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Video-assisted thoracoscopic surgery for thoracic empyema in patients on maintenance hemodialysis.

Liao HC, Chuang JH, Hsu HH, Chen KC, Chen JS.

Surg Endosc. 2019 Jul 8. doi: 10.1007/s00464-019-06935-3. [Epub ahead of print]


Genomic data analysis workflows for tumors from patient-derived xenografts (PDXs): challenges and guidelines.

Woo XY, Srivastava A, Graber JH, Yadav V, Sarsani VK, Simons A, Beane G, Grubb S, Ananda G, Liu R, Stafford G, Chuang JH, Airhart SD, Karuturi RKM, George J, Bult CJ.

BMC Med Genomics. 2019 Jul 1;12(1):92. doi: 10.1186/s12920-019-0551-2.


Mitochondrial Transfer of Wharton's Jelly Mesenchymal Stem Cells Eliminates Mutation Burden and Rescues Mitochondrial Bioenergetics in Rotenone-Stressed MELAS Fibroblasts.

Lin TK, Chen SD, Chuang YC, Lan MY, Chuang JH, Wang PW, Hsu TY, Wang FS, Tsai MH, Huang ST, Wang XW, Tsai PC, Lin HY, Liou CW.

Oxid Med Cell Longev. 2019 May 22;2019:9537504. doi: 10.1155/2019/9537504. eCollection 2019.


Fostering bioinformatics education through skill development of professors: Big Genomic Data Skills Training for Professors.

Zhan YA, Wray CG, Namburi S, Glantz ST, Laubenbacher R, Chuang JH.

PLoS Comput Biol. 2019 Jun 13;15(6):e1007026. doi: 10.1371/journal.pcbi.1007026. eCollection 2019 Jun.


Mutations in DNA repair genes are associated with increased neoantigen burden and a distinct immunophenotype in lung squamous cell carcinoma.

Chae YK, Anker JF, Oh MS, Bais P, Namburi S, Agte S, Giles FJ, Chuang JH.

Sci Rep. 2019 Mar 1;9(1):3235. doi: 10.1038/s41598-019-39594-4.


Resveratrol provides neuroprotective effects through modulation of mitochondrial dynamics and ERK1/2 regulated autophagy.

Lin KL, Lin KJ, Wang PW, Chuang JH, Lin HY, Chen SD, Chuang YC, Huang ST, Tiao MM, Chen JB, Huang PH, Liou CW, Lin TK.

Free Radic Res. 2018 Dec;52(11-12):1371-1386. doi: 10.1080/10715762.2018.1489128.


Unstable Genome and Transcriptome Dynamics during Tumor Metastasis Contribute to Therapeutic Heterogeneity in Colorectal Cancers.

Cho SY, Chae J, Na D, Kang W, Lee A, Min S, Kang J, Choi B, Lee J, Sung CO, Chuang JH, Lee C, Lee WS, Park H, Kim JI.

Clin Cancer Res. 2019 May 1;25(9):2821-2834. doi: 10.1158/1078-0432.CCR-18-3460. Epub 2019 Jan 22.


CCNE1 amplification is associated with poor prognosis in patients with triple negative breast cancer.

Zhao ZM, Yost SE, Hutchinson KE, Li SM, Yuan YC, Noorbakhsh J, Liu Z, Warden C, Johnson RM, Wu X, Chuang JH, Yuan Y.

BMC Cancer. 2019 Jan 21;19(1):96. doi: 10.1186/s12885-019-5290-4.


High-resolution deconstruction of evolution induced by chemotherapy treatments in breast cancer xenografts.

Kim H, Kumar P, Menghi F, Noorbakhsh J, Cerveira E, Ryan M, Zhu Q, Ananda G, George J, Chen HC, Mockus S, Zhang C, Yang Y, Keck J, Karuturi RKM, Bult CJ, Lee C, Liu ET, Chuang JH.

Sci Rep. 2018 Dec 18;8(1):17937. doi: 10.1038/s41598-018-36184-8.


Triggering TLR3 pathway promotes tumor growth and cisplatin resistance in head and neck cancer cells.

