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A Systematic Evaluation of High-Throughput Sequencing Approaches to Identify Low-Frequency Single Nucleotide Variants in Viral Populations [PDF]

Viruses, 2020
High-throughput sequencing such as those provided by Illumina are an efficient way to understand sequence variation within viral populations. However, challenges exist in distinguishing process-introduced error from biological variance, which significantly impacts our ability to identify sub-consensus single-nucleotide variants (SNVs).
Paolo Ribeca, Graham Freimanis, Donald P King   +2 more
exaly   +5 more sources

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High-throughput nucleotide sequencing reveals new circulatory miRNA genes in cervical cancer patients

Computers in Biology and Medicine
Cervical cancer is one of the most common cancers in the world, and it is the second gynecological cancer in women after breast cancer. Recent evidence has shown miRNAs are dysregulated in cervical cancer, which can be used as a valuable tool for diagnosis, prognosis, or treatment.In this study, we aimed to find a new miRNA signature for cervical ...
Sivasamy Ramasamy, Deena Krishnan
exaly   +4 more sources

High-throughput nucleotide sequencing for bacteriome studies in oral squamous cell carcinoma: a systematic review

Oral and Maxillofacial Surgery, 2020
Dysbiosis has been identified in oral squamous cell carcinoma (OSCC). The aim of this study was to carry out a systematic review of an electronic research that was carried out on articles published between January 2008 and September 2018.Eight studies were selected after applying the inclusion and exclusion criteria.All articles targeted the ...
Ruth Tramontani Ramos, Camila Stofella Sodré, Paulo Matheus Guerra Ribeiro de Sousa Rodrigues, Alexandre Marques Paes da Silva, Milenna Silva Fuly, Henrique Fragoso dos Santos, Lucio Souza Gonçalves, Dennis de Carvalho Ferreira, Marcia Gonçalves Ribeiro   +8 more
openaire   +2 more sources

Abstract 5173: Identification of single-nucleotide variants by high-throughput RNA sequencing in endemic Burkitt Lymphoma

Cancer Research, 2014
Abstract Endemic Burkitt lymphoma (eBL) constitutes the commonest cancer in children in Developing Countries, while the sporadic (sBL) and immunodeficiency associated BL (ID-BL) forms are mainly encountered in Western Countries. The molecular hallmark of three BL variants is the translocation of MYC proto-oncogene to the immunoglobulin ...
Maria Antonella Laginestra, Francesco Abate, Maryam Etebari, Giulia D. Falco, Fabio Fuligni, Maura Rossi, Sakellarios Zairis, Maria Rosaria Sapienza, Anna Gazzola, Claudia Mannu, Federica Melle, Claudio Agostinelli, Mohsen Navari, Cristiana Bellan, Sara Gazaneo, Lucia Mundo, Martin Ogwang, Valeria Calbi, Lorenzo Leoncini, Stefano A. Pileri, Raul Rabadan, Pier Paolo Piccaluga   +21 more
openaire   +1 more source

Identification of single-nucleotide variants by high-throughput RNA sequencing in endemic Burkitt Lymphoma

2014
Endemic Burkitt lymphoma (eBL) constitutes the commonest cancer in children in Developing Countries, while the sporadic (sBL) and immunodeficiency associated BL (ID-BL) forms are mainly encountered in Western Countries. The molecular hallmark of three BL variants is the translocation of MYC proto-oncogene to the immunoglobulin-heavy [t(8;14)(q24;q32 ...
Laginestra, Maria Antonella, ABATE, FRANCESCO, Etebari, Maryam, De Falco, Giulia, Fuligni, Fabio, Rossi, Maura, Zairis, Sakellarios, Sapienza, Maria Rosaria, Gazzola, Anna, Mannu, Claudia, Melle, Federica, Agostinelli, Claudio, Navari, Mohsen, Bellan, Cristiana, Gazaneo, Sara, Mundo, Lucia, Ogwang, Martin, Calbi, Valeria, Leoncini, Lorenzo, Pileri, Stefano A., Rabadan, Raul, Piccaluga, Pier Paolo   +21 more
openaire   +2 more sources

Nucleotide variation at the Vitis chloroplast genome based on high-throughput sequencing and SNP genotyping

2017
Peer ...
Torres-Pérez, Rafael, Ibáñez Marcos, Javier, Martínez-Zapater, José M.   +2 more
openaire   +1 more source

IMGT/HighV-QUEST: A High-Throughput System and Web Portal for the Analysis of Rearranged Nucleotide Sequences of Antigen Receptors - High-Throughput Version of IMGT/V-QUEST

2010
MGT/HighV-QUEST has been developed by IMGT® [1], the international ImMunoGeneTics Information System® to answer the problematic of the analysis of the antigen receptor data from Next-Generation Sequencing (NGS). The analysis of the expressed repertoires of antigen receptors - immunoglobulins (IG) or antibodies and T cell receptors - represents a ...
Alamyar, Eltaf, Giudicelli, Véronique, Duroux, Patrice, Lefranc, Marie-Paule   +3 more
openaire   +1 more source

Multiplex restriction amplicon sequencing: a novel next-generation sequencing-based marker platform for high-throughput genotyping

Plant Biotechnology Journal, 2020
Guihua Bai, Amy Bernardo
exaly  

HIGH-THROUGHPUT NEXT-GENERATION SEQUENCING METHOD FOR DOUBLE-STRANDED NUCLEOTIDE SEQUENCING

2020
LI JIN, CHANG YONG, JIANG MINGXING, GAO YA, LI YOU, LIU JIAN, WAN JINQIAO   +6 more
openaire   +1 more source

Single nucleotide variant detection in Jaffrabadi buffalo (Bubalus bubalis) using high-throughput targeted sequencing

Frontiers in Life Science: Frontiers of Interdisciplinary Research in the Life Sciences, 2015
Vaibhav Bhatt, Subhash J Jakhesara, Prakash Koringa   +2 more
exaly