Publications in revised chronological order:

  1. Altonsy MO, Sasse SK, Phang TL, Gerber AN: Context-dependent cooperation between nuclear factor kappaB (NF-kappaB) and the glucocorticoid receptor at a TNFAIP3 intronic enhancer: a mechanism to maintain negative feedback control of inflammation. J Biol Chem 2014, 289(12):8231-8239.
  2. Reisdorph N, Stearman R, Kechris K, Phang TL, Reisdorph R, Prenni J, Erle DJ, Coldren C, Schey K, Nesvizhskii A et al: Hands-on workshops as an effective means of learning advanced technologies including genomics, proteomics and bioinformatics. Genomics Proteomics Bioinformatics 2013, 11(6):368-377.
  3. 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.
  4. 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, 12(2):263-274.
  5. Wang J, Nikrad MP, Travanty EA, Zhou B, Phang T, 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.
  6. 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. Am J Clin Exp Immunol 2012, 1(1):12-19.
  7. 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.
  8. Clark DW, Phang T, 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.
  9. Wang JR, Nikrad MP, Phang T, Gao BF, 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 Resp Cell Mol 2011, 45(3):582-591.
  10. Phang TL, Zeng PY, de Zoeten EF: Exploring and Profiling Long Non-coding RNA in T cell Development Using Next Generation Sequencing and Bioinformatics approaches. In: Annual Rocky Mountain Bioinformatics Conference: Dec 8-10 2011; Snowmass, CO.
  11. Phang TL, Feng W, Radcliffe RA, Kechris K: Post-processing multi-treatment time-course microarray studies using the Johnson-Neyman procedure. Biostatistics, Bioinformatics and Biomathematics 2011, 2:107-126.
  12. Olincy A, House R, Gao B, Recksiek P, Phang TL, Sullivan B, Hollis JP, Hopkins J, Shade T, Edwards MG et al: Elevated DISC1 transcript levels in PBMCs during acute psychosis in patients with schizophrenia. Transl Biomed 2011, 2(1).
  13. 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.
  14. 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, 35(2):284-294.
  15. Tyler KL, Leser JS, Phang TL, Clarke P: Gene expression in the brain during reovirus encephalitis. J Neurovirol 2010, 16(1):56-71.
  16. Tamburini BA, Phang TL, Fosmire SP, Scott MC, Trapp SC, Duckett MM, Robinson SR, Slansky JE, Sharkey LC, Cutter GR et al: Gene expression profiling identifies inflammation and angiogenesis as distinguishing features of canine hemangiosarcoma. Bmc Cancer 2010, 10.
  17. Phang TL, Kim H, Kim J, Gao D, Tong T, Selby H, Tan AC: AN ANALYSIS WORKFLOW FOR LOSS-­‐OF-­‐FUNCTION RNA INTERFERENCE WHOLE-­‐ GENOME SCREENING USING THE NEXT GENERATION SEQUENCING TECHNOLOGY. In: Aspen Lung Conference: June 9-12 2010; Aspen, CO.
  18. Phang TL, Kim H, Kim J, Gao D, Tong T, Selby H, Gregory MA, DeGregori J, Tan AC: BiNGS!SL-Seq: A Computational Analysis Workflow for Whole-Genome RNA Interference Screening Using the Next Generation Sequencing Technology. In: Intelligent Systems for Molecular Biology: July 11-13 2010; Boston, MA.
  19. Phang TL, Hunter A, Zeng PY, Kerbowski T, de Zoeten EF: Analysis workflow of Methylation and Gene Expression microarray in Pediatric Crohn Disease. In: Annual Rocky Mountain Bioinformatics Conference: Dec 9-11 2010; Snowmass, CO.
  20. Karimpour-Fard A, Dumas L, Phang T, Sikela JM, Hunter LE: A survey of analysis software for array-comparative genomic hybridisation studies to detect copy number variation. Hum Genomics 2010, 4(6):421-427.
  21. Gregory MA, Phang TL, Neviani P, Alvarez-Calderon F, Eide CA, O'Hare T, Zaberezhnyy V, Williams RT, Druker BJ, Perrotti D et al: Wnt/Ca2+/NFAT Signaling Maintains Survival of Ph+ Leukemia Cells upon Inhibition of Bcr-Abl. Cancer Cell 2010, 18(1):74-87.
  22. Gao D, Kim J, Kim H, Phang TL, Selby H, Tan AC, Tong T: A survey of statistical software for analysing RNA-seq data. Hum Genomics 2010, 5(1):56-60.
  23. Calverley DC, Phang TL, Choudhury QG, Gao B, Oton AB, Weyant MJ, Geraci MW: Significant downregulation of platelet gene expression in metastatic lung cancer. Clin Transl Sci 2010, 3(5):227-232.
  24. Calverley DC, Casserly IP, Choudhury QG, Phang TL, Gao B, Messenger JC, Geraci MW: Platelet Gene Expression as a Biomarker Risk Stratification Tool in Acute Myocardial Infarction: A Pilot Investigation. Clinical Medicine Insights: Blood Disorders 2010, 3:9-15.
