Quality control of Ion Torrent sequencing library

Issue title: An update from the Romanian international meeting “Cancer molecular pathobiology in the clinics: Highlights”

Guest editors: Ioana Berindan Neagoex and Angelo Paradisoy

Article type: Research Article

Authors: Pop, Laura-Ancuţa^{a; 1} | Puscas, Emil^{b; f; 1} | Pileczki, Valentina^{a; c} | Cojocneanu-Petric, Roxana^{a; d} | Braicu, Cornelia^{a; e} | Achimas-Cadariu, Patriciu^{f; g; *} | Berindan-Neagoe, Ioana^{a; e; h}

Affiliations: [a] The Research Center for Functional Genomics, Biomedicine and Translational Medicine, “Iuliu Hatieganu” University of Medicine and Pharmacy, Cluj-Napoca, Romania | [b] Department of Surgery before “Iuliu Hatieganu” University of Medicine and Pharmacy, Cluj-Napoca, Romania | [c] Department of Analytical Chemistry, “Iuliu Hatieganu” University of Medicine and Pharmacy, Cluj-Napoca, Romania | [d] Department of Experimental Biology, Faculty of Biology and Geology, “Babes Bolyai” University, Cluj-Napoca, Romania | [e] Department of Functional Genomics and Experimental Pathology, The Oncology Institute “Prof. Dr. Ion Chiricuta”, Cluj-Napoca, Romania | [f] Department of Surgical Oncology, The Oncology Institute “Prof. Dr. Ion Chiricuta”, Cluj-Napoca, Romania | [g] Department of Surgical Oncolgy and Gynecological Oncology Iuliu Hatieganu University of Medicine and Pharmacy Iuliu Hatieganu, Cluj Napoca, Romania | [h] Department of Immunology Iuliu Hatieganu University of Medicine and Pharmacy Cluj Napoca, Romania | [x] The University of Medicine and Pharmacy Iuliu Hatieganu, Cluj, Napoca, Romania | [y] National Cancer Research Center, Istituto Tumori G Paolo II, IRCCS, Bari, Italy

Correspondence: [*] Corresponding author: Patriciu Achimas-Cadariu, Department of Surgery, The Oncology Institute "Prof. Dr. Ion Chiricuta", Republicii, no 34--36, RO-400015, Cluj-Napoca, Romania. Tel.: +40 264 590638; Fax: +40 264 598885; E-mail: [email protected].

Note: [1] Authors with equal contribution.

Abstract: Next-generation sequencing (NSG) is an important method for gathering large amounts of sequencing data for different types of applications regarding the diagnosis and response to treatment of different diseases. An important step in the NGS process is the quality control of sequencing libraries, which can influence the yield and efficiency of the sequencing run. This study evaluated two different methods for library quality control, Agilent Bioanalyzer and qPCR, and showed that both methods can be used. However, as is the case with any analytical method, they have their limitations. The Agilent Bioanalyzer quantifies only the high quality libraries, but it underestimates their concentration, while qPCR also quantifies lower quality libraries, but it overestimates their concentration.

Keywords: Agilent Bioanalyzer, qPCR, sequencing libraries, breast cancer

DOI: 10.3233/CBM-130358

Journal: Cancer Biomarkers, vol. 14, no. 2-3, pp. 93-101, 2014