News & Publications
Publications
Project 1: Targeting the PD-1 pathway in HCC
Kaseb AO, Hasanov E, Cao HST, Xiao L, Vauthey JN, Lee SS, Yavuz BG, Mohamed YI, Qayyum A, Jindal S, Duan F, Basu S, Yadav SS, Nicholas C, Sun JJ, Singh Raghav KP, Rashid A, Carter K, Chun YS, Tzeng CD, Sakamuri D, Xu L, Sun R, Cristini V, Beretta L, Yao JC, Wolff RA, Allison JP, Sharma P. Perioperative nivolumab monotherapy versus nivolumab plus ipilimumab in resectable hepatocellular carcinoma: a randomised, open-label, phase 2 trial. Lancet Gastroenterol Hepatol. 2022 Jan 19. doi: 10.1016/S2468-1253(21)00427-1. Epub 2022 Jan 20. PubMed PMID: 35065057; PubMed Central PMCID: PMC8840977.
Mohamed YI, Duda DG, Awiwi MO, Lee SS, Altameemi L, Xiao L, Morris JS, Wolff RA, Elsayes KM, Hatia RI, Qayyum A, Chamseddine SM, Rashid A, Yao JC, Mahvash A, Hassan MM, Amin HM, Kaseb AO. Plasma growth hormone is a potential biomarker of response to atezolizumab and bevacizumab in advanced hepatocellular carcinoma patients. Oncotarget. 2022 Dec 6;13:1314-1321. doi: 10.18632/oncotarget.28322. PubMed PMID: 36473155; PubMed Central PMCID: PMC9726202.
Project 3: Non-invasive assessment of liver fibrosis stage and progression in obesity and diabetes: a Hispanic population study
Kwan SY, Jiao J, Joon A, Wei P, Petty LE, Below JE, Daniel CR, Wu X, Zhang J, Jenq RR, Futreal PA, Hawk ET, McCormick JB, Fisher-Hoch SP, Beretta L. Gut microbiome features associated with liver fibrosis in Hispanics, a population at high risk for fatty liver disease. Hepatology. 2021 Oct 11;. doi: 10.1002/hep.32197. [Epub ahead of print] PubMed PMID: 34633706; PMCID: PMC8930512.
Jiao J, Kwan SY, Sabotta CM, Tanaka H, Veillon L, Warmoes MO, Lorenzi PL, Wang Y, Wei P, Hawk ET, Almeda JL, McCormick JB, Fisher-Hoch SP, Beretta L. Circulating Fatty Acids Associated with Advanced Liver Fibrosis and Hepatocellular Carcinoma in South Texas Hispanics. Cancer Epidemiol Biomarkers Prev. 2021 Sep;30(9):1643-1651. doi: 10.1158/1055-9965.EPI-21-0183. Epub 2021 Jun 21. PubMed PMID: 34155064; PubMed Central PMCID: PMC8419070.
Heredia NI, Zhang X, Balakrishnan M, Daniel CR, Hwang JP, McNeill LH, Thrift AP. Physical activity and diet quality in relation to non-alcoholic fatty liver disease: A cross-sectional study in a representative sample of U.S. adults using NHANES 2017-2018. Prev Med. 2022 Jan;154:106903. doi: 10.1016/j.ypmed.2021.106903. Epub 2021 Dec 1. PubMed PMID: 34861339; PubMed Central PMCID: PMC8724407.
Kwan SY, Sabotta CM, Joon A, Wei P, Petty LE, Below, JE, Wu X, Zhang J, Jenq RR, Hawk ET, McCormick JB, Fisher-Hoch SP, and Beretta L. Gut microbiome alterations associated with diabetes in Mexican Americans in South Texas. mSystems. 3/2022 (In Press)
Kwan SY, Sabotta CM, Joon A, Wei P, Petty LE, Below JE, Wu X, Zhang J, Jenq RR, Hawk ET, McCormick JB, Fisher-Hoch SP, Beretta L. Gut microbiome alterations associated with Diabetes in Mexican Americans in South Texas. mSystems. 2022 Apr 28:e0003322. doi: 10.1128/msystems.00033-22. Epub ahead of print. PMID: 35477306.
Sabotta CM, Kwan SY, Petty LE, Below JE, Joon A, Wei P, Fisher-Hoch SP, McCormick JB, Beretta L. Genetic variants associated with circulating liver injury markers in Mexican Americans, a population at risk for non-alcoholic fatty liver disease. Front Genet. 2022;13:995488. doi: 10.3389/fgene.2022.995488. eCollection 2022. PubMed PMID: 36386790; PubMed Central PMCID: PMC9644071.
Core 1: Biobank and Pathology
Moussa I, Day RS, Li R, Kaseb A, Jalal PK, Daniel-MacDougall C, Hatia RI, Abdelhakeem A, Rashid A, Chun YS, Li D, Hassan MM. Association of dietary fat intake and hepatocellular carcinoma among US adults. Cancer Med. 2021 Oct;10(20):7308-7319. doi: 10.1002/cam4.4256. Epub 2021 Sep 18. PubMed PMID: 34535983; PubMed Central PMCID: PMC8525131.
