{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,12]],"date-time":"2025-10-12T04:16:17Z","timestamp":1760242577577,"version":"build-2065373602"},"reference-count":76,"publisher":"MDPI AG","issue":"4","license":[{"start":{"date-parts":[[2017,11,23]],"date-time":"2017-11-23T00:00:00Z","timestamp":1511395200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Computation"],"abstract":"<jats:p>Extracorporeal organ perfusion, in which organs are preserved in an isolated, ex vivo environment over an extended time-span, is a concept that has led to the development of numerous alternative preservation protocols designed to better maintain organ viability prior to transplantation. These protocols offer researchers a novel opportunity to obtain extensive sampling of isolated organs, free from systemic influences. Data-driven computational modeling is a primary means of integrating the extensive and multivariate data obtained in this fashion. In this review, we focus on the application of dynamic data-driven computational modeling to liver pathophysiology and transplantation based on data obtained from ex vivo organ perfusion.<\/jats:p>","DOI":"10.3390\/computation5040046","type":"journal-article","created":{"date-parts":[[2017,11,23]],"date-time":"2017-11-23T11:15:47Z","timestamp":1511435747000},"page":"46","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["Dynamic Data-Driven Modeling for Ex Vivo Data Analysis: Insights into Liver Transplantation and Pathobiology"],"prefix":"10.3390","volume":"5","author":[{"given":"David","family":"Sadowsky","sequence":"first","affiliation":[{"name":"Department of Surgery, University of Pittsburgh, Pittsburgh, PA 15213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Andrew","family":"Abboud","sequence":"additional","affiliation":[{"name":"Department of Surgery, University of Pittsburgh, Pittsburgh, PA 15213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Anthony","family":"Cyr","sequence":"additional","affiliation":[{"name":"Department of Surgery, University of Pittsburgh, Pittsburgh, PA 15213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lena","family":"Vodovotz","sequence":"additional","affiliation":[{"name":"Department of Surgery, University of Pittsburgh, Pittsburgh, PA 15213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paulo","family":"Fontes","sequence":"additional","affiliation":[{"name":"Department of Surgery, University of Pittsburgh, Pittsburgh, PA 15213, USA"},{"name":"McGowan Institute for Regenerative Medicine, University of Pittsburgh, Pittsburgh, PA 15213, USA"},{"name":"Department of Surgery, Thomas E. Starzl Transplantation Institute, Pittsburgh, PA 15213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ruben","family":"Zamora","sequence":"additional","affiliation":[{"name":"Department of Surgery, University of Pittsburgh, Pittsburgh, PA 15213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yoram","family":"Vodovotz","sequence":"additional","affiliation":[{"name":"Department of Surgery, University of Pittsburgh, Pittsburgh, PA 15213, USA"},{"name":"McGowan Institute for Regenerative Medicine, University of Pittsburgh, Pittsburgh, PA 15213, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1968","published-online":{"date-parts":[[2017,11,23]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1002\/cphy.c130024","article-title":"Energy metabolism in the liver","volume":"4","author":"Rui","year":"2014","journal-title":"Compr. Physiol."},{"key":"ref_2","unstructured":"Berg, J.M., Tymoczko, J.L., Stryer, L., and Stryer, L. (2002). Biochemistry, W.H. Freeman. [5th ed.]."},{"key":"ref_3","unstructured":"Kuntz, E., and Kuntz, H. (2008). Biochemistry and Functions of the Liver, Springer."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"1035","DOI":"10.1002\/cphy.c120027","article-title":"Bile formation and secretion","volume":"3","author":"Boyer","year":"2013","journal-title":"Compr. Physiol."},{"key":"ref_5","unstructured":"(2015, July 18). Liver Transplantation, Available online: http:\/\/www.niddk.nih.gov\/health-information\/health-topics\/liver-disease\/liver-transplant\/Pages\/facts.aspx."