Featured publications supported by Genomics Laboratory

Featured publications supported by Genomics Laboratory

Year of Publication: 2023

Streicher SA, Lim U, Park SL, Li, Y, Sheng X, Hom V, Xia L, Pooler L, Shepherd J, Loo LWM., Ernst T, Buchthal S, Franke AA, Tiirikainen M, Wilkens LR, Haiman CA, Stram DO, Cheng I, Le Marchand L. Genome-wide association study of abdominal MRI-measured visceral fat: The multiethnic cohort adiposity phenotype study. PLoS One. 2023 Jan 6;18(1):e0279932. doi: 10.1371/journal.pone.0279932. eCollection 2023. PMID: 36607984.

Yang, WS, Caliva MJ, Khadka VS, Tiirikainen M, Matter M, Deng Y, Ramos, JW. RSK1 and RSK2 serine/threonine kinases regulate different transcription programs in cancer. January 2023. Frontiers in Cell and Developmental Biology 10:1015665 DOI: 10.3389/fcell.2022.1015665. PMID: 36684450.

Year of Publication: 2022

Alghubayshi A, Edelman A, Alrajeh K, Roman Y. Genetic assessment of hyperuricemia and gout in Asian, Native Hawaiian, and Pacific Islander subgroups of pregnant women: biospecimens repository cross-sectional study. BMC Rheumatol. 2022 Jan 6;6(1):1. doi: 10.1186/s41927-021-00239-7. PMID: 34986901; PMCID: PMC8734301.

Pang APS, Higgins-Chen AT, Comite F, Raica I, Arboleda C, Went H, Mendez T, Schotsaert M, Dwaraka V, Smith R, Levine ME, Ndhlovu LC, Corley MJ. Longitudinal Study of DNA Methylation and Epigenetic Clocks Prior to and Following Test- Confirmed COVID-19 and mRNA Vaccination. Front Genet. 2022 Jun 3;13:819749. doi: 10.3389/fgene.2022.819749. PMID: 35719387; PMCID: PMC9203887.

Adhikari B, Lee CN, Khadka VS, Deng Y, Fukumoto G, Thorne M, Caires K, Odani J, Mishra B. RNA-Sequencing based analysis of bovine endometrium during the maternal recognition of pregnancy. BMC Genomics. 2022 Jul 7;23(1):494. doi: 10.1186/s12864-022-08720-4. PMID: 35799127; PMCID: PMC9264496.

Dye CK, Corley MJ, Ing C, Lum-Jones A, Li D, Mau MKLM, Maunakea AK. Shifts in the immunoepigenomic landscape of monocytes in response to a diabetes- specific social support intervention: a pilot study among Native Hawaiian adults with diabetes. Clin Epigenetics. 2022 Jul 18;14(1):91. doi: 10.1186/s13148-022-01307-6. PMID: 35851422; PMCID: PMC9295496.

Park SL, Le Marchand L, Cheng G, Balbo S, Chen M, Carmella SG, Thomson NM, Lee Y, Patel YM, Stram DO, Jensen J, Hatsukami DK, Murphy SE, Hecht SS. Quantitation of DNA Adducts Resulting from Acrolein Exposure and Lipid Peroxidation in Oral Cells of Cigarette Smokers from Three Racial/Ethnic Groups with Differing Risks for Lung Cancer. Chem Res Toxicol. 2022 Aug 23. doi: 10.1021/acs.chemrestox.2c00171. Epub ahead of print. PMID: 35998368.

McMillan JKP, O'Donnell P, Chang SP. Pattern recognition receptor ligand- induced differentiation of human transitional B cells. PLoS One. 2022 Aug 30;17(8):e0273810. doi: 10.1371/journal.pone.0273810. PMID: 36040923; PMCID: PMC9426890.

Chou A, Darst BF, Wilkens LR, Le Marchand L, Lilja H, Conti DV, Haiman CA. Association of Prostate-Specific Antigen Levels with Prostate Cancer Risk in a Multiethnic Population: Stability over Time and Comparison with Polygenic Risk Score. Cancer Epidemiol Biomarkers Prev. 2022 Sep 20:EPI-22-0443. doi: 10.1158/1055-9965.EPI-22-0443. Epub ahead of print. PMID: 36126957.

