":"2009","journal-title":"Microbes Infect."},{"key":"ref_124","doi-asserted-by":"crossref","first-page":"443","DOI":"10.1007\/s00011-019-01231-1","article-title":"Self-Regulation of the Inflammatory Response by Peroxisome Proliferator-Activated Receptors","volume":"68","author":"Korbecki","year":"2019","journal-title":"Inflamm. Res."},{"key":"ref_125","doi-asserted-by":"crossref","unstructured":"Bae, S., Lim, J.W., and Kim, H. (2021). \u03b2-Carotene Inhibits Expression of Matrix Metalloproteinase-10 and Invasion in Helicobacter Pylori-Infected Gastric Epithelial Cells. Molecules, 26.","DOI":"10.3390\/molecules26061567"},{"key":"ref_126","doi-asserted-by":"crossref","first-page":"929","DOI":"10.4049\/jimmunol.1000866","article-title":"Mycobacterium Tuberculosis Activates Human Macrophage Peroxisome Proliferator-Activated Receptor \u03b3 Linking Mannose Receptor Recognition to Regulation of Immune Responses","volume":"185","author":"Rajaram","year":"2010","journal-title":"J. Immunol."},{"key":"ref_127","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.bcp.2009.09.005","article-title":"The Yin and Yang of Vitamin D Receptor (VDR) Signaling in Neoplastic Progression: Operational Networks and Tissue-Specific Growth Control","volume":"79","author":"Campbell","year":"2010","journal-title":"Biochem. Pharmacol."},{"key":"ref_128","doi-asserted-by":"crossref","unstructured":"Hernandez-Quiles, M., Broekema, M.F., and Kalkhoven, E. (2021). PPARgamma in Metabolism, Immunity, and Cancer: Unified and Diverse Mechanisms of Action. Front. Endocrinol., 12.","DOI":"10.3389\/fendo.2021.624112"},{"key":"ref_129","doi-asserted-by":"crossref","unstructured":"Larcombe, L., Orr, P., Turner-Brannen, E., Slivinski, C.R., Nickerson, P.W., and Mookherjee, N. (2012). Effect of Vitamin D Supplementation on Mycobacterium Tuberculosis-Induced Innate Immune Responses in a Canadian Den\u00e9 First Nations Cohort. PLoS ONE, 7.","DOI":"10.1371\/journal.pone.0040692"},{"key":"ref_130","doi-asserted-by":"crossref","first-page":"e10405","DOI":"10.1002\/jbm4.10405","article-title":"Vitamin D and Immune Regulation: Antibacterial, Antiviral, Anti-Inflammatory","volume":"5","author":"Bishop","year":"2021","journal-title":"JBMR Plus"},{"key":"ref_131","doi-asserted-by":"crossref","unstructured":"Kotlyarov, S., and Kotlyarova, A. (2022). Clinical Significance of Lipid Transport Function of ABC Transporters in the Innate Immune System. Membranes, 12.","DOI":"10.3390\/membranes12111083"},{"key":"ref_132","doi-asserted-by":"crossref","first-page":"104662","DOI":"10.1016\/j.meegid.2020.104662","article-title":"Inhibition of ABCG2 Efflux Pumps Renders the Mycobacterium Tuberculosis Hiding in Mesenchymal Stem Cells Responsive to Antibiotic Treatment","volume":"87","author":"Kaur","year":"2021","journal-title":"Infect. Genet. Evol."},{"key":"ref_133","doi-asserted-by":"crossref","first-page":"23812","DOI":"10.1074\/jbc.M604890200","article-title":"Peroxisome Proliferator-Activated Receptor \u03b3-Regulated ABCG2 Expression Confers Cytoprotection to Human Dendritic Cells","volume":"281","author":"Szatmari","year":"2006","journal-title":"J. Biol. Chem."},{"key":"ref_134","doi-asserted-by":"crossref","unstructured":"Hartmann, C., Schwietzer, Y.A., Otani, T., Furuse, M., and Ebnet, K. (2020). Physiological Functions of Junctional Adhesion Molecules (JAMs) in Tight Junctions. Biochim. Biophys. Acta Biomembr., 1862.","DOI":"10.1016\/j.bbamem.2020.183299"},{"key":"ref_135","doi-asserted-by":"crossref","first-page":"7766","DOI":"10.1074\/jbc.M809127200","article-title":"Distinct Regions within the Erlins Are Required for Oligomerization and Association with High Molecular Weight Complexes","volume":"284","author":"Hoegg","year":"2009","journal-title":"J. Biol. Chem."},{"key":"ref_136","doi-asserted-by":"crossref","first-page":"415","DOI":"10.1042\/BJ20112050","article-title":"Endoplasmic Reticulum Factor ERLIN2 Regulates Cytosolic Lipid Content in Cancer Cells","volume":"446","author":"Wang","year":"2012","journal-title":"Biochem. J."