},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"1969","DOI":"10.1002\/hep.28677","article-title":"Prevalence of chronic liver disease and cirrhosis by underlying cause in understudied ethnic groups: The multiethnic cohort","volume":"64","author":"Setiawan","year":"2016","journal-title":"Hepatology"},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"434","DOI":"10.1038\/nrgastro.2013.88","article-title":"Liver transplantation: Past, present and future","volume":"10","author":"Zarrinpar","year":"2013","journal-title":"Nat. Rev. Gastroenterol. Hepatol."},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"755","DOI":"10.1097\/TP.0b013e31827afb3a","article-title":"Evolving frequency and outcomes of liver transplantation based on etiology of liver disease","volume":"95","author":"Singal","year":"2013","journal-title":"Transplantation"},{"key":"ref_9","unstructured":"(2015, July 18). Transplants in the U.S. By State, Available online: http:\/\/optn.transplant.hrsa.gov\/converge\/latestData\/rptData.asp."},{"key":"ref_10","unstructured":"Liou, I.W., and Larson, A.M. (2015, July 20). Role of Liver Transplantation in Acute Liver Failure. Available online: http:\/\/www.medscape.com\/viewarticle\/584467_4."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"759","DOI":"10.1007\/s002680010124","article-title":"History of clinical transplantation","volume":"24","author":"Starzl","year":"2000","journal-title":"World J. Surg."},{"key":"ref_12","first-page":"136","article-title":"Simplified technique for auxiliary orthotopic liver transplantation using a whole graft","volume":"28","author":"Nacif","year":"2015","journal-title":"Arquivos Brasileiros de Cirurgia Digestiva ABCD (Braz. Arch. Dig. Surg.)"},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"587","DOI":"10.1016\/S1072-7515(02)01498-9","article-title":"The saga of liver replacement, with particular reference to the reciprocal influence of liver and kidney transplantation (1955\u20131967)","volume":"195","author":"Starzl","year":"2002","journal-title":"J. Am. Coll. Surg."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"24","DOI":"10.1097\/MOT.0b013e32835c494f","article-title":"Machine perfusion in organ transplantation: A tool for ex-vivo graft conditioning with mesenchymal stem cells?","volume":"18","author":"Neyrinck","year":"2013","journal-title":"Curr. Opin. Organ Transplant."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"727","DOI":"10.1016\/j.cgh.2011.02.031","article-title":"Immune dysfunction and infections in patients with cirrhosis","volume":"9","author":"Bonnel","year":"2011","journal-title":"Clin. Gastroenterol. Hepatol."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"838","DOI":"10.1002\/lt.24123","article-title":"Donation after cardiac death liver transplantation: Graft quality evaluation based on pretransplant liver biopsy","volume":"21","author":"Xia","year":"2015","journal-title":"Liver Transplant."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"251","DOI":"10.1111\/ajt.12962","article-title":"Differential rates of ischemic cholangiopathy and graft survival associated with induction therapy in dcd liver transplantation","volume":"15","author":"Halldorson","year":"2015","journal-title":"Am. J. Transplant."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"519","DOI":"10.1053\/jlts.2002.32981","article-title":"Incidence and recurrence of autoimmune\/alloimmune hepatitis in liver transplant recipients","volume":"8","author":"Molmenti","year":"2002","journal-title":"Liver Transplant."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"154","DOI":"10.5500\/wjt.v5.i4.154","article-title":"Preservation solutions used during abdominal transplantation: Current status and outcomes","volume":"5","author":"Latchana","year":"2015","journal-title":"World J. Transplant."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1038\/nrgastro.2012.225","article-title":"Ischaemia-reperfusion injury in liver transplantation\u2014From bench to bedside","volume":"10","author":"Zhai","year":"2013","journal-title":"Nat. Rev. Gastroenterol. Hepatol."