ARUP Journal Article Publications Archive—2018

The Institute for Clinical and Experimental Research® is focused on the development of new diagnostic assays in a wide range of disciplines. Researchers at the institute regularly publish in respected, peer-reviewed journals, give presentations at national and international organizations, author books and book chapters, and develop new tests.

There are 55 total entries for the year 2018.

Timbrook TT, Spivak ES, Hanson KE. Current and Future Opportunities for Rapid Diagnostics in Antimicrobial Stewardship.​ The Medical Clinics of North America. 102(5):899-911.

Corean J, Li KD. A Rare Case of ALK-Positive Large B-Cell Lymphoma with CD33 Expression. Case Reports in Hematology. 2018:5320590.

Owen WE, Hunsaker JJH, Genzen JR. Alpha-fetoprotein in pericardial, peritoneal, and pleural fluids: A body fluid matrix evaluation. Clinical Biochemistry. 56:109-112.

Peterson LK, Jaskowski TD, La`ulu SL, Tebo AE. Antibodies to Small Ubiquitin-like Modifier Activating Enzyme are Associated with a Diagnosis of Dermatomyositis: Results from an Unselected Cohort. Immunologic Research. 66(3):431-436.

Hellwig S, Nix DA, Gligorich KM, O'Shea JM, Thomas A, Fuertes CL, Bhetariya PJ, Marth GT, Bronner MP, Underhill HR. Automated size selection for short cell-free DNA fragments enriches for circulating tumor DNA and improves error correction during next generation sequencing​. PLoS One. 13(7): e0197333. July 2018.

Yuzyuk T, Viau K, Andrews A, Pasquali M, Longo N. Biochemical changes and clinical outcomes in 34 patients with classic galactosemia. Journal of Inherited Metabolic Disease. 41(2):197-208.

Genzen JR, Burnham CD, Felder RA, Hawker CD, Lippi G, Palmer OMP. Challenges and Opportunities in Implementing Total Laboratory Automation. Clinical Chemistry. 64(2):259-264.

Liew M, Rowe LR, Szankasi P, Paxton CN, Kelley T, Toydemir RM, Salama ME. Characterizing atypical BCL6 signal patterns detected by digital fluorescence in situ hybridization (FISH) analysis. Annals of Laboratory Medicine. 38(6):619-622.

Biswas A, Leon ME, Drew P, Fernandez-Bussy S, Furtado LV, Jantz MA, Mehta HJ. Clinical performance of endobronchial ultrasound-guided transbronchial needle aspiration for assessing programmed death ligand-1 expression in nonsmall cell. Diagnostic Cytopathology. 46(5):378-383.

Ji Y, Si Y, McMillin GA, Lyon E. Clinical pharmacogenomics testing in the era of next generation sequencing: challenges and opportunities for precision medicine. Expert Review of Molecular Diagnostics. 18(5):411-421.

Lin DC, Genzen JR Concordance analysis of paired cancer antigen (CA) 15-3 and 27.29 testing. Breast Cancer Research and Treatment. 167(1):269-276.

Russell CW, Fleming BA, Jost CA, Tran A, Stenquist AT, Wambaugh MA, Bronner MP, Mulvey MA. Context-Dependent Requirements for FimH and Other Canonical Virulence Factors in Gut Colonization by Extraintestinal Pathogenic Escherichia coli. The Medical Clinics of North America. 86(3).

Timbrook TT, Spivak ES, Hanson KE Current and Future Opportunities for Rapid Diagnostics in Antimicrobial Stewardship. The Medical Clinics of North America. 102(5):899-911.

Wabuyele SL, Colby JM, McMillin GA. Detection of Drug-Exposed Newborns. Therapeutic Drug Monitoring. 40(2):166-185.

Shen W, Paxton CN, Szankasi P, Longhurst M, Schumacher JA, Frizzell KA, Sorrells SM, Clayton AL, Jattani RP, Patel JL, Toydemir R, Kelley TW, Xu X. Detection of genome-wide copy number variants in myeloid malignancies using next-generation sequencing. Journal of Clinical Pathology. 71(4):372-378.

