Tzu Phang, PhD

Publications

• 1: Toxicol Sci. 2006 Dec;94(2):379-87. Epub 2006 Sep 22. Identification of genes controlled by the pregnane X receptor by microarray analysis of mRNAs from pregnenolone 16alpha-carbonitrile-treated rats. Guzelian J, Barwick JL, Hunter L, Phang TL, Quattrochi LC, Guzelian PS.
• 1: Physiol Genomics. 2007 Feb 12;28(3):323-36. Epub 2006 Nov 14. Metabolic regulation in the lactating mammary gland: a lipid synthesizing machine. Rudolph MC, McManaman JL, Phang T, Russell T, Kominsky DJ, Serkova NJ, Stein T, Anderson SM, Neville MC.
• Strategy to Identify Genes Responsible for EGFR-inhibitor Resistance and Novel Biomarkers in Lung Cancer Harry A. Drabkin, Barbara Helfrich, Dan Chan, Tzu Phang, Wilbur A. Franklin, , Paul Bunn and Robert M. Gemmill. Univ. of Colorado Lung SPORE.
• Genome-wide gene expression over time in human subcutaneous adipose tissue N.R. Stob, T.L. Phang, R.C. Lindstrom, C. Law, T.L. Hernandez, B. Gao, and R.H. Eckel
• INVESTIGATING MOLECULAR PATHWAYS INVOLVED IN CANINE HEMANGIOSARCOMA UTILIZING GENE EXPRESSION ARRAY TECHNOLOGY AND GENE SET ENRICHMENT ANALYSIS Susan C. Trapp, Beth A. Tamburini, Tzu Phang, Cristan Jubala, Susan Fosmire, Larry Hunter, and Jamie F. Modiano. Computational Bioscience Program1, Integrative Department of Immunology2, University of Colorado Cancer Center3, Department of Medicine4, University of Colorado at Denver and Health Sciences Center (ISMB 2007)
• Exon Array Analysis: Changing the Landscape of Gene Expression Profiling Tzu L. Phang and Richard Radcliffe Butcher Symposium, Westin Hotel, Wesminter, CO. Nov 16, 2007
• Bhave SV, Hornbaker C, Phang TL, Saba L, Lapadat R, Kechris K, Gaydos J, McGoldrick D, Dolbey A, Leach S, Soriano B, Ellington A, Ellington E, Jones K, Mangion J, Belknap JK, Williams RW, Hunter LE, Hoffman PL, Tabakoff B.The PhenoGen Informatics website: tools for analyses of complex traits. BMC Genet. 2007 Aug 30;8(1):59
• Djuana M Harvell, Nicole S. Spoelstra, Meenakshi Singh, James L. McManaman, Christina Finlayson, Tzu Phang, Susan Trapp, Lawrence Hunter, Wendy W. Dye, Virginia B. Borges, Anthony Elias, Kathryn B. Horwitz1, and Jennifer K. Richer. Molecular Signatures of Neoadjuvant Endocrine Therapy for Breast Cancer: Characteristics of Response or Intrinsic Resistance. (In press: Breast Cancer Research and Treatment)
• Adipose Tissue Reaccumulation Following Suction Lipectomy is Negatively Associated with Fibrotic Gene Expression. Nicole Stob, Tzu Phang, Rachel Lindstrom, Christopher Law, Teri L. Hernandez, Bifeng Gao, Robert H. Eckel
• Gene Expression Profiling Identifies Inflammation and Angiogenesis as Distinguishing Features of Canine Hemangiosarcoma. Sally Robinson, Beth A. Tamburini, Megan Duckett, Susan P. Fosmire, Susan Trapp, Tzu Lip Phang, Jill Slansky, Gary R. Cutter, Donald Bellgrau, Robert M. Gemmill, Lawrence E. Hunter, Jaime F. Modiano, Leslie C. Sharkey
• Platelet Gene Expression in Acute Coronary Syndrome David Calverley, Tzu Phang
• Woo DK, Phang TL, Trawick JD, Poyton RO. Multiple pathways of mitochondrial-nuclear communication in yeast: Intergenomic signaling involves ABF1 and affects a different set of genes than retrograde regulation. Biochim Biophys Acta. 2009 Feb;1789(2):135-45. Epub 2008 Oct 14.