  25. 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. Bba-Gene Regul Mech 2009, 1789(2):135-145.
  26. Winn VD, Shaw L, Rumer KK, Kramer A, Sakaguchi S, Dragone LL: Pregnancy-Induced Rheumatoid Arthritis (RA) Amelioration in SKG Mice. Reprod Sci 2009, 16(3):83A-83A.
  27. 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, 4(5).
  28. Phang T: R and Bioconductor solutions for alternative splicing detection. Hum Genomics 2009, 4(2):131-135.
  29. Liu LYD, Chen CY, Chen MJM, Tsai MS, Lee CHS, Phang TL, Chang LY, Kuo WH, Hwa HL, Lien HC et al: Statistical identification of gene association by CID in application of constructing ER regulatory network. Bmc Bioinformatics 2009, 10.
  30. Feng WG, 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, 4(12).
  31. Harvell DM, Spoelstra NS, Singh M, McManaman JL, Finlayson C, Phang T, Trapp S, Hunter L, Dye WW, Borges VF et al: Molecular signatures of neoadjuvant endocrine therapy for breast cancer: characteristics of response or intrinsic resistance. Breast Cancer Res Treat 2008, 112(3):475-488.
  32. Rudolph MC, McManaman JL, Phang T, Russell T, Kominsky DJ, Serkova NJ, Stein T, Anderson SM, Neville MC: Metabolic regulation in the lactating mammary gland: a lipid synthesizing machine. Physiol Genomics 2007, 28(3):323-336.
  33. Bhave SV, Hornbaker C, Phang TL, Saba L, Lapadat R, Kechris K, Gaydos J, McGoldrick D, Dolbey A, Leach S et al: The PhenoGen informatics website: tools for analyses of complex traits. BMC Genet 2007, 8:59.
  34. Guzelian J, Barwick JL, Hunter L, Phang TL, Quattrochi LC, Guzelian PS: Identification of genes controlled by the pregnane X receptor by microarray analysis of mRNAs from pregnenolone 16alpha-carbonitrile-treated rats. Toxicol Sci 2006, 94(2):379-387.
  35. Shenkar R, Elliott JP, Diener K, Gault J, Hu LJ, Cohrs RJ, Phang T, Hunter L, Breeze RE, Awad IA: Differential gene expression in human cerebrovascular malformations. Neurosurgery 2003, 52(2):465-477; discussion 477-468.
  36. Rudolph MC, McManaman JL, Hunter L, Phang T, Neville MC: Functional development of the mammary gland: Use of expression profiling and trajectory clustering to reveal changes in gene expression during pregnancy, lactation, and involution. J Mammary Gland Biol 2003, 8(3):287-307.
  37. Phang TL, Neville MC, Rudolph M, Hunter L: Trajectory clustering: a non-parametric method for grouping gene expression time courses, with applications to mammary development. Pac Symp Biocomput 2003:351-362.
  38. Lewis GS, Jewell JE, Phang T, Miller KW: Mutational and sequence analysis of transmembrane segment 6 orientation in TetA proteins. Biochem Biophys Res Commun 2003, 305(4):1067-1072.
  39. Hoshikawa Y, Nana-Sinkam P, Moore MD, Sotto-Santiago S, Phang T, Keith RL, Morris KG, Kondo T, Tuder RM, Voelkel NF et al: Hypoxia induces different genes in the lungs of rats compared with mice. Physiol Genomics 2003, 12(3):209-219.
  40. Lewis GS, Jewell JE, Phang T, Miller KW: Mutational analysis of tetracycline resistance protein transmembrane segment insertion. Arch Biochem Biophys 2002, 404(2):317-325.
  41. Zeng H, Phang T, Song YS, Ji I, Ji TH: The role of the hinge region of the luteinizing hormone receptor in hormone interaction and signal generation. The Journal of biological chemistry 2001, 276(5):3451-3458.
  42. Jeoung M, Phang T, Song YS, Ji I, Ji TH: Hormone interactions to Leu-rich repeats in the gonadotropin receptors. III. Photoaffinity labeling of human chorionic gonadotropin with receptor Leu-rich repeat 4 peptide. The Journal of biological chemistry 2001, 276(5):3443-3450.
  43. Phang T, Kundu G, Hong SH, Ji IH, Ji TH: The amino-terminal region of the luteinizing hormone choriogonadotropin receptor contacts both subunits of human choriogonadotropin II. Photoaffinity labeling. J Biol Chem 1998, 273(22):13841-13847.
  44. Hong SH, Phang T, Ji IH, Ji TH: The amino-terminal region of the luteinizing hormone choriogonadotropin receptor contacts both subunits of human choriogonadotropin I. Mutational analysis. J Biol Chem 1998, 273(22):13835-13840.
  45. Phang TL, Ji IH, Ji TH: No need of acetic acid for processing polyacrylamide gels. Anal Biochem 1996, 234(1):96-97.
  46. Ji I, Pan YN, Lee YM, Phang T, Ji TH: Receptor binding dependent structural changes in human choriogonadotropin: photochemical inter-subunit crosslinking. Endocrine 1995, 3(12):907-911.