Chuang HC, Chou MH, Chien CY, Chuang JH, Liu YL.

Oral Oncol. 2018 Nov;86:141-149. doi: 10.1016/j.oraloncology.2018.09.015. Epub 2018 Sep 25.


The Causal Role of Mitochondrial Dynamics in Regulating Insulin Resistance in Diabetes: Link through Mitochondrial Reactive Oxygen Species.

Lin HY, Weng SW, Chang YH, Su YJ, Chang CM, Tsai CJ, Shen FC, Chuang JH, Lin TK, Liou CW, Lin CY, Wang PW.

Oxid Med Cell Longev. 2018 Sep 30;2018:7514383. doi: 10.1155/2018/7514383. eCollection 2018.


Re: Increased expression of interleukin-23 associated with progression of colorectal cancer. Journal of Surgical Oncology 2017;115(2):208-212.

Hu WH, Chen HH, Yen SL, Huang HY, Hsiao CC, Chuang JH.

J Surg Oncol. 2018 Sep;118(4):723. doi: 10.1002/jso.24829. Epub 2017 Sep 10. No abstract available.


Whole-exome sequencing capture kit biases yield false negative mutation calls in TCGA cohorts.

Wang VG, Kim H, Chuang JH.

PLoS One. 2018 Oct 3;13(10):e0204912. doi: 10.1371/journal.pone.0204912. eCollection 2018.


Innate immune sensor laboratory of genetics and physiology 2 suppresses tumor cell growth and functions as a prognostic marker in neuroblastoma.

Lin LL, Huang CC, Wu MT, Hsu WM, Chuang JH.

Cancer Sci. 2018 Nov;109(11):3494-3502. doi: 10.1111/cas.13790. Epub 2018 Oct 4.


Ultrasound-guided percutaneous dilatational tracheostomy using a saline-filled endotracheal tube cuff as an ultrasonographic puncture target: A feasibility study.

Lin CH, Yang SM, Chiang XH, Chuang JH, Ko HJ, Huang PM.

J Crit Care. 2018 Dec;48:112-117. doi: 10.1016/j.jcrc.2018.08.010. Epub 2018 Aug 18.


Development of a Graphene Oxide-Incorporated Polydimethylsiloxane Membrane with Hexagonal Micropillars.

Lin YY, Chien Y, Chuang JH, Chang CC, Yang YP, Lai YH, Lo WL, Chien KH, Huo TI, Wang CY.

Int J Mol Sci. 2018 Aug 25;19(9). pii: E2517. doi: 10.3390/ijms19092517.


Distribution-based measures of tumor heterogeneity are sensitive to mutation calling and lack strong clinical predictive power.

Noorbakhsh J, Kim H, Namburi S, Chuang JH.

Sci Rep. 2018 Jul 30;8(1):11445. doi: 10.1038/s41598-018-29154-7.


Expression profiling of cell-intrinsic regulators in the process of differentiation of human iPSCs into retinal lineages.

Chuang JH, Yarmishyn AA, Hwang DK, Hsu CC, Wang ML, Yang YP, Chien KH, Chiou SH, Peng CH, Chen SJ.

Stem Cell Res Ther. 2018 May 11;9(1):140. doi: 10.1186/s13287-018-0848-7.


Correction to: Soluble delta-like 1 homolog (DLK1) stimulates angiogenesis through Notch1/Akt/eNOS signaling in endothelial cells.

Huang CC, Kuo HM, Wu PC, Cheng SH, Chang TT, Chang YC, Kung ML, Wu DC, Chuang JH, Tai MH.

Angiogenesis. 2018 Nov;21(4):901. doi: 10.1007/s10456-018-9615-8.


The decrease of glycolytic enzyme hexokinase 1 accelerates tumor malignancy via deregulating energy metabolism but sensitizes cancer cells to 2-deoxyglucose inhibition.

Tseng PL, Chen CW, Hu KH, Cheng HC, Lin YH, Tsai WH, Cheng TJ, Wu WH, Yeh CW, Lin CC, Tsai HJ, Chang HC, Chuang JH, Shan YS, Chang WT.