• Beth A Tamburini, Susan Trapp, Tzu L. Phang Lawrence Hunter, Jaime F. Modiano. Genetic Background Influences Tumor Phenotypes as Defined by Comparing Hemangiosarcoma of Golden Retrievers and non-Golden Retrievers.
• Woo DK, Phang TL, Trawick JD, Poyton RO Multiple pathways of mitochondrial-nuclear communication in yeast: intergenomic signaling involves ABF1 and affects a different set of genes than retrograde regulation. Biochim Biophys Acta. 2009 Feb;1789(2):135-45. Epub 2008 Oct 14.
• Liu LY, Chen CY, Chen MJ, Tsai MS, Lee CH, Phang TL, Chang LY, Kuo WH, Hwa HL, Lien HC, Jung SM, Lin YS, Chang KJ, Hsieh FJ. Statistical identification of gene association by CID in application of constructing ER regulatory network. BMC Bioinformatics. 2009 Mar 17;10:85.
• Tamburini BA, Trapp S, Phang TL, Schappa JT, Hunter LE, Modiano JF. Gene expression profiles of sporadic canine hemangiosarcoma are uniquely associated with breed. PLoS One. 2009 May 20;4(5):e5549.
• Tyler KL, Leser JS, Phang TL, Clarke P. Gene expression in the brain during reovirus encephalitis. J Neurovirol. 2010 Feb;16(1):56-71.
• Phang T. R and Bioconductor solutions for alternative splicing detection. Hum Genomics. 2009 Dec;4(2):131-5.
• Feng W, Leach SM, Tipney H, Phang T, Geraci M, Spritz RA, Hunter LE, Williams T. Spatial and temporal analysis of gene expression during growth and fusion of the mouse facial prominences. PLoS One. 2009 Dec 16;4(12):e8066.
• Influenza A infection induces innate immune response and impairs the function of human alveolar macrophages Jieru Wang, Yoko Ito, Mrina P. Nikrad, Tzulip Phang, Bifeng Gao, Emily Travanty, Kevan Hartshorn, Robert Mason.
• 1. Calverley, D.C., Casserly, I.P., Choudhury, Q.G., Phang, T.L., Gao, B., Messenger, J.C. and Geraci, M.W. (2010) Platelet Gene Expression as a Biomarker Risk Stratification Tool in Acute Myocardial Infarction: A Pilot Investigation, Clinical Medicine Insights: Blood Disorders, 3, 9-15
• 2. Calverley, D.C., Phang, T.L., Choudhury, Q.L., Gao, B., Oton, A.B., Weyant, M.J. and Geraci, M.W. (2010) Significant Downregulation of Platelet Gene Expression in Metastatic Lung Cancer, Clinical and Translational Science, 3, 227–232.
• 3. Gao, D., Kim, J., Kim, H., Phang, T.L., Selby, H., Tan, A.C. and Tong, T. (2010) A survey of statistical software for analysing RNA-seq data, Human Genomics, 5.
• 4. Gaydos, J., Phang, T.L., House, R., Vandivier, R.W., Moss, M. and Burnham, E.L. (2010) Alveolar Macrophage Gene Expression is altered in the Setting of Alcohol Use Disorders, Alcoholism: Clinical and Experimental Research, 35, 284-294.
• 5. Gregory, M.A., Phang, T.L., Neviani, P., Alvarez-Calderon, F., Eide, C.A., O'Hare, T., Zaberezhnyy, V., Williams, R.T., Druker, B.J., Perrotti, D. and Degregori, J. (2010) Wnt/Ca2+/NFAT signaling maintains survival of Ph+ leukemia cells upon inhibition of Bcr-Abl, Cancer Cell, 18, 74-87.
• 6. Karimpour-Fard, A., Dumas, L., Phang, T. and Hunter, L. (2010) A survey of currently available analysis software for Array-Comparative Genomic Hybridization Studies to Detect Copy Number Variation Human Genomics, 4.