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"381","DOI":"10.1111\/ajt.12991","article-title":"Liver preservation with machine perfusion and a newly developed cell-free oxygen carrier solution under subnormothermic conditions","volume":"15","author":"Fontes","year":"2015","journal-title":"Am. J. Transplant."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"413","DOI":"10.3389\/fphar.2016.00413","article-title":"Machine perfusion of porcine livers with oxygen-carrying solution results in reprogramming of dynamic inflammation networks","volume":"7","author":"Sadowsky","year":"2016","journal-title":"Front. Pharmacol."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"141","DOI":"10.1007\/s10142-015-0433-4","article-title":"Insights from 20 years of bacterial genome sequencing","volume":"15","author":"Land","year":"2015","journal-title":"Funct. Integr. Genom."},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"580","DOI":"10.1038\/ejhg.2013.46","article-title":"Whole-genome sequencing in health care: Recommendations of the european society of human genetics","volume":"21","author":"Cornel","year":"2013","journal-title":"Eur. J. Hum. Genet."},{"key":"ref_25","unstructured":"Ausubel, F.M. (2009). Overview of mrna expression profiling using DNA microarrays. Current Protocols in Molecular Biology, John Wiley & Sons."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"1489","DOI":"10.1074\/mcp.O115.056986","article-title":"A biologist\u2019s field guide to multiplexed quantitative proteomics","volume":"15","author":"Bakalarski","year":"2016","journal-title":"Mol. Cell. Proteom."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"189","DOI":"10.1576\/toag.13.3.189.27672","article-title":"\u2018Omic\u2019 technologies: Genomics, transcriptomics, proteomics and metabolomics","volume":"13","author":"Horgan","year":"2011","journal-title":"Obs. Gynaecol."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"617","DOI":"10.1586\/14737159.8.5.617","article-title":"Metabolomics-based methods for early disease diagnostics","volume":"8","author":"Gowda","year":"2008","journal-title":"Expert Rev. Mol. Diagn."},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"2317","DOI":"10.1101\/gr.096651.109","article-title":"The nih human microbiome project","volume":"19","author":"Group","year":"2009","journal-title":"Genome Res."},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"413","DOI":"10.4161\/viru.27864","article-title":"The role of metagenomics in understanding the human microbiome in health and disease","volume":"5","author":"Martin","year":"2014","journal-title":"Virulence"},{"key":"ref_31","first-page":"283","article-title":"Emerging view of the human virome","volume":"160","author":"Wylie","year":"2012","journal-title":"Transl. Res. J. Lab. Clin. Med."},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"46","DOI":"10.3389\/fcell.2015.00046","article-title":"Editorial: Multi-omic data integration","volume":"3","author":"Nardini","year":"2015","journal-title":"Front. Cell Dev. Biol."},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"1878","DOI":"10.1016\/j.febslet.2005.02.012","article-title":"An integrated approach for inference and mechanistic modeling for advancing drug development","volume":"579","author":"Aksenov","year":"2005","journal-title":"FEBS Lett."},{"key":"ref_34","doi-asserted-by":"crossref","unstructured":"Ellner, S.P., and Guckenheimer, J. (2006). Dynamic Models in Biology, Princeton University Press.","DOI":"10.1515\/9781400840960"},{"key":"ref_35","first-page":"1","article-title":"Computational and systems biology in trauma and sepsis: Current state and future perspectives","volume":"2","author":"An","year":"2012","journal-title":"Int. J. Burns Trauma"},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"2008","DOI":"10.1097\/CCM.0b013e31829a6eb4","article-title":"In silico modeling: Methods and applications to trauma and sepsis","volume":"41","author":"Vodovotz","year":"2013","journal-title":"Crit. Care Med."