Oncotarget. 2018 Apr 10;9(27):18949-18969. doi: 10.18632/oncotarget.24855. eCollection 2018 Apr 10.


Generation of induced pluripotent stem cells from a patient with Best Dystrophy carrying 11q12.3 (BEST1 (VMD2)) mutation.

Hsu CC, Lu HE, Chuang JH, Ko YL, Tsai YC, Tai HY, Yarmishyn AA, Hwang DK, Wang ML, Yang YP, Chen SJ, Peng CH, Chiou SH, Lin TC.

Stem Cell Res. 2018 May;29:134-138. doi: 10.1016/j.scr.2018.03.019. Epub 2018 Apr 3.


SARNAclust: Semi-automatic detection of RNA protein binding motifs from immunoprecipitation data.

Dotu I, Adamson SI, Coleman B, Fournier C, Ricart-Altimiras E, Eyras E, Chuang JH.

PLoS Comput Biol. 2018 Mar 29;14(3):e1006078. doi: 10.1371/journal.pcbi.1006078. eCollection 2018 Mar.


Prurigo Pigmentosa: An Itchy, Urticarial Eruption Confused for Food Allergy.

Capucilli P, Wan J, Corry J, Chuang JH, Linn RL, Perman MJ.

J Allergy Clin Immunol Pract. 2018 Jul - Aug;6(4):1381-1382. doi: 10.1016/j.jaip.2018.02.033. Epub 2018 Mar 23. No abstract available.


Early intervention of N-acetylcysteine better improves insulin resistance in diet-induced obesity mice.

Shen FC, Weng SW, Tsao CF, Lin HY, Chang CS, Lin CY, Lian WS, Chuang JH, Lin TK, Liou CW, Wang PW.

Free Radic Res. 2018 Dec;52(11-12):1296-1310. doi: 10.1080/10715762.2018.1447670.


Mutations in DNA repair genes are associated with increased neo-antigen load and activated T cell infiltration in lung adenocarcinoma.

Chae YK, Anker JF, Bais P, Namburi S, Giles FJ, Chuang JH.

Oncotarget. 2017 Dec 15;9(8):7949-7960. doi: 10.18632/oncotarget.23742. eCollection 2018 Jan 30.


Alterations in the Rho pathway contribute to Epstein-Barr virus-induced lymphomagenesis in immunosuppressed environments.

Cho SY, Sung CO, Chae J, Lee J, Na D, Kang W, Kang J, Min S, Lee A, Kwak E, Kim J, Choi B, Kim H, Chuang JH, Pak HK, Park CS, Park S, Ko YH, Lee D, Roh J, Cho MS, Park S, Ju YS, Suh YS, Kong SH, Lee HJ, Keck J, Banchereau J, Liu ET, Kim WH, Park H, Yang HK, Kim JI, Lee C.

Blood. 2018 Apr 26;131(17):1931-1941. doi: 10.1182/blood-2017-07-797209. Epub 2018 Feb 23.


Decreased succinate dehydrogenase B in human hepatocellular carcinoma accelerates tumor malignancy by inducing the Warburg effect.

Tseng PL, Wu WH, Hu TH, Chen CW, Cheng HC, Li CF, Tsai WH, Tsai HJ, Hsieh MC, Chuang JH, Chang WT.

Sci Rep. 2018 Feb 15;8(1):3081. doi: 10.1038/s41598-018-21361-6.


Dexamethasone restores transforming growth factor-β activated kinase 1 expression and phagocytosis activity of Kupffer cells in cholestatic liver injury.

Hsieh CS, Chuang JH, Chou MH, Kao YH.

Int Immunopharmacol. 2018 Mar;56:310-319. doi: 10.1016/j.intimp.2018.01.047. Epub 2018 Feb 20.


Increased expression of senescence-associated cell cycle regulators in the progression of biliary atresia: an immunohistochemical study.

Sasaki M, Kuo FY, Huang CC, Swanson PE, Chen CL, Chuang JH, Yeh MM.