Kuwabara JT, Hara A, Bhutada S, Gojanovich GS, Chen J, Hokutan K, Shettigar V, Lee AY, DeAngelo LP, Heckl JR, Jahansooz JR, Tacdol DK, Ziolo MT, Apte SS, Tallquist MD. Consequences of PDGFR a + fibroblast reduction in adult murine hearts. Elife. 2022 Sep 23;11:e69854. doi: 10.7554/eLife.69854. Epub ahead of print. PMID: 36149056.

Ortega MA, Villiger RK, Harrison-Chau M, Lieu S, Tamashiro KK, Lee AJ, Fujimoto BA, Patwardhan GY, Kepler J, Fogelgren B. Exocyst inactivation in urothelial cells disrupts autophagy and activates non-canonical NF-κB signaling. Dis Model Mech. 2022 Oct 1;15(10):dmm049785. doi: 10.1242/dmm.049785. Epub 2022 Oct 12. PMID: 36004645.

Glibetic N, Shvetsov YB, Aan FJ, Peplowska K, Hernandez BY, Matter ML. Transcriptome profiling of colorectal tumors from patients with sepsis reveals an ethnic basis for viral infection risk and sepsis progression. Sci Rep. 2022 Nov 30;12(1):20646. doi: 10.1038/s41598-022-24489-8. PMID: 36450776; PMCID: PMC9709755.

Wang Z, Budhu AS, Shen Y, Wong LL, Hernandez BY, Tiirikainen M, Ma X, Irwin ML, Lu L, Zhao HY, Lim JK, Taddei T, Mishra L, Pawlish K, Stroup A, Brown R, Nguyen MH, Koshiol J, Hernandez MO, Forgues M, Yang HI, Lee MH, Huang YH, Iwasaki M, Goto A, Suzuki S, Matsuda K, Tanikawa C, Kamatani Y, Mann D, Guarnera M, Shetty K, Thomas CE, Yuan JM, Khor CC, Koh WP, Risch H, Wang XW, Yu H. Genetic Susceptibility to Hepatocellular Carcinoma in Chromosome 22q13.31, findings of a genome-wide association study. JGH Open, 2021 Nov 27;5(12):1363-1372. doi: 10.1002/jgh3.12682. PMID: 34950780; PMCID: PMC8674550.

Year of Publication: 2021

Featured publications supported by Genomics Laboratory Year of publication: 2021

Seale LA, Ogawa-Wong AN, Watanabe LM, Khadka VS, Menor M, Torres DJ, Carlson BA, Hatfield DL, Berry MJ. Adaptive Thermogenesis in a Mouse Model Lacking Selenoprotein Biosynthesis in Brown Adipocytes. Int J Mol Sci. 2021 Jan 9;22(2):611. doi: 10.3390/ijms22020611. PMID: 33435397; PMCID: PMC7827413.

Sun H, Lin M, Russell EM, Minster RL, Chan TF, Dinh BL, Naseri T, Reupena MS, Lum-Jones A; Samoan Obesity, Lifestyle, and Genetic Adaptations (OLaGA) Study Group, Cheng I, Wilkens LR, Le Marchand L, Haiman CA, Chiang CWK. The impact of global and local Polynesian genetic ancestry on complex traits in Native Hawaiians. PLoS Genet. 2021 Feb 11;17(2):e1009273. doi: 10.1371/journal.pgen.1009273. PMID: 33571193; PMCID: PMC7877570.

Morris BJ, Chen R, Donlon TA, Masaki KH, Willcox DC, Allsopp RC, Willcox BJ. Lifespan extension conferred by mitogen-activated protein kinase kinase kinase 5 (MAP3K5) longevity-associated gene variation is confined to at- risk men with a cardiometabolic disease. Aging (Albany NY). 2021 Mar 19;13(6):7953-7974. doi: 10.18632/aging.202844. Epub 2021 Mar 19. PMID: 33739303; PMCID: PMC8034933.

Marikawa Y, Menor M, Deng Y, Alarcon VB. Regulation of endoplasmic reticulum stress and trophectoderm lineage specification by the mevalonate pathway in the mouse preimplantation embryo. Mol Hum Reprod. 2021 Mar 24;27(4):gaab015. doi: 10.1093/molehr/gaab015. PMID: 33677573; PMCID: PMC7990410.