• 7. Tamburini, B.A., Phang, T.L., Fosmire, S.P., Scott, M.C., Trapp, S.C., Duckett, M.M., Robinson, S.R., Slansky, J.E., Sharkey, L.C., Cutter, G.R., Wojcieszyn, J.W., Bellgrau, D., Gemmill, R.M., Hunter, L.E. and Modiano, J.F. (2010) Gene expression profiling identifies inflammation and angiogenesis as distinguishing features of canine hemangiosarcoma, BMC Cancer, 10, 619.
• 8. Tyler, K.L., Leser, J.S., Phang, T.L. and Clarke, P. (2010) Gene expression in the brain during reovirus encephalitis, J Neurovirol, 16, 56-71.
• 9. Wang, J., Nikrad, M.P., Travanty, E.A., Phang, T., Gao, B., Ito, Y., Nahreini, P., Alford, T., Hartshorn, K., Dinarello, C.A. and Mason, R.J. (2010) Innate immune response of human alveolar macrophages during influenza A infection, American Journal of Physiology, In press
• Kim H, Kim J, Selby H, Gao D, Tong T, Phang TL, Tan AC: A short survey of computational analysis methods in analysing ChIP-seq data. Hum Genomics 2011, 5(2):117-123
• Wang J, Nikrad MP, Phang T, Gao B, Alford T, Ito Y, Edeen K, Travanty EA, Kosmider B, Hartshorn K et al: Innate Immune Response to Influenza A Virus in Differentiated Human Alveolar Type II cells. Am J Respir Cell Mol Biol 2011.
• Burnham EL, Phang TL, House R, Vandivier RW, Moss M, Gaydos J. Alveolar macrophage gene expression is altered in the setting of alcohol use disorders. Alcohol Clin Exp Res. 2011 Feb;35(2):284-94. PMCID: PMC3059108.
• T.-L. Phang, W. Feng, R.A. Radcliffe and K. Kechris (2011) Post-processing multi-treatment time-course microarray studies using the Johnson-Neyman procedure. Biostatistics, Bioinformatics and Biomathematics, 2:107-126
• Clark DW, Phang TL, Edwards MG, Geraci MW, Gillespie MN: Promoter G-quadruplex sequences are targets for base oxidation and strand cleavage during hypoxia-induced transcription. Free Radic Biol Med 2012, 53(1):51-59.(PMCID: 3377816)
• Kiseljak-Vassiliades K, Shafi S, Kerr JM, Phang TL, Kleinschmidt-Demasters BK, Wierman ME: Clinical implications of growth hormone-secreting tumor subtypes. Endocrine 2012, 42(1):18-28. (PMID: 22434413)
• Shaw LA, Stefanski AL, Peterson LK, Rumer KK, Vondracek A, Phang TL, Sakaguchi S, Winn VD, Dragone LL: Pregnancy amelioration of arthritis in SKG mice corresponds with alterations in serum amyloid A3 levels. American Journal of Clinical and Experimental Immunoloty 2012, 1(1):12-19.
• Wang J, Nikrad MP, Travanty EA, Zhou B, Phang TL, Gao B, Alford T, Ito Y, Nahreini P, Hartshorn K et al: Innate immune response of human alveolar macrophages during influenza A infection. Plos One 2012, 7(3):e29879. (PMCID: 3292548)
• Frantz AM, Sarver AL, Ito D, Phang TL, Karimpour-Fard A, Scott MC, Valli VE, Lindblad-Toh K, Burgess KE, Husbands BD et al: Molecular Profiling Reveals Prognostically Significant Subtypes of Canine Lymphoma. Vet Pathol 2013.