},{"key":"ref_37","doi-asserted-by":"crossref","unstructured":"Yan, Q., and Totowa, N. (2009). Systems biology and inflammation. Systems Biology in Drug Discovery and Development: Methods and Protocols, Springer Science & Business Media.","DOI":"10.1007\/978-1-60761-800-3"},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"604","DOI":"10.1016\/j.jcrc.2014.03.018","article-title":"From data patterns to mechanistic models in acute critical illness","volume":"29","author":"Aerts","year":"2014","journal-title":"J. Crit. Care"},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"1370","DOI":"10.1089\/ars.2015.6398","article-title":"Insights into the role of chemokines, damage-associated molecular patterns, and lymphocyte-derived mediators from computational models of trauma-induced inflammation","volume":"23","author":"Namas","year":"2015","journal-title":"Antioxid. Redox Signal."},{"key":"ref_40","unstructured":"Vodovotz, Y. (2014). Translational System Biology, Elsevier."},{"key":"ref_41","doi-asserted-by":"crossref","unstructured":"Vodovotz, Y., and An, G. (2013). Complex Systems and Computational Biology Approaches to Acute Inflammation, Springer.","DOI":"10.1007\/978-1-4614-8008-2"},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"820","DOI":"10.1038\/nrm2041","article-title":"Data-driven modelling of signal-transduction networks","volume":"7","author":"Janes","year":"2006","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"ref_43","first-page":"22","article-title":"Impact of chemically-modified tetracycline 3 on intertwined physiological, biochemical, and inflammatory networks in porcine sepsis\/ards","volume":"5","author":"Sadowsky","year":"2015","journal-title":"Int. J. Burns Trauma"},{"key":"ref_44","first-page":"399","article-title":"The use of cluster analysis in clinical chemical diagnosis of liver diseases","volume":"28","author":"Folkerts","year":"1990","journal-title":"J. Clin. Chem. Clin. Biochem. Z. Klinische Chem. Klinische Biochem."},{"key":"ref_45","doi-asserted-by":"crossref","first-page":"739","DOI":"10.1097\/TP.0b013e3181c96b32","article-title":"Heterogeneous inflammatory changes in liver graft recipients with normal biochemistry","volume":"89","author":"Gelson","year":"2010","journal-title":"Transplantation"},{"key":"ref_46","first-page":"5188","article-title":"Serum levels of micrornas can specifically predict liver injury of chronic hepatitis b","volume":"18","author":"Zhang","year":"2012","journal-title":"World J. Gastroenterol."},{"key":"ref_47","doi-asserted-by":"crossref","unstructured":"Rachakonda, V., Gabbert, C., Raina, A., Bell, L.N., Cooper, S., Malik, S., and Behari, J. (2014). Serum metabolomic profiling in acute alcoholic hepatitis identifies multiple dysregulated pathways. PLoS ONE, 9.","DOI":"10.1371\/journal.pone.0113860"},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"1632","DOI":"10.1111\/liv.13427","article-title":"Predictive model for inflammation grades of chronic hepatitis b: Large-scale analysis of clinical parameters and gene expressions","volume":"37","author":"Zhou","year":"2017","journal-title":"Liver Int."},{"key":"ref_49","unstructured":"Lewis-Beck, M., Bryman, A., and Futing, T. (2003). Partial least squares regression (pls-regression). Encyclopedia for Research Methods for the Social Sciences, Sage."},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"301","DOI":"10.1007\/s12263-012-0322-6","article-title":"Time-dependent network analysis reveals molecular targets underlying the development of diet-induced obesity and non-alcoholic steatohepatitis","volume":"8","author":"Oh","year":"2013","journal-title":"Genes Nutr."