Histopathology. 2018 Jun;72(7):1164-1171. doi: 10.1111/his.13476. Epub 2018 Mar 9.


Soluble delta-like 1 homolog (DLK1) stimulates angiogenesis through Notch1/Akt/eNOS signaling in endothelial cells.

Huang CC, Kuo HM, Wu PC, Cheng SH, Chang TT, Chang YC, Kung ML, Wu DC, Chuang JH, Tai MH.

Angiogenesis. 2018 May;21(2):299-312. doi: 10.1007/s10456-018-9596-7. Epub 2018 Jan 30. Erratum in: Angiogenesis. 2018 May 10;:.


Promoting Induced Pluripotent Stem Cell-driven Biomineralization and Periodontal Regeneration in Rats with Maxillary-Molar Defects using Injectable BMP-6 Hydrogel.

Chien KH, Chang YL, Wang ML, Chuang JH, Yang YC, Tai MC, Wang CY, Liu YY, Li HY, Chen JT, Kao SY, Chen HL, Lo WL.

Sci Rep. 2018 Jan 8;8(1):114. doi: 10.1038/s41598-017-18415-6.


Toward Automatic Reporting of Infectious Diseases.

Tsao HM, Chang CM, Chuang JH, Liu DP, Pan ML, Wang DW.

Stud Health Technol Inform. 2017;245:808-812.


Balancing geo-privacy and spatial patterns in epidemiological studies.

Chen CC, Chuang JH, Wang DW, Wang CM, Lin BC, Chan TC.

Geospat Health. 2017 Nov 8;12(2):573. doi: 10.4081/gh.2017.573.


Discovering the Deregulated Molecular Functions Involved in Malignant Transformation of Endometriosis to Endometriosis-Associated Ovarian Carcinoma Using a Data-Driven, Function-Based Analysis.

Chang CM, Yang YP, Chuang JH, Chuang CM, Lin TW, Wang PH, Yu MH, Chang CC.

Int J Mol Sci. 2017 Nov 6;18(11). pii: E2345. doi: 10.3390/ijms18112345.


Association of mSin1 with mTORC2 Ras and Akt reveals a crucial domain on mSin1 involved in Akt phosphorylation.

Yao CA, Ortiz-Vega S, Sun YY, Chien CT, Chuang JH, Lin Y.

Oncotarget. 2017 Jun 28;8(38):63392-63404. doi: 10.18632/oncotarget.18818. eCollection 2017 Sep 8.


Elongation of Axon Extension for Human iPSC-Derived Retinal Ganglion Cells by a Nano-Imprinted Scaffold.

Yang TC, Chuang JH, Buddhakosai W, Wu WJ, Lee CJ, Chen WS, Yang YP, Li MC, Peng CH, Chen SJ.

Int J Mol Sci. 2017 Sep 20;18(9). pii: E2013. doi: 10.3390/ijms18092013.


Uncertainties in tumor allele frequencies limit power to infer evolutionary pressures.

Noorbakhsh J, Chuang JH.

Nat Genet. 2017 Aug 30;49(9):1288-1289. doi: 10.1038/ng.3876. No abstract available.


Mitochondrial Transfer from Wharton's Jelly Mesenchymal Stem Cell to MERRF Cybrid Reduces Oxidative Stress and Improves Mitochondrial Bioenergetics.

Chuang YC, Liou CW, Chen SD, Wang PW, Chuang JH, Tiao MM, Hsu TY, Lin HY, Lin TK.

Oxid Med Cell Longev. 2017;2017:5691215. doi: 10.1155/2017/5691215. Epub 2017 May 4.


CloudNeo: a cloud pipeline for identifying patient-specific tumor neoantigens.

Bais P, Namburi S, Gatti DM, Zhang X, Chuang JH.

Bioinformatics. 2017 Oct 1;33(19):3110-3112. doi: 10.1093/bioinformatics/btx375.


mtDNA as a Mediator for Expression of Hypoxia-Inducible Factor 1α and ROS in Hypoxic Neuroblastoma Cells.

Kuo CW, Tsai MH, Lin TK, Tiao MM, Wang PW, Chuang JH, Chen SD, Liou CW.

