The Journal of Molecular Diagnostics: Nov-2015

wwwkkk83

Special Article
       
Next-Generation Sequencing for Infectious Disease Diagnosis and Management
Martina I. Lefterova, Carlos J. Suarez, Niaz Banaei, Benjamin A. Pinsky

       
Technical Advance
         
Amplicon Indel Hunter Is a Novel Bioinformatics Tool to Detect Large Somatic Insertion/Deletion Mutations in Amplicon-Based Next-Generation Sequencing Data
Sabah Kadri, Chao J. Zhen, Michelle N. Wurst, Bradley C. Long, Zi-Feng Jiang, Y. Lynn Wang, Larissa V. Furtado, Jeremy P. Segal

       
Regular Articles
         
Mutational Analysis of BRAF Inhibitor–Associated Squamoproliferative Lesions
Britt Clynick, Tania Tabone, Kathryn Fuller, Wendy Erber, Katie Meehan, Michael Millward, Benjamin A. Wood, Nathan T. Harvey

       
Minimal Residual Disease Detection by Droplet Digital PCR in Multiple Myeloma, Mantle Cell Lymphoma, and Follicular Lymphoma
Daniela Drandi, Lenka Kubiczkova-Besse, Simone Ferrero, Nadia Dani, Roberto Passera, Barbara Mantoan, Manuela Gambella, Luigia Monitillo, Elona Saraci, Paola Ghione, Elisa Genuardi, Daniela Barbero, Paola Omedè, Davide Barberio, Roman Hajek, Umberto Vitolo, Antonio Palumbo, Sergio Cortelazzo, Mario Boccadoro, Giorgio Inghirami, Marco Ladetto

       
Detection of Dual IDH1 and IDH2 Mutations by Targeted Next-Generation Sequencing in Acute Myeloid Leukemia and Myelodysplastic Syndromes
Mia Y. Platt, Amir T. Fathi, Darrell R. Borger, Andrew M. Brunner, Robert P. Hasserjian, Leonora Balaj, Amy Lum, Stephen Yip, Dora Dias-Santagata, Zongli Zheng, Long P. Le, Timothy A. Graubert, A. John Iafrate, Valentina Nardi

       
Aberrant Levels of miRNAs in Bone Marrow Microenvironment and Peripheral Blood of Myeloma Patients and Disease Progression
Weixin Wang, Meghan Corrigan-Cummins, Emily A. Barber, Layla M. Saleh, Adriana Zingone, Azam Ghafoor, Rene Costello, Yong Zhang, Roger J. Kurlander, Neha Korde, Aldo M. Roccaro, Irene M. Ghobrial, Ola Landgren, Katherine R. Calvo

       
One-Step Ligation on RNA Amplification for the Detection of Point Mutations
Lei Zhang, Jingjing Wang, Mia Coetzer, Stephanie Angione, Rami Kantor, Anubhav Tripathi

       
SERPINA1 Full-Gene Sequencing Identifies Rare Mutations Not Detected in Targeted Mutation Analysis
Rondell P. Graham, Michelle A. Dina, Sarah C. Howe, Malinda L. Butz, Kurt S. Willkomm, David L. Murray, Melissa R. Snyder, Kandelaria M. Rumilla, Kevin C. Halling, W. Edward Highsmith

       
Development of a Center for Personalized Cancer Care at a Regional Cancer Center
Brian R. Lane, Jeffrey Bissonnette, Tracy Waldherr, Deborah Ritz-Holland, Dave Chesla, Sandra L. Cottingham, Sheryl Alberta, Cong Liu, Amanda B. Thompson, Carrie Graveel, Jeffrey P. MacKeigan, Sabrina L. Noyes, Judy Smith, Nehal Lakhani, Matthew R. Steensma Mark Enter, Kimberly Mohr, Samer Al-Homsi, Stephanie Williams, Marlee Bogema, Kirk Gates, Marianne Melnik, Mathew Chung, Thomas Southwell, Anne Wilds, Kimberly Collison, Timothy O'Rourke, Amy VanderWoude, Alan Campbell, Mark Campbell, Brett Brinker, Julian Schink, Leigh Seamon, Mary Winn

       
MSIplus for Integrated Colorectal Cancer Molecular Testing by Next-Generation Sequencing
Jennifer A. Hempelmann, Sheena M. Scroggins, Colin C. Pritchard, Stephen J. Salipante

       
Comparative Evaluation of Broad-Panel PCR Assays for the Detection of Gastrointestinal Pathogens in Pediatric Oncology Patients
Zhengming Gu, Haiqing Zhu, Alicia Rodriguez, Mohammad Mhaissen, Stacey Schultz-Cherry, Elisabeth Adderson, Randall T. Hayden

       
Development and Evaluation of a SYBR Green–Based Real-Time Multiplex RT-PCR Assay for Simultaneous Detection and Serotyping of Dengue and Chikungunya Viruses
Huixin Chen, Mariya Parimelalagan, Yee Ling Lai, Kim Sung Lee, Evelyn Siew-Chuan Koay, Hapuarachchige C. Hapuarachchi, Lee Ching Ng, Phui San Ho, Justin Jang Hann Chu

       
HaloPlex Targeted Resequencing for Mutation Detection in Clinical Formalin-Fixed, Paraffin-Embedded Tumor Samples
Lotte N.J. Moens, Elin Falk-Sörqvist, Viktor Ljungström, Johanna Mattsson, Magnus Sundström, Linnéa La Fleur, Lucy Mathot, Patrick Micke, Mats Nilsson, Johan Botling

       
CYP2D6 Haplotype Determination Using Long Range Allele-Specific Amplification
Andrea Gaedigk, Amanda K. Riffel, J. Steven Leeder

wwwkkk83

Development and Evaluation of a SYBR Green–Based Real-Time Multiplex RT-PCR Assay for Simultaneous Detection and Serotyping of Dengue and Chikungunya Viruses

Huixin Chen, Mariya Parimelalagan, Yee Ling Lai, Kim Sung Lee, Evelyn Siew-Chuan Koay, Hapuarachchige C. Hapuarachchi, Lee Ching Ng, Phui San Hocorrespondenceemail, Justin Jang Hann Chucorrespondenceemailemail

Chikungunya virus (CHIKV) and dengue virus (DENV) have emerged as the two most important arbovirus diseases of global health significance. Similar clinical manifestations, transmission vectors, geographical distribution, and seasonal correlation often result in misdiagnosis of chikungunya infections as dengue cases and vice versa. In this study, we developed a rapid and accurate laboratory confirmative method to simultaneously detect, quantify, and differentiate DENV serotypes 1, 2, 3, and 4 and CHIKV. This SYBR Green I–based one-step multiplex real-time RT-PCR assay is highly sensitive and specific for CHIKV and DENV. Melting temperature analysis of PCR amplicons was used to serotype DENV and to differentiate from CHIKV. The detection limit of the assay was 20, 10, 50, 5, and 10 RNA copies/reaction for DENV-1, DENV-2, DENV-3, DENV-4, and CHIKV, respectively. Our assay did not cross-react with a panel of viruses that included other flaviviruses, alphaviruses, influenza viruses, human enteroviruses, and human coronaviruses. The feasibility of using this assay for clinical diagnosis was evaluated in DENV- and CHIKV-positive patient sera. Accordingly, the assay sensitivity for DENV-1, DENV-2, DENV-3, DENV-4, and CHIKV was 89.66%, 96.67%, 96.67%, 94.12%, and 95.74%, respectively, with 100% specificity. These findings confirmed the potential of our assay to be used as a rapid test for simultaneous detection and serotyping of DENV and CHIKV in clinical samples.