},{"key":"ref_137","doi-asserted-by":"crossref","unstructured":"Whitten-Bauer, C., Chung, J., G\u00f3mez-Moreno, A., Gomoll\u00f3n-Zueco, P., Huber, M.D., Gerace, L., and Garaigorta, U. (2019). The Host Factor Erlin-1 Is Required for Efficient Hepatitis C Virus Infection. Cells, 8.","DOI":"10.3390\/cells8121555"},{"key":"ref_138","doi-asserted-by":"crossref","first-page":"985","DOI":"10.1016\/j.bbamcr.2008.10.006","article-title":"Plant Calcineurin B-like Proteins and Their Interacting Protein Kinases","volume":"1793","author":"Kudla","year":"2009","journal-title":"Biochim. Biophys. Acta Mol. Cell Res."},{"key":"ref_139","doi-asserted-by":"crossref","unstructured":"Xu, S., Zhou, F., Tao, J., Song, L., Siew Chien, N.G., Wang, X., Chen, L., Yi, F., Ran, Z., and Zhou, R. (2014). Exome Sequencing Identifies DLG1 as a Novel Gene for Potential Susceptibility to Crohn\u2019s Disease in a Chinese Family Study. PLoS ONE, 9.","DOI":"10.1371\/journal.pone.0099807"},{"key":"ref_140","doi-asserted-by":"crossref","unstructured":"Luli\u0107, L., Jakov\u010devi\u0107, A., Manojlovi\u0107, L., Dediol, E., Banks, L., and Tomai\u0107, V. (2021). Human Dlg1 and Scrib Are Distinctly Regulated Independently of Hpv-16 during the Progression of Oropharyngeal Squamous Cell Carcinomas: A Preliminary Analysis. Cancers, 13.","DOI":"10.3390\/cancers13174461"},{"key":"ref_141","doi-asserted-by":"crossref","first-page":"10639","DOI":"10.1128\/JVI.05070-11","article-title":"The Avian Influenza Virus NS1 ESEV PDZ Binding Motif Associates with Dlg1 and Scribble To Disrupt Cellular Tight Junctions","volume":"85","author":"Golebiewski","year":"2011","journal-title":"J. Virol."},{"key":"ref_142","doi-asserted-by":"crossref","unstructured":"Dizanzo, M.P., Marziali, F., Brunet Avalos, C., Bugnon Valdano, M., Leiva, S., Cavatorta, A.L., and Gardiol, D. (2020). HPV E6 and E7 Oncoproteins Cooperatively Alter the Expression of Disc Large 1 Polarity Protein in Epithelial Cells. BMC Cancer, 20.","DOI":"10.1186\/s12885-020-06778-5"},{"key":"ref_143","doi-asserted-by":"crossref","first-page":"964","DOI":"10.1111\/tra.12089","article-title":"Emerging Role of the Scaffolding Protein Dlg1 in Vesicle Trafficking","volume":"14","author":"Walch","year":"2013","journal-title":"Traffic"},{"key":"ref_144","doi-asserted-by":"crossref","first-page":"220","DOI":"10.1083\/jcb.201805016","article-title":"Dynein Activator Hook1 Is Required for Trafficking of BDNF-Signaling Endosomes in Neurons","volume":"218","author":"Olenick","year":"2019","journal-title":"J. Cell Biol."},{"key":"ref_145","doi-asserted-by":"crossref","first-page":"a010256","DOI":"10.1101\/cshperspect.a010256","article-title":"Chlamydial Intracellular Survival Strategies","volume":"3","author":"Bastidas","year":"2013","journal-title":"Cold Spring Harb. Perspect. Med."},{"key":"ref_146","doi-asserted-by":"crossref","first-page":"656","DOI":"10.1111\/j.1462-5822.2012.01747.x","article-title":"Chlamydia trachomatis Hijacks Intra-Golgi COG Complex-Dependent Vesicle Trafficking Pathway","volume":"14","author":"Pokrovskaya","year":"2012","journal-title":"Cell. Microbiol."},{"key":"ref_147","doi-asserted-by":"crossref","unstructured":"Yang, Y., Bagyinszky, E., and An, S.S.A. (2023). Presenilin-1 (PSEN1) Mutations: Clinical Phenotypes beyond Alzheimer\u2019s Disease. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms24098417"},{"key":"ref_148","doi-asserted-by":"crossref","first-page":"e24","DOI":"10.1017\/erm.2024.24","article-title":"Repulsive Guidance Molecules b (RGMb): Molecular Mechanism, Function and Role in Diseases","volume":"26","author":"Zhang","year":"2024","journal-title":"Expert Rev. Mol. Med."},{"key":"ref_149","doi-asserted-by":"crossref","unstructured":"Shi, Y., Zhong, L., Li, Y., Chen, Y., Feng, S., Wang, M., Xia, Y., and Tang, S. (2021). Repulsive Guidance Molecule b Deficiency Induces Gut Microbiota Dysbiosis and Increases the Susceptibility to Intestinal Inflammation in Mice. Front. Microbiol., 12.","DOI":"10.3389\/fmicb.2021.648915"},{"key":"ref_150","doi-asserted-by":"crossref","first-page":"16","DOI":"10.1016\/j.ccell.2023.12.003","article-title":"Melanoma and Microbiota: Current Understanding and Future Directions","volume":"42","author":"Routy","year":"2024","journal-title":"Cancer Cell"},{"key":"ref_151","doi-asserted-by":"crossref","first-page":"473","DOI":"10.1038\/nrgastro.2013.105","article-title":"Serotonin Signalling in the Gut-Functions, Dysfunctions and Therapeutic Targets","volume":"10","author":"Mawe","year":"2013","journal-title":"Nat. Rev. Gastroenterol. Hepatol."