Int J Mol Sci. 2017 Jun 7;18(6). pii: E1220. doi: 10.3390/ijms18061220.


Heterogeneous nuclear ribonucleoprotein M associates with mTORC2 and regulates muscle differentiation.

Chen WY, Lin CL, Chuang JH, Chiu FY, Sun YY, Liang MC, Lin Y.

Sci Rep. 2017 Jan 20;7:41159. doi: 10.1038/srep41159.


Tanshinone IIA induces intrinsic apoptosis in osteosarcoma cells both in vivo and in vitro associated with mitochondrial dysfunction.

Huang ST, Huang CC, Huang WL, Lin TK, Liao PL, Wang PW, Liou CW, Chuang JH.

Sci Rep. 2017 Jan 20;7:40382. doi: 10.1038/srep40382.


Phyllanthus urinaria's Inhibition of Human Osteosarcoma Xenografts Growth in Mice is Associated with Modulation of Mitochondrial Fission/Fusion Machinery.

Huang ST, Huang CC, Sheen JM, Lin TK, Liao PL, Huang WL, Wang PW, Liou CW, Chuang JH.

Am J Chin Med. 2016;44(7):1507-1523. Epub 2016 Oct 25.


Increased expression of interleukin-23 associated with progression of colorectal cancer.

Hu WH, Chen HH, Yen SL, Huang HY, Hsiao CC, Chuang JH.

J Surg Oncol. 2017 Feb;115(2):208-212. doi: 10.1002/jso.24505. Epub 2016 Nov 3. Erratum in: J Surg Oncol. 2018 Sep;118(4):723.


Toll-like receptor 7 agonist induces hypoplasia of the biliary system in a neonatal mouse model.

Huang YH, Shih HH, Tiao MM, Huang CC, Kuo KC, Huang FC, Yang YL, Chuang JH.

J Microbiol Immunol Infect. 2018 Apr;51(2):166-173. doi: 10.1016/j.jmii.2016.07.002. Epub 2016 Aug 3.


Laminin modification subretinal bio-scaffold remodels retinal pigment epithelium-driven microenvironment in vitro and in vivo.

Peng CH, Chuang JH, Wang ML, Jhan YY, Chien KH, Chung YC, Hung KH, Chang CC, Lee CK, Tseng WL, Hwang DK, Hsu CH, Lin TC, Chiou SH, Chen SJ.

Oncotarget. 2016 Oct 4;7(40):64631-64648. doi: 10.18632/oncotarget.11502.


Gene Set-Based Integrative Analysis Revealing Two Distinct Functional Regulation Patterns in Four Common Subtypes of Epithelial Ovarian Cancer.

Chang CM, Chuang CM, Wang ML, Yang YP, Chuang JH, Yang MJ, Yen MS, Chiou SH, Chang CC.

Int J Mol Sci. 2016 Aug 5;17(8). pii: E1272. doi: 10.3390/ijms17081272.


CTMP, a predictive biomarker for trastuzumab resistance in HER2-enriched breast cancer patient.

Chen YC, Li HY, Liang JL, Ger LP, Chang HT, Hsiao M, Calkins MJ, Cheng HC, Chuang JH, Lu PJ.

Oncotarget. 2017 May 2;8(18):29699-29710. doi: 10.18632/oncotarget.10719.


Downregulation of c-Myc is involved in TLR3-mediated tumor death of neuroblastoma xenografts.

Lin LL, Huang CC, Wu CL, Wu MT, Hsu WM, Chuang JH.

Lab Invest. 2016 Jul;96(7):719-30. doi: 10.1038/labinvest.2016.57. Epub 2016 May 16.


Incidence, Outcomes, and Risk Factors of Community-Acquired and Hospital-Acquired Acute Kidney Injury: A Retrospective Cohort Study.

Hsu CN, Lee CT, Su CH, Wang YC, Chen HL, Chuang JH, Tain YL.

Medicine (Baltimore). 2016 May;95(19):e3674. doi: 10.1097/MD.0000000000003674.

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