},{"key":"ref_51","doi-asserted-by":"crossref","unstructured":"Mi, Q., Constantine, G., Ziraldo, C., Solovyev, A., Torres, A., Namas, R., Bentley, T., Billiar, T.R., Zamora, R., and Puyana, J.C. (2011). A dynamic view of trauma\/hemorrhage-induced inflammation in mice: Principal drivers and networks. PLoS ONE, 6.","DOI":"10.1371\/journal.pone.0019424"},{"key":"ref_52","doi-asserted-by":"crossref","unstructured":"Ziraldo, C., Vodovotz, Y., Namas, R.A., Almahmoud, K., Tapias, V., Mi, Q., Barclay, D., Jefferson, B.S., Chen, G., and Billiar, T.R. (2013). Central role for mcp-1\/ccl2 in injury-induced inflammation revealed by in vitro, in silico, and clinical studies. PLoS ONE, 8.","DOI":"10.1371\/journal.pone.0079804"},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"191","DOI":"10.1097\/SLA.0000000000001001","article-title":"Temporal patterns of circulating inflammation biomarker networks differentiate susceptibility to nosocomial infection following blunt trauma in humans","volume":"263","author":"Namas","year":"2016","journal-title":"Ann. Surg."},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"e1074","DOI":"10.1097\/CCM.0000000000001951","article-title":"Computational analysis supports an early, type 17 cell-associated divergence of blunt trauma survival and mortality","volume":"44","author":"Abboud","year":"2016","journal-title":"Crit. Care Med."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"S50","DOI":"10.1097\/TA.0000000000001489","article-title":"Differential inflammatory networks distinguish responses to bone marrow-derived versus adipose-derived mesenchymal stem cell therapies in vascularized composite allotransplantation","volume":"83","author":"Zamora","year":"2017","journal-title":"J. Trauma Acute Care Surg."},{"key":"ref_56","doi-asserted-by":"crossref","unstructured":"Abdul-Malak, O., Vodovotz, Y., Zaaqoq, A., Almahmoud, K., Peitzman, A., Sperry, J., Billiar, T.R., and Namas, R.A. (2016). Elevated admission base deficit is associated with a distinct and more complex network of systemic inflammation in blunt trauma patients. Mediat. Inflamm., in press.","DOI":"10.1155\/2016\/7950374"},{"key":"ref_57","doi-asserted-by":"crossref","unstructured":"Zamora, R., Vodovotz, Y., Mi, Q., Barclay, D., Yin, J., Horslen, S., Rudnick, D., Loomes, K., and Squires, R.H. (2016). Data-driven modeling for precision medicine in pediatric acute liver failure. Mol. Med., in press.","DOI":"10.2119\/molmed.2016.00183"},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"282","DOI":"10.1093\/bioinformatics\/btm554","article-title":"Computing topological parameters of biological networks","volume":"24","author":"Assenov","year":"2008","journal-title":"Bioinformatics"},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"693","DOI":"10.1093\/bioinformatics\/btq711","article-title":"Improvements in the reconstruction of time-varying gene regulatory networks: Dynamic programming and regularization by information sharing among genes","volume":"27","author":"Grzegorczyk","year":"2011","journal-title":"Bioinformatics"},{"key":"ref_60","doi-asserted-by":"crossref","unstructured":"Azhar, N., Ziraldo, C., Barclay, D., Rudnick, D.A., Squires, R.H., Vodovotz, Y., and Pediatric Acute Liver Failure Study Group (2013). Analysis of serum inflammatory mediators identifies unique dynamic networks associated with death and spontaneous survival in pediatric acute liver failure. PLoS ONE, 8.","DOI":"10.1371\/journal.pone.0078202"},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"311","DOI":"10.1097\/MPG.0b013e31827a78b2","article-title":"Immunophenotype predicts outcome in pediatric acute liver failure","volume":"56","author":"Bucuvalas","year":"2013","journal-title":"J. Pediatr. Gastroenterol. Nutr."},{"key":"ref_62","doi-asserted-by":"crossref","first-page":"1862","DOI":"10.1056\/NEJM199312163292508","article-title":"Acute liver failure","volume":"329","author":"Lee","year":"1993","journal-title":"New Engl. J. Med."},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"1059","DOI":"10.1056\/NEJM199704103361504","article-title":"Hepatitis-associated aplastic anemia","volume":"336","author":"Brown","year":"1997","journal-title":"N. Engl. J. Med."