},{"key":"ref_152","doi-asserted-by":"crossref","first-page":"532","DOI":"10.3748\/wjg.v28.i5.532","article-title":"Effect of Bacillus Subtilis, Enterococcus Faecium, and Enterococcus Faecalis Supernatants on Serotonin Transporter Expression in Cells and Tissues","volume":"28","author":"Chen","year":"2022","journal-title":"World J. Gastroenterol."},{"key":"ref_153","doi-asserted-by":"crossref","first-page":"6944","DOI":"10.1074\/jbc.273.12.6944","article-title":"Syntaxin 12, a Member of the Syntaxin Family Localized to the Endosome","volume":"273","author":"Tang","year":"1998","journal-title":"J. Biol. Chem."},{"key":"ref_154","doi-asserted-by":"crossref","first-page":"114332","DOI":"10.1016\/j.celrep.2024.114332","article-title":"A Spatiotemporal Map of Co-Receptor Signaling Networks Underlying B Cell Activation","volume":"43","author":"Susa","year":"2024","journal-title":"Cell Rep."},{"key":"ref_155","doi-asserted-by":"crossref","first-page":"2346","DOI":"10.1073\/pnas.0508139103","article-title":"Adipocyte Enhancer-Binding Protein 1 Is a Potential Novel Atherogenic Factor Involved in Macrophage Cholesterol Homeostasis and Inflammation","volume":"103","author":"Majdalawieh","year":"2006","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_156","doi-asserted-by":"crossref","first-page":"8097872","DOI":"10.1155\/2020\/8097872","article-title":"AEBP1 Is a Novel Oncogene: Mechanisms of Action and Signaling Pathways","volume":"2020","author":"Majdalawieh","year":"2020","journal-title":"J. Oncol."},{"key":"ref_157","first-page":"3426","article-title":"Original Article ZNF503 Accelerates Aggressiveness of Hepatocellular Carcinoma Cells by Down-Regulation of GATA3 Expression and Regulated by MicroRNA-495","volume":"11","author":"Yin","year":"2019","journal-title":"Am. J. Transl. Res."},{"key":"ref_158","first-page":"1889","article-title":"ZNF3 Regulates Proliferation, Migration and Invasion through MMP1 and TWIST in Colorectal Cancer","volume":"54","author":"Du","year":"2022","journal-title":"Acta Biochim. Biophys. Sin."},{"key":"ref_159","doi-asserted-by":"crossref","first-page":"3854","DOI":"10.1021\/acs.jproteome.3c00518","article-title":"BZW2 Modulates Lung Adenocarcinoma Progression through Glycolysis-Mediated IDH3G Lactylation Modification","volume":"22","author":"Wang","year":"2023","journal-title":"J. Proteome Res."},{"key":"ref_160","doi-asserted-by":"crossref","unstructured":"Garcia-Etxebarria, K., Merino, O., Gaite-Reguero, A., Rodrigues, P.M., Herrarte, A., Etxart, A., Ellinghaus, D., Alonso-Galan, H., Franke, A., and Marigorta, U.M. (2022). Local Genetic Variation of Inflammatory Bowel Disease in Basque Population and Its Effect in Risk Prediction. Sci. Rep., 12.","DOI":"10.1038\/s41598-022-07401-2"},{"key":"ref_161","doi-asserted-by":"crossref","first-page":"4794","DOI":"10.3748\/wjg.v22.i20.4794","article-title":"Inflammatory Bowel Disease and Cancer: The Role of Inflammation, Immunosuppression, and Cancer Treatment","volume":"22","author":"Axelrad","year":"2016","journal-title":"World J. Gastroenterol."}],"container-title":["Cells"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2073-4409\/14\/1\/1\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T16:58:57Z","timestamp":1760115537000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2073-4409\/14\/1\/1"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,12,24]]},"references-count":161,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2025,1]]}},"alternative-id":["cells14010001"],"URL":"https:\/\/doi.org\/10.3390\/cells14010001","relation":{},"ISSN":["2073-4409"],"issn-type":[{"value":"2073-4409","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,12,24]]}}}