• Reisdorph N, Stearman R, Kechris K, Phang TL, Reisdorph R, Prenni J, Erle DJ, Coldren C, Schey K, Nesvizhskii A, Geraci M. Hands-on workshops as an effective means of learning advanced technologies including genomics, proteomics and bioinformatics. Genomics Proteomics Bioinformatics. 2013 Dec;11(6):368-77. PubMed PMID: 24316330
• Darlington TM, Ehringer MA, Larson C, Phang TL, Radcliffe RA. Transcriptome analysis of Inbred Long Sleep and Inbred Short Sleep mice. Genes Brain Behav. 2013 Mar;12(2):263-74. PubMed PMID: 23433184
• Frantz AM, Sarver AL, Ito D, Phang TL, Karimpour-Fard A, Scott MC, Valli VE, Lindblad-Toh K, Burgess KE, Husbands BD, Henson MS, Borgatti A, Kisseberth WC, Hunter LE, Breen M, O'Brien TD, Modiano JF. Molecular profiling reveals prognostically significant subtypes of canine lymphoma. Vet Pathol. 2013 Jul;50(4):693-703. PubMed PMID: 23125145
• Altonsy MO, Sasse SK, Phang TL, Gerber AN. Context-dependent cooperation between NF-kB and the glucocorticoid receptor at a TNFAIP3 enhancer: a mechanism to maintain negative feedback control of inflammation. J Biol Chem. 2014 Feb 5. [Epub ahead of print] PubMed PMID: 24500711
• Altonsy MO, Sasse SK, Phang TL, Gerber AN. Context-dependent cooperation between nuclear factor ?B (NF-?B) and the glucocorticoid receptor at a TNFAIP3 intronic enhancer: a mechanism to maintain negative feedback control of inflammation. J Biol Chem. 2014 Mar 21;289(12):8231-9
• Evaluation of African blood expression signatures for tuberculosis in US patients
• Adiposity Alters Genes Important in Human Granulosa Cell Growth. Society for Gynecologic Investigation 61st Annual Scientific Meeting
• Walter ND, Miller MA, Vasquez J, Weiner M, Chapman A, Engle M, Higgins M, Quinones AM, Roselli V, Canono E, Yoon C, Cattamanchi A, Davis JL, Phang T, Stearman RS, Datta G, Garcia BJ, Daley CL, Strong M, Kechris K, Fingerlin TE, Reves R, Geraci MW. Blood transcriptional biomarkers for active TB among US patients: A case-control study with systematic cross-classifier evaluation. J Clin Microbiol. 2015 Nov 18. [Epub ahead of print] PubMed PMID: 26582831
• Sasse SK, Zuo Z, Kadiyala V, Zhang L, Pufall MA, Jain MK, Phang TL, Stormo GD, Gerber AN. Response Element Composition Governs Correlations between Binding Site Affinity and Transcription in Glucocorticoid Receptor Feed-forward Loops. J Biol Chem. 2015 Aug 7;290(32):19756-69. PubMed PMID: 26088140
• Merhi Z, Polotsky AJ, Bradford AP, Buyuk E, Chosich J, Phang T, Jindal S, Santoro N. Adiposity Alters Genes Important in Inflammation and Cell Cycle Division in Human Cumulus Granulosa Cell. Reprod Sci. 2015 Oct;22(10):1220-8. PubMed PMID: 25676576
• Green RM, Feng W, Phang T, Fish JL, Li H, Spritz RA, Marcucio RS, Hooper J, Jamniczky H, Hallgrímsson B, Williams T. Tfap2a-dependent changes in mouse facial morphology result in clefting that can be ameliorated by a reduction in Fgf8 gene dosage. Dis Model Mech. 2015 Jan;8(1):31-43. PubMed PMID: 25381013
• Baumgartner HK, Trinder KM, Galimanis CE, Post A, Phang T, Ross RG, Winn VD. Characterization of choline transporters in the human placenta over gestation. Placenta. 2015 Dec;36(12):1362-9. PubMed PMID: 26601765
• Al-Safi ZA, Liu H, Carlson NE, Chosich J, Lesh J, Robledo C, Bradford AP, Gee NA, Phang T, Santoro N, Kohrt W, Polotsky AJ. Estradiol Priming Improves Gonadotrope Sensitivity and Pro-Inflammatory Cytokines in Obese Women. J Clin Endocrinol Metab. 2015 Nov;100(11):4372-81. PubMed PMID: 26425884
• Kadiyala V, Sasse SK, Altonsy MO, Berman R, Chu HW, Phang TL, Gerber AN. Cistrome-based Cooperation between Airway Epithelial Glucocorticoid Receptor and NF-?B Orchestrates Anti-inflammatory Effects. J Biol Chem. 2016 Jun 10;291(24):12673-87. PubMed PMID: 27076634