Zheng J, Daniel CR, Hatia RI, Stuff J, Abdelhakeem AA, Rashid A, Chun YS, Jalal PK, Kaseb AO, Li D, Hassan MM. Dietary N-Nitroso Compounds and Risk of Hepatocellular Carcinoma: A USA-Based Study. Hepatology. 2021 Dec;74(6):3161-3173. doi: 10.1002/hep.32046. Epub 2021 Aug 26. PubMed PMID:34233041; PubMed Central PMCID: PMC8639645.
Moussa I, Day RS, Li R, Du XL, Kaseb AO, Jalal PK, Daniel-MacDougall C, Hatia RI, Abdelhakeem A, Rashid A, Chun YS, Li D, Hassan MM. Dietary Patterns and Hepatocellular Carcinoma Risk among US Adults. Nutrients. 2021 Jun 11;13(6). doi: 10.3390/nu13062011. PubMed PMID: 34208122; PubMed Central PMCID: PMC8230753.
Wei P. Radiomics, deep learning and early diagnosis in oncology. Emerg Top Life Sci. 2021 Dec 21;5(6):829-835. doi: 10.1042/ETLS20210218. Review. PubMed PMID: 34874454; PubMed Central PMCID: PMC8786297.
Core 2: Biostatistics and Bioinformatics
Wang Z, Wei P. IMIX: a multivariate mixture model approach to association analysis through multiomics data integration. Bioinformatics. 2021 Apr 1;36(22-23):5439-5447. doi: 10.1093/bioinformatics/btaa1001. PubMed PMID: 33258948; PubMed Central PMCID: PMC8016490.
Wang Z, Lu Y, Fornage M, Jiao L, Shen J, Li D, Wei P. Identification of novel susceptibility methylation loci for pancreatic cancer in a two-phase epigenome-wide association study. Epigenetics. 2022 Nov;17(11):1357-1372. doi: 10.1080/15592294.2022.2026591. Epub 2022 Jan 14. PubMed PMID: 35030986; PubMed Central PMCID: PMC9586592.
Singh S, Clemente LC, Parra ER, Tchakarov A, Yang C, Li Y, Long JP, Yee C, Lin JS. Urinary T cells are detected in patients with immune checkpoint inhibitor-associated immune nephritis that are clonotypically identical to kidney T cell infiltrates. Oncoimmunology. 2022;11(1):2124678. doi: 10.1080/2162402X.2022.2124678. eCollection 2022. PubMed PMID: 36185804; PubMed Central PMCID: PMC9519023.
Career Enhancement Program
Saldarriaga OA, Dye B, Pham J, Wanninger TG, Millian D, Kueht M, Freiberg B, Utay N, Stevenson HL. Comparison of liver biopsies before and after direct-acting antiviral therapy for hepatitis C and correlation with clinical outcome. Sci Rep. 2021 Jul 15;11(1):14506. doi: 10.1038/s41598-021-93881-7. PubMed PMID: 34267267; PubMed Central PMCID: PMC8282660.
Millian DE, Saldarriaga OA, Wanninger T, Burks JK, Rafati YN, Gosnell J, Stevenson HL. Cutting-Edge Platforms for Analysis of Immune Cells in the Hepatic Microenvironment-Focus on Tumor-Associated Macrophages in Hepatocellular Carcinoma. Cancers (Basel). 2022 Apr 7;14(8). doi: 10.3390/cancers14081861. Review. PubMed PMID: 35454766; PubMed Central PMCID: PMC9026790.
Kwan SY, Slayden AN, Coronado AR, Marquez RC, Chen H, Wei P, Savage MI, Vornik LA, Fox JT, Sei S, Liang D, Stevenson HL, Wilkerson GK, Gagea M, Brown PH, Beretta L. Treatment Strategies and Mechanisms Associated with the Prevention of NASH-Associated HCC by a Toll-like Receptor 4 Inhibitor. Cancer Prev Res (Phila). 2023 Jan 4;16(1):17-28. doi: 10.1158/1940-6207.CAPR-22-0332. PubMed PMID: 36162136; PubMed Central PMCID: PMC9812917.
Wilhelm AB, Cunningham AG, Kassab C, Fitz EC, Dong J, Radhakrishnan RS, Ranganathan S, Tan D, Stevenson HL. Pediatric combined hepatocellular-cholangiocarcinoma (cHCC-CC) with neuroendocrine features: distinguishing genetic alterations detected by chromosomal microarray. Diagn Pathol. 2023 Feb 13;18(1):20. doi: 10.1186/s13000-023-01305-z. PubMed PMID: 36782322; PubMed Central PMCID: PMC9926826.