Fu Y, Katsaros D, Biglia N, Wang Z, Pagano I, Tius M, Tiirikainen M, Rosser C, Yang H, Yu H. Vitamin D receptor upregulates lncRNA TOPORS-AS1 which inhibits the Wnt/β-catenin pathway and associates with favorable prognosis of ovarian cancer. Sci Rep. 2021 Apr 5;11(1):7484. doi: 10.1038/s41598-021-86923-7. PMID: 33820921; PMCID: PMC8021562.

Ma C, Hoffmann FW, Marciel MP, Page KE, Williams-Aduja MA, Akana ENL, Gojanovich GS, Gerschenson M, Urschitz J, Moisyadi S, Khadka VS, Rozovsky S, Deng Y, Horgen FD, Hoffmann PR. Upregulated ethanolamine phospholipid synthesis via selenoprotein I is required for effective metabolic reprogramming during T cell activation. Mol Metab. 2021 May;47:101170. doi: 10.1016/j.molmet.2021.101170. Epub 2021 Jan 20. PMID: 33484950; PMCID: PMC7881273.

Sah N, Kuehu DL, Khadka VS, Deng Y, Jha R, Wasti S, Mishra B. RNA sequencing-based analysis of the magnum tissues revealed the novel genes and biological pathways involved in the egg-white formation in the laying hen. BMC Genomics. 2021 May 1;22(1):318. doi: 10.1186/s12864-021-07634-x. PMID: 33932994; PMCID: PMC8088581.

Jokipii Krueger CC, Park SL, Madugundu G, Patel Y, Le Marchand L, Stram DO, Tretyakova N. Ethnic differences in excretion of butadiene-DNA adducts by current smokers. Carcinogenesis. 2021 May 28;42(5):694-704. doi: 10.1093/carcin/bgab020. PMID: 33693566; PMCID: PMC8163050.

Donlon TA, Chen R, Masaki KH, Willcox DC, Allsopp RC, Willcox BJ, Morris BJ. Association of growth hormone receptor gene variant with longevity in men is due to amelioration of increased mortality risk from hypertension. Aging (Albany NY). 2021 Jun 1;13(11):14745-14767. doi: 10.18632/aging.203133. Epub 2021 Jun 1. PMID: 34074802; PMCID: PMC8221335.

Williams AL, Walton CB, Pinell B, Khadka VS, Dunn B, Lee K, Anagaran MCT, Avelar A, Shohet RV. Ischemic heart injury leads to HIF1-dependent differential splicing of CaMK2γ. Sci Rep. 2021 Jun 23;11(1):13116. doi: 10.1038/s41598-021-92426-2. PMID: 34162925; PMCID: PMC8222303.

Streicher SA, Lim U, Park SL, Li Y, Sheng X, Hom V, Xia L, Pooler L, Shepherd J, Loo LWM, Darst BF, Highland HM, Polfus LM, Bogumil D, Ernst T, Buchthal S, Franke AA, Setiawan VW, Tiirikainen M, Wilkens LR, Haiman CA, Stram DO, Cheng I, Le Marchand L. Genome-wide association study of pancreatic fat: The Multiethnic Cohort Adiposity Phenotype Study. PLoS One. 2021 Jul 30;16(7):e0249615. doi: 10.1371/journal.pone.0249615. PMID: 34329319; PMCID: PMC8323875.

Gong T, Hashimoto AC, Sasuclark AR, Khadka VS, Gurary A, Pitts MW. Selenoprotein M Promotes Hypothalamic Leptin Signaling and Thioredoxin Antioxidant Activity. Antioxid Redox Signal. 2021 Oct 1;35(10):775-787. doi: 10.1089/ars.2018.7594. Epub 2019 Mar 6. PMID: 30648404.

Wang J, Conti DV, Bogumil D, Sheng X, Noureddin M, Wilkens LR, Le Marchand L, Rosen HR, Haiman CA, Setiawan VW. Association of Genetic Risk Score With NAFLD in An Ethnically Diverse Cohort. Hepatol Commun. 2021 Oct;5(10):1689-1703. doi: 10.1002/hep4.1751. Epub 2021 Jun 18. PMID: 34558842; PMCID: PMC8485887.