• Kadiyala V, Sasse SK, Altonsy MO, Phang TL, Gerber AN. Cistrome Analysis of Glucocorticoid Receptor Activity in Bronchial Epithelial Cells Defines Novel Mechanisms of Steroid Efficacy. Ann Am Thorac Soc. 2016 Mar;13 Suppl 1:S103. PubMed PMID: 27027943
• Kuokkanen S, Polotsky AJ, Chosich J, Bradford AP, Jasinska A, Phang T, Santoro N, Appt SE. Corpus luteum as a novel target of weight changes that contribute to impaired female reproductive physiology and function. Syst Biol Reprod Med. 2016 Aug;62(4):227-42. PubMed PMID: 27187064
• Sasse SK, Kadiyala V, Danhorn T, Panettieri RA Jr, Phang TL, Gerber AN. Glucocorticoid Receptor ChIP-Seq Identifies PLCD1 as a KLF15 Target that Represses Airway Smooth Muscle Hypertrophy. Am J Respir Cell Mol Biol. 2017 Aug;57(2):226-237. doi: 10.1165/rcmb.2016-0357OC. PubMed PMID: 28375666; PubMed Central PMCID: PMC5576583
• Hooper JE, Feng W, Li H, Leach SM, Phang T, Siska C, Jones KL, Spritz RA, Hunter LE, Williams T. Systems biology of facial development: contributions of ectoderm and mesenchyme. Dev Biol. 2017 Jun 1;426(1):97-114. doi: 10.1016/j.ydbio.2017.03.025. Epub 2017 Mar 29. PubMed PMID: 28363736; PubMed Central PMCID: PMC5530582
• • Yoder AC, Guo K, Dillon SM, Phang T, Lee EJ, Harper MS, Helm K, Kappes JC, Ochsenbauer C, McCarter MD, Wilson CC, Santiago ML. The transcriptome of HIV-1 infected intestinal CD4+ T cells exposed to enteric bacteria. PLoS Pathog. 2017 Feb 27;13(2):e1006226. doi: 10.1371/journal.ppat.1006226. eCollection 2017 Feb. PubMed PMID: 28241075; PubMed Central PMCID: PMC5344538.
• Sachs S, Zarini S, Kahn DE, Harrison KA, Perreault L, Phang T, Newsom SA, Strauss A, Kerege A, Schoen JA, Bessesen DH, Schwarzmayr T, Graf E, Lutter D, Krumsiek J, Hofmann S, Bergman BC. Intermuscular adipose tissue (IMAT) directly modulates skeletal muscle insulin sensitivity in humans. Am J Physiol Endocrinol Metab. 2019 Jan 8. [Epub ahead of print] PubMed PMID: 30620635
• Murine trophoblast-derived and pregnancy-associated exosome-enriched extracellular vesicle microRNAs: Implications for placenta driven effects on maternal physiology, PLOS one, in press
• Stearman RS, Cornelius AR, Young LR, Conklin DS, Mickler EA, Lu X, Hara N, Fettig LM, Phang TL, Geraci MW. Familial Pulmonary Fibrosis and Hermansky-Pudlak Syndrome Rare Missense Mutations in Context. Am J Respir Crit Care Med. 2019 Jul 15;200(2):253-256. PubMed PMID: 30985222
• Sachs S, Zarini S, Kahn DE, Harrison KA, Perreault L, Phang T, Newsom SA, Strauss A, Kerege A, Schoen JA, Bessesen DH, Schwarzmayr T, Graf E, Lutter D, Krumsiek J, Hofmann SM, Bergman BC. Intermuscular adipose tissue directly modulates skeletal muscle insulin sensitivity in humans. Am J Physiol Endocrinol Metab. 2019 May 1;316(5):E866-E879. PubMed PMID: 30620635
• Stefanski AL, Martinez N, Peterson LK, Callahan TJ, Treacy E, Luck M, Friend SF, Hermesch A, Maltepe E, Phang T, Dragone LL, Winn VD. Murine trophoblast-derived and pregnancy-associated exosome-enriched extracellular vesicle microRNAs: Implications for placenta driven effects on maternal physiology. PLoS One. 2019;14(2):e0210675. PubMed PMID: 30730971
• Liu H, Ramachandran S, Fong N, Phang T, Lee S, Parsa P, Liu X, Harmacek L, Danhorn T, Song T, Oh S, Zhang Q, Chen Z, Zhang Q, Tu TH, Happoldt C, O'Conner B, Janknecht R, Li CY, Marrack P, Kappler J, Leach S, Zhang G. JMJD5 couples with CDK9 to release the paused RNA polymerase II. Proc Natl Acad Sci U S A. 2020 Aug 18;117(33):19888-19895. doi: 10.1073/pnas.2005745117. Epub 2020 Aug 3. PMID: 32747552; PMCID: PMC7443887.