Wu F, Scroggin TL, Metz TD, McMillin GA. Development of A Liquid Chromatography-Tandem Mass Spectrometry Method for the Simultaneous Determination of Four Cannabinoids in Umbilical Cord Tissue. Journal of Analytical Toxicology. 42(1):42-48.

Lu J, Genzen JR, Grenache DG. Development of an enzymatic assay to measure lactate in perchloric acid-precipitated cerebrospinal fluid.​ Clinica Chimica Acta. 483:142-144.

Hagiya AS, Etman A, Siddiqi IN, Cen S, Matcuk GR Jr, Brynes RK, Salama ME. Digital image analysis agrees with visual estimates of adult bone marrow trephine biopsy cellularity.​ International Journal of Laboratory Hematology. 40(2):209-2144.

​​Schmidt RL, LoPresti J, McDermott MT MD, Zick SM, Straseski JA. D. Does Reverse Triiodothyronine Testing Have Clinical Utility? An Analysis of Practice Variation Based on Data from a National Reference Laboratory.  Thyroid. 28(7):842-848. July 2018.

McMillin GA. Drug Detection in Urine for Evaluating Exposures. The Journal of Applied Laboratory Medicine. 2(4):648-53.

​​Górska A, Peter S, Willmann M, Autenrieth I, Schlaberg R, Huson DH. Dynamics of the human gut phageome during antibiotic treatment.  Computational Biology and Chemistry. 274:420-427.

​​Bailey EB, Merriman J, Maughan B, Poole A, Tantravahi SK, Agarwal AM, Batten JA, Patel SB, Pal SK, Stenehjem DD, Agarwal N.Effect of treatment dose reductions in the setting of hand-foot syndrome on survival outcomes in patients with metastatic renal cell carcinoma treated with. Journal of Oncology Pharmacy Practice. 24(3):190-197.

Body BA, Beard MA, Slechta ES, Hanson KE, Barker AP, Babady NE, McMillen T, Tang YW, Brown-Elliott BA, Iakhiaeva E, Vasireddy R, Vasireddy S, Smith T, Wallace RJ Jr, Turner S, Curtis L, Butler-Wu S, Rychert J. Evaluation of the Vitek MS v3.0 Matrix-Assisted Laser Desorption Ionization--Time of Flight Mass Spectrometry System for Identification of Mycobacterium and Nocardia species.  Journal of Clinical Microbiology. Vol. 56, No. 6.

Jannetto PJ, Bratanow NC, Clark WA, Hamill-Ruth RJ, Hammett-Stabler CA, Huestis MA, Kassed CA, McMillin GA, Melanson SE, Langman LJ. Executive Summary: American Association of Clinical Chemistry Laboratory Medicine Practice Guideline - Using Clinical Laboratory Tests to Monitor Drug Therapy. The Journal of Applied Laboratory Medicine. 2(4):489-526.

Wei X, Calvo-Vidal MN, Chen S, Wu G, Revuelta MV, Sun J, Zhang J, Walsh MF, Nichols KE, Joseph V, Snyder C, Vachon CM, McKay JD, Wang SP, Jayabalan DS, Jacobs. Germline mutations in lysine specific demethylase 1 (LSD1/KDM1A) confer susceptibility to multiple myeloma. Cancer Research. 78(10):2747-2759.

Paul L, Comstock J, Edes K, Schlaberg R. Gestational Psittacosis Resulting in Neonatal Death Identified by Next-Generation RNA Sequencing of Postmortem, Formalin-Fixed Lung Tissue. Open Forum Infectious Diseases. 5(8):ofy172.

Tharkar-Promod S, Johnson DP, Bennett SE, Dennis EM, Banowsky BG, Jones SS, Shearstone JR, Quayle SN, Min C, Jarpe M, Mosbruger T, Pomicter AD, Miles RR. HDAC1,2 inhibition and doxorubicin impair Mre11-dependent DNA repair and DISC to override BCR-ABL1-driven DSB repair in Philadelphia chromosome-positive B-. Leukemia. 32(1):49-60.