},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"49","DOI":"10.1002\/hep.1840110110","article-title":"Prospective study of bacterial infection in acute liver failure: An analysis of fifty patients","volume":"11","author":"Rolando","year":"1990","journal-title":"Hepatology"},{"key":"ref_65","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1016\/S0065-2423(08)00404-6","article-title":"Biomarkers of liver fibrosis","volume":"46","author":"Poynard","year":"2008","journal-title":"Adv. Clin. Chem."},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"345803","DOI":"10.1155\/2011\/345803","article-title":"Role of il-17 and th17 cells in liver diseases","volume":"2011","author":"Hammerich","year":"2011","journal-title":"Clin. Dev. Immunol."},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1111\/j.1464-5491.2011.03480.x","article-title":"Biomarkers for diabetes prediction, pathogenesis or pharmacotherapy guidance? Past, present and future possibilities","volume":"29","author":"Sattar","year":"2012","journal-title":"Diabet. Med. A J. Br. Diabet. Assoc."},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"808","DOI":"10.1016\/j.jhep.2011.01.040","article-title":"A comprehensive risk assessment of mortality following donation after cardiac death liver transplant\u2014An analysis of the national registry","volume":"55","author":"Jay","year":"2011","journal-title":"J. Hepatol."},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"707","DOI":"10.1146\/annurev-immunol-031210-101405","article-title":"The inflammasome nlrs in immunity, inflammation, and associated diseases","volume":"29","author":"Davis","year":"2011","journal-title":"Ann. Rev. Immunol."},{"key":"ref_70","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1038\/cmi.2010.81","article-title":"The inflammasomes in health and disease: From genetics to molecular mechanisms of autoinflammation and beyond","volume":"8","author":"Mortellaro","year":"2011","journal-title":"Cell. Mol. Immunol."},{"key":"ref_71","doi-asserted-by":"crossref","first-page":"955","DOI":"10.1002\/hep.28456","article-title":"Interleukin-1 and inflammasomes in ald\/aah and nafld\/nash","volume":"64","author":"Tilg","year":"2016","journal-title":"Hepatology"},{"key":"ref_72","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1111\/j.1365-2249.2011.04440.x","article-title":"The nlrp3 inflammasome in health and disease: The good, the bad and the ugly","volume":"166","author":"Menu","year":"2011","journal-title":"Clin. Exp. Immunol."},{"key":"ref_73","doi-asserted-by":"crossref","first-page":"551","DOI":"10.1089\/ars.2010.3492","article-title":"The redox basis of epigenetic modifications: From mechanisms to functional consequences","volume":"15","author":"Cyr","year":"2011","journal-title":"Antioxid. Redox Signal."},{"key":"ref_74","doi-asserted-by":"crossref","first-page":"720","DOI":"10.1126\/science.aab2956","article-title":"Dynamics of epigenetic regulation at the single-cell level","volume":"351","author":"Bintu","year":"2016","journal-title":"Science"},{"key":"ref_75","doi-asserted-by":"crossref","first-page":"669","DOI":"10.1038\/nrg2641","article-title":"Chip-seq: Advantages and challenges of a maturing technology","volume":"10","author":"Park","year":"2009","journal-title":"Nat. Rev. Genet."},{"key":"ref_76","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1002\/ddr.20415","article-title":"In silico augmentation of the drug development pipeline: Examples from the study of acute inflammation","volume":"72","author":"An","year":"2011","journal-title":"Drug Dev. Res."}],"container-title":["Computation"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2079-3197\/5\/4\/46\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,11]],"date-time":"2025-10-11T18:51:01Z","timestamp":1760208661000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2079-3197\/5\/4\/46"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,11,23]]},"references-count":76,"journal-issue":{"issue":"4","published-online":{"date-parts":[[2017,12]]}},"alternative-id":["computation5040046"],"URL":"https:\/\/doi.org\/10.3390\/computation5040046","relation":{},"ISSN":["2079-3197"],"issn-type":[{"type":"electronic","value":"2079-3197"}],"subject":[],"published":{"date-parts":[[2017,11,23]]}}}