Song MA, Seffernick AE, Archer KJ, Mori KM, Park SY, Chang L, Ernst T, Tiirikainen M, Peplowska K, Wilkens LR, Le Marchand L, Lim U. Race/ethnicity- associated blood DNA methylation differences between Japanese and European American women: an exploratory study. Clin Epigenetics. 2021 Oct 11;13(1):188. doi: 10.1186/s13148-021-01171-w. PMID: 34635168; PMCID: PMC8507376.

Corley MJ, Pang APS, Rasmussen TA, Tolstrup M, Sogaard OS, Ndhlovu LC. Candidate host epigenetic marks predictive for HIV reservoir size, responsiveness to latency reversal, and viral rebound. AIDS. 2021 Nov 15;35(14):2269-2279. doi: 10.1097/QAD.0000000000003065. PMID: 34482353; PMCID: PMC8563431.

Bergen AW, McMahan CS, McGee S, Ervin CM, Tindle HA, Le Marchand L, Murphy SE, Stram DO, Patel YM, Park SL, Baurley JW. Multiethnic Prediction of Nicotine Biomarkers and Association With Nicotine Dependence. Nicotine Tob Res. 2021 Nov 5;23(12):2162-2169. doi: 10.1093/ntr/ntab124. PMID: 34313775; PMCID: PMC8757310.

Wang Z, Budhu AS, Shen Y, Wong LL, Hernandez BY, Tiirikainen M, Ma X, Irwin ML, Lu L, Zhao H, Lim JK, Taddei T, Mishra L, Pawlish K, Stroup A, Brown R, Nguyen MH, Koshiol J, Hernandez MO, Forgues M, Yang HI, Lee MH, Huang YH, Iwasaki M, Goto A, Suzuki S, Matsuda K, Tanikawa C, Kamatani Y, Mann D, Guarnera M, Shetty K, Thomas CE, Yuan JM, Khor CC, Koh WP, Risch H, Wang XW, Yu H. Genetic susceptibility to hepatocellular carcinoma in chromosome 22q13.31, findings of a genome-wide association study. JGH Open. 2021 Nov 27;5(12):1363-1372. doi: 10.1002/jgh3.12682. PMID: 34950780; PMCID: PMC8674550.

Benny P, Ahn HJ, Burlingame J, Lee MJ, Miller C, Chen J, Urschitz J. Genetic risk factors associated with gestational diabetes in a multi-ethnic population. PLoS One. 2021 Dec 20;16(12):e0261137. doi: 10.1371/journal.pone.0261137. PMID: 34928995; PMCID: PMC8687569. .

Year of Publication: 2020

Shiosaki J, Tiirikainen M, Peplowska K, Shaeffer D, Machida M, Sakamoto K, Takahashi M, Kojima K, Machi J, Bryant-Greenwood P, Kuwada SK. Serum micro-RNA Identifies Early Stage Colorectal Cancer in a Multi-Ethnic Population. Asian Pac J Cancer Prev .2020 Oct 1;21(10):3019-3026. doi: 10.31557/APJCP.2020.21.10.3019.

Lin M, Caberto C, Wan P, Li Y, Lum-Jones A, Tiirikainen M, Pooler L, Nakamura B, Sheng X, Porcel J, Lim U, Setiawan VW, Le Marchand L, Wilkens LR, Haiman CA, Cheng I, Chiang CWK. Population-specific reference panels are crucial for genetic analyses: an example of the CREBRF locus in Native Hawaiians. Hum Mol Genet 2020 Aug 3;29(13):2275-2284. PMID: 32491157 PMCID: PMC7399533 (available on 2021-08-03) doi: 10.1093/hmg/ddaa083.

Go RCP, Corley MJ, Ross GW, Petrovitch H, Masaki KH, Maunakea AK, He Q, Tiirikainen MI. Genome-wide epigenetic analyses in Japanese immigrant plantation workers with Parkinson's disease and exposure to organochlorines reveal possible involvement of glial genes and pathways involved in neurotoxicity. BMC Neurosci. 2020 Jul 10;21(1):31. PMID: 32650713 doi: 10.1186/s12868-020-00582-4.

Park SL, Sheng YLX, Hom V, Xia L, Zhao K, Pooler W, Setiawan VW, Lim U, Monroe KR, Wilkens LR, Kristal BS, Lampe JW, Hullar M, Shepherd J, Loo LLM, Ernst T, Franke AA, Tiirikainen M, Haiman CA, Stram DO, Le Marchand L, Cheng I. Genome-wide association study of liver fat: The Multiethnic Cohort Adiposity Phenotype Study. Hepatology Communications VOL. 4, NO. 8, 2020. PMCID: PMC7395069 DOI 10.1002/hep4.1533.