Bliss J, Bouhenia M, Hale P, Couturier BA, Iyer AS, Rumunu J, Martin S, Wamala JF, Abubakar A, Sack DA, Luquero FJ, Couturier MR, Azman AS, Leung DT. High Prevalence of Shigella or Enteroinvasive Escherichia coli Carriage among Residents of an Internally Displaced Persons Camp in South Sudan. The American Journal of Tropical Medicine and Hygiene. 98(2):595-597.

La'ulu SL, Kalp KJ, Straseski JA. How Low Can You Go? Analytical Performance of Five Automated​ Testosterone Immunoassays. Clinical Biochemistry. 58:64-71.

Yuzyuk T, Lozier B, Schwarz EL, Viau K, Kish-Trier E, De Biase I. Intra-individual variability of long-chain fatty acids (C12-C24) in plasma and red blood cells. Modern Pathology. 31(4):643-651.

Caliskan A, Kohlmann WK, Affolter KE, Downs-Kelly E, Kanth P, Bronner MP. Intramucosal lipomas of the colon implicate Cowden syndrome Modern Pathology. 31(4):643-651.

Pasquali M, Yu C, Coffee B. Laboratory diagnosis of galactosemia: a technical standard and guideline of the American College of Medical Genetics and Genomics (ACMG). Genetics in Medicine. 20(1):3-11

Hunsaker JJH, La'ulu SL, Wyness SP, Genzen JR. Lipemic interference of ceruloplasmin assays - An evaluation of lipid removal methods. Clinica Chimica Acta. 480:71-78.

Spörndly-Neesa E, Boberg J, Ekstedt E, Holm L, Fakhrzadeh A, Dunderd L, Kushnir MM, Lejonklou MH, Lind M. Low-dose exposure to Bisphenol A during development has limited effects on male​ ​reproduction in prepubertal and aging Fischer 344 rats. Reproductive Toxicology. 81:196-206.

Lloyd I, Chadwick B. Lymphoepithelioma-like Carcinoma of the Uterine Cervix: Cytomorphologic Features and Diagnostic Pitfalls by Liquid-Based Cytology. Diagnostic Cytopathology. 46(5):443-446.

Rychert J, Slechta ES, Barker AP, Miranda E, Babady NE, Tang Y, Wiederhold N, Sutton D, Hanson KE. Multi-center evaluation of the VITEK MS v3.0 system for the identification of filamentous fungi. Journal of Clinical Microbiology. 56(2).

Philip B, Yu DX, Silvis MR, Shin CH, Robinson JP, Robinson GL, Welker AE, Angel SN, Tripp SR, Sonnen JA, VanBrocklin MW, Gibbons RJ, Looper RE, Colman H, Holmen SL. Mutant IDH1 Promotes Glioma Formation In Vivo. Cell Reports. 2018;23(5):1553-1564.

Johnson DN, Furtado LV, Long BC, Zhen CJ, Wurst M, Mujacic I, Kadri S, Segal JP, Antic T, Cipriani NA.  Noninvasive Follicular Thyroid Neoplasms With Papillary-Like Nuclear Features (NIFTPs) Are Genetically and Biologically Similar to Adenomatous Nodules and Distinct From Papillary Thyroid Carcinomas With Extensive Follicular Growth. Archives of Pathology and Laboratory Medicine. 142(7):838-850. July 2018.

Margraf RL, Durtschi J, Krock B, Newcomb TM, Bonkowsky J, Voelkerding KV, Bayrak-Toydemir P, Lutz RE, Swoboda KJ.  Novel PLP1 Mutations Identified with Next-Generation Sequencing Expand the Spectrum of PLP1-Associated Leukodystrophy Clinical Phenotypes. Child Neurology Open. 5:2329048X18789282. July 2018.

Kushnir MM, Peterson LK, Strathmann FG. Parathyroid Hormone Related Protein Concentration in Human Serum and CSF Correlates with Age. Clinical Biochemistry. 2018;52:56-60.

Castanon A, Pierre G, Willis R, Harris NE, Papalardo E, Romay-Penabad Z, Schleh A, Jajoria P, Smikle M, DeCeulaer K, Tebo A, Jaskowski T, Guerra MM, Branch DW. Performance Evaluation And Clinical Associations Of Immunoassays That Detect Antibodies To Negatively-Charged Phospholipids Other Than Cardiolipin. American Journal of Clinical Pathology. 149(5):401-411.