Developmental Research Program
Kim J, Zimmerman MA, Shin WY, Boettcher BT, Lee JS, Park JI, Ali M, Yang M, Mishra J, Hagen CE, McGraw JE, Mathison A, Woehlck HJ, Lomberk G, Camara AKS, Urrutia RA, Stowe DF, Hong JC. Effects of Subnormothermic Regulated Hepatic Reperfusion on Mitochondrial and Transcriptomic Profiles in a Porcine Model. Ann Surg. 2021 Aug 13;. doi: 10.1097/SLA.0000000000005156. [Epub ahead of print] PubMed PMID: 34387201; PubMed Central PMCID: PMC8840998.
Yim SY, Lee JS. An Overview of the Genomic Characterization of Hepatocellular Carcinoma. J Hepatocell Carcinoma. 2021;8:1077-1088. doi: 10.2147/JHC.S270533. eCollection 2021. Review. PubMed PMID: 34522690; PubMed Central PMCID: PMC8434863.
Lee SH, Jeong YS, Lee S, Sohn BH, Hwang HK, Choi GH, Kang CM, Choi JS, Lee WJ, Cheong JH, Jang HJ, Kaseb A, Roberts L, Yim SY, Chun YS, Lee JS. Two distinct stem cell-like subtypes of hepatocellular carcinoma with clinical significance and their therapeutic potentials. Cancer Commun (Lond). 2022 Jan 15. doi: 10.1002/cac2.12251. Epub 2022 Jan 15. PMID: 35032367; PMCID: PMC8822477.
Qayyum A, Bhosale P, Aslam R, Avritscher R, Ma J, Pagel MD, Sun J, Mohamed Y, Rashid A, Beretta L, Kaseb AO. Effect of sarcopenia on systemic targeted therapy response in patients with advanced hepatocellular carcinoma. Abdom Radiol (NY). 2021 Mar;46(3):1008-1015. doi: 10.1007/s00261-020-02751-9. Epub 2020 Sep 24. PubMed PMID: 32974761; PubMed Central PMCID: PMC8191337.
Cazoulat G, Anderson BM, McCulloch MM, Rigaud B, Koay EJ, Brock KK. Detection of vessel bifurcations in CT scans for automatic objective assessment of deformable image registration accuracy. Med Phys. 2021 Oct;48(10):5935-5946. doi: 10.1002/mp.15163. Epub 2021 Aug 25. PubMed PMID: 34390007; PubMed Central PMCID: PMC9132059.
De B, Tran Cao HS, Vauthey JN, Manzar GS, Corrigan KL, Raghav KPS, Lee SS, Tzeng CD, Minsky BD, Smith GL, Holliday EB, Taniguchi CM, Koong AC, Das P, Javle M, Ludmir EB, Koay EJ. Ablative liver radiotherapy for unresected intrahepatic cholangiocarcinoma: Patterns of care and survival in the United States. Cancer. 2022 Jul 1;128(13):2529-2539. doi: 10.1002/cncr.34223. Epub 2022 Apr 13. PubMed PMID: 35417569; PubMed Central PMCID: PMC9177808.
Fujita M, Chen MM, Siwak DR, Sasagawa S, Oosawa-Tatsuguchi A, Arihiro K, Ono A, Miura R, Maejima K, Aikata H, Ueno M, Hayami S, Yamaue H, Chayama K, Lee JS, Lu Y, Mills GB, Liang H, Nishizuka SS, Nakagawa H. Proteo-genomic characterization of virus-associated liver cancers reveals potential subtypes and therapeutic targets. Nat Commun. 2022 Oct 29;13(1):6481. doi: 10.1038/s41467-022-34249-x. PubMed PMID: 36309506; PubMed Central PMCID: PMC9617926.
Lee SH, Yim SY, Jeong YS, Li QX, Kang SH, Sohn BH, Kumar SV, Shin JH, Choi YR, Shim JJ, Kim H, Kim JH, Kim S, Guo S, Johnson RL, Kaseb A, Kang KJ, Chun YS, Jang HJ, Lee BG, Woo HG, Ha MJ, Akbani R, Roberts LR, Wheeler DA, Lee JS. Consensus subtypes of hepatocellular carcinoma associated with clinical outcomes and genomic phenotypes. Hepatology. 2022 Dec;76(6):1634-1648. doi: 10.1002/hep.32490. Epub 2022 Jun 29. PubMed PMID: 35349735; PubMed Central PMCID: PMC9519807.
Jung J, Park S, Jang Y, Lee SH, Jeong YS, Yim SY, Lee JS. Clinical Significance of Glycolytic Metabolic Activity in Hepatocellular Carcinoma. Cancers (Basel). 2022 Dec 28;15(1). doi: 10.3390/cancers15010186. PubMed PMID: 36612182; PubMed Central PMCID: PMC9818850.
Inventions
U.S. Patent Application No.: 63/155,155, March 1, 2021.
Entitled: Methods of Detecting Advanced Liver Fibrosis or Hepatocellular Carcinoma Biomarkers in a Sample.
Inventor: Laura Beretta.