• Mickler EA, Zhou H, Phang TL, Geraci MW, Stearman RS, Sears CR. Low-Coverage Whole Genome Sequencing Using Laser Capture Microscopy with Combined Digital Droplet PCR: An Effective Tool to Study Copy Number and Kras Mutations in Early Lung Adenocarcinoma Development. Int J Mol Sci. 2021 Nov 6;22(21):12034. doi: 10.3390/ijms222112034. PMID: 34769463; PMCID: PMC8584993.
• Campbell NV, Mickael C, Kumar S, Zhang H, Campbell IL, Gillen AE, Trentin CO, Diener K, Gao B, Kheyfets VO, Gu S, Kumar R, Phang T, Brown RD, Graham BB, Stenmark KR. Single-cell RNA sequencing and binary hierarchical clustering define lung interstitial macrophage heterogeneity in response to hypoxia. Am J Physiol Lung Cell Mol Physiol. 2022 Jul 1;323(1):L58-L68. PubMed PMID: 35608266
• Roark CL, Ho BE, Aubrey MT, Anobile C, Israeli S, Phang TL, Braxton D, Ho AP, Freed BM. HLA homozygosity is associated with Non-Hodgkin lymphoma. Hum Immunol. 2022 Oct;83(10):730-735. PubMed PMID: 35953408
• Plecitá-Hlavatá L, Brázdová A, Krivonosková M, Hu CJ, Phang T, Tauber J, Li M, Zhang H, Hoetzenecker K, Crnkovic S, Kwapiszewska G, Stenmark KR. Microenvironmental regulation of T-cells in pulmonary hypertension. Front Immunol. 2023;14:1223122. PubMed PMID: 37497214
• Wiley LK, Shortt JA, Roberts ER, Lowery J, Kudron E, Lin M, Mayer D, Wilson M, Brunetti TM, Chavan S, Phang TL, Pozdeyev N, Lesny J, Wicks SJ, Moore ET, Morgenstern JL, Roff AN, Shalowitz EL, Stewart A, Williams C, Edelmann MN, Hull M, Patton JT, Axell L, Ku L, Lee YM, Jirikowic J, Tanaka A, Todd E, White S, Peterson B, Hearst E, Zane R, Greene CS, Mathias R, Coors M, Taylor M, Ghosh D, Kahn MG, Brooks IM, Aquilante CL, Kao D, Rafaels N, Crooks KR, Hess S, Barnes KC, Gignoux CR. Building a vertically integrated genomic learning health system: The biobank at the Colorado Center for Personalized Medicine. Am J Hum Genet. 2024 Jan 4;111(1):11-23. PubMed PMID: 38181729
• Mickael C, Sanders LA, Lee MH, Kumar R, Fonseca-Balladares D, Gandjeva A, Cautivo-Reyes K, Kassa B, Kumar S, Irwin D, Swindle D, Phang T, Stearman RS, Molofsky AB, McKee AS, Stenmark KR, Graham BB, Tuder RM. Classical dendritic cells contribute to hypoxia-induced pulmonary hypertension. FASEB J. 2024 Aug 31;38(16):e70015. PubMed PMID: 39212294

Practice Locations

UCHealth University of Colorado Hospital (UCH)
12605 E. 16th Ave
Aurora, CO 80045
720-848-0000

Specialty Information

Specialties

• Medical Genetics and Genomics