Erickson JA, Grenache DG. ​Performance Evaluation of a Serum S-100B ELISA for Use with Cerebrospinal Fluid.​ The Journal of Applied Laboratory Medicine. 2:811-813.

McMillin GA, Wadelius M, Pratt VM. ​Pharmacogenetics.​ Tietz Textbook of Clinical Chemistry and Molecular Diagnostics. 6th Ed., Chapter 54 (Electronic Only).

McMillin GA. ​Pharmacogenetics of opioid use and implications for pain management - are we ready?.​ The Journal of Applied Laboratory Medicine. 2(4)481-4.

Karner KH, Inamdar KV. ​Plasma cell myeloma mimicking classical Hodgkin lymphoma in the bone marrow.​ International Journal of Hematology. 107(2):127-128.

Shen W, Young BA, Bosworth M, Wright KE, Lamb AN, Ji Y. ​Prenatal detection of uniparental disomy of chromosome 2 carrying a CHRND pathogenic variant that causes lethal multiple pterygium syndrome.​ Clinical Genetics. 93(6):1248-1249.

Scroggin TL, McMillin GA. ​Quantitation of Cocaine and Metabolites, Barbiturates, and Phencyclidine in Meconium by Liquid Chromatography Tandem Mass Spectrometry.​ Journal of Analytical Toxicology. 42(3):177-182.

Genzen JR, Murray DL, Abel G, Meng QH, Baltaro RJ, Rhoads DD, Delgado JC, Souers RJ, Bashleben C, Keren DF, Ansari MQ. ​Screening and Diagnosis of Monoclonal Gammopathies: An International Survey of Laboratory Practice.​ Archives of Pathology and Laboratory Medicine. 142(4):507-515.

Vaughn CP, Costa JL, Feilotter HE, Petraroli R, Bagai V, Rachiglio AM, Marino FZ, Tops B, Kurth HM, Sakai K, Mafficini A, Bastien RRL, Reiman A, Le Corre D, Boag A, Crocker S, Bihl M, Hirschmann A, Scarpa A, Machado JC, Blons H, Sheils O, Bramlett K, Ligtenberg MJL, Cree IA, Normanno N, Nishio K, Laurent-Puig P​. Simultaneous Detection of Lung Fusions using a Multiplex RT-PCR Next Generation Sequencing-based Approach: A Multi-Institutional Research Study​.  BMC Cancer​. 18(1):828.

Roy S, Coldren C, Karunamurthy A, Kip NS, Klee EW, Lincoln SE, Leon A, Pullambhatla M, Temple-Smolkin RL, Voelkerding KV, Wang C, Carter AB. Standards and Guidelines for Validating Next-Generation Sequencing Bioinformatics Pipelines: A Joint Recommendation of the Association for Molecular Pathology ​.  The Journal of Molecular Diagnostics. 20(1):4-27.

​Tuttle KD, Krovi SH, Zhang J, Bedel R, Harmacek L, Peterson LK, Dragone LL, Lefferts A, Halluszczak C, Riemondy K, Hesselberth JR, Rao A, O'Connor BP, Marrack P, Scott-Browne J, Gapin L. TCR signal strength controls thymic differentiation of iNKT cell subsets. Nature Communications. 9(1):2650. July 2018.

DeMille D, Carlston CM, Tam OH, Palumbos JC, Stalker HJ, Mao R, Zori RT, Viskochil DH, Park AH, Carey JC. Three novel GJB2 (connexin 26) variants associated with autosomal dominant syndromic and nonsyndromic hearing loss​. American Journal of Medical Genetics. Part A. 176(4):945-950.

Christensen RD, Agarwal AM, Yaish HM, Reading NS, O'Brien EA, Prchal JT. Three Novel Spectrin Variants in Jaundiced Neonates. Clinical Pediatrics. 2018;57(1):19-26.

Foster CC, Lee AY, Furtado LV, Hart J, Alpert L, Xiao SY, Hyman NH, Sharma MR, Liauw S. Treatment outcomes and HPV characteristics for an institutional cohort of patients with anal cancer receiving concurrent chemotherapy and intensity-modulated radiation therapyPLoS One. ;13(3):e0194234.