Hu Y, Graff M, Haessler J, Buyske S, Bien SA, Tao R, Highland HM, Nishimura KK,Zubair N, Lu Y, Verbanck M, Hilliard AT, Klarin D, Damrauer SM, Ho YL; VA Million Veteran Program., Wilson PWF, Chang KM, Tsao PS, Cho K, O'Donnell CJ, Assimes TL,et al. Minority-centric meta-analyses of blood lipid levels identify novel lociin the Population Architecture using Genomics and Epidemiology (PAGE) study. PLoSGenet. 2020 Mar 30;16(3):e1008684. doi: 10.1371/journal.pgen.1008684. eCollection 2020 Mar. PubMed [citation] PMID: 32226016, PMCID: PMC7145272.

Roman Y, Tiirikainen M, Prom-Wormley E. The prevalence of the gout-associated polymorphism rs2231142 G>T in ABCG2 in a pregnant female Filipino cohort. Clin Rheumatol. 2020 Feb 27. doi: 10.1007/s10067-020-04994-9. Epub ahead of print. PMID: 32107664.

Year of Publication: 2019

Seale LA, Khadka VS, Menor M, Xie G, Watanabe LM, Sasuclark A, Guirguis K, Ha HY, Hashimoto AC, Peplowska K, Tiirikainen M, Jia W, Berry MJ, Deng Y. Combined Omics Reveals That Disruption of the Selenocysteine Lyase Gene Affects Amino Acid Pathways in Mice. Nutrients. 2019 Oct 26;11(11):2584. doi: 10.3390/nu11112584. PMID: 31717805; PMCID: PMC6893568.

Li Y, Giorgi EE, Beckman KB, Caberto C, Kazma R, Lum-Jones A, Haiman CA, Marchand LL, Stram DO, Saxena R, Cheng I. Association between mitochondrial genetic variation and breast cancer risk: The Multiethnic Cohort. PLoS One. 2019 Oct 2;14(10):e0222284. doi: 10.1371/journal.pone.0222284. PMID: 31577800; PMCID: PMC6774509.

Corley MJ, Vargas-Maya N, Pang APS, Lum-Jones A, Li D, Khadka V, Sultana R, Blanchard DC, Maunakea AK. Epigenetic Delay in the Neurodevelopmental Trajectory of DNA Methylation States in Autism Spectrum Disorders. Front Genet. 2019 Oct 1;10:907. doi: 10.3389/fgene.2019.00907. eCollection 2019. PubMed [citation] PMID: 31681403, PMCID: PMC6797928.

Wang Z, Katsaros D, Biglia N, Shen Y, Fu Y, Tiirikainen M, Yu H. Low expression of WWC1, a tumor suppressor gene, is associated with aggressive breast cancer and poor survival outcome. FEBS Open Bio. 2019 Jul;9(7):1270-1280. doi: 10.1002/2211-5463.12659. Epub 2019 Jun 1. PMID: 31102318; PMCID: PMC6609559.

Kwee SA, Tiirikainen M, Sato MM, Acoba JD, Wei R, Jia W, Le Marchand L, Wong LL. Transcriptomics Associates Molecular Features with 18F-Fluorocholine PET/CT Imaging Phenotype and Its Potential Relationship to Survival in Hepatocellular Carcinoma. Cancer Res. 2019 Apr 1;79(7):1696-1704. doi: 10.1158/0008-5472.CAN-18-3837. Epub 2019 Feb 13. PMID: 30760520; PMCID: PMC6494445.

Gu Y, Wei X, Sun Y, Gao H, Zheng X, Wong LL, Jin L, Liu N, Hernandez B, Peplowska K, Zhao X, Zhan QM, Feng XH, Tang ZY, Ji J. miR-192-5p Silencing by Genetic Aberrations Is a Key Event in Hepatocellular Carcinomas with Cancer Stem Cell Features. Cancer Res. 2019 Mar 1;79(5):941-953. doi: 10.1158/0008-5472.CAN-18-1675. Epub 2018 Dec 7. PMID: 30530815; PMCID: PMC6397664.