A Novel Pipeline for V(D)J Junction Identification using RNA-Seq Paired-end Reads

Giulia Paciello, Elisa Ficarra, Alberto Zamò, Chiara Pighi, Carmelo Foti, Francesco Abate, Enrico Macii, Andrea Acquaviva

Abstract

Immunoglobulin heavy and light chains are assembled respectively from germline V, D, J and V, J segments within a process called V(D)J recombination involving the development of T and B lymphocytes. The discovery that abnormal antibodies are often related to a wide range of pathologies conducted during the last years to many studies inherent the immunoglobulin features. In particular the identification of the functional V(D)J sequence of an antibody is considered fundamental since it could allow to understand the link between a particular disease and a specific recombination in a certain tissue and to promote the engineering of therapeutic antibodies. Objective of the implemented pipeline consists in the identification of the so called ’main clone’ that characterizes a neoplastic tissue using paired-end RNA-Sequencing (RNA-Seq) reads.

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Paper Citation


in Harvard Style

Paciello G., Ficarra E., Zamò A., Pighi C., Foti C., Abate F., Macii E. and Acquaviva A. (2013). A Novel Pipeline for V(D)J Junction Identification using RNA-Seq Paired-end Reads . In Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2013) ISBN 978-989-8565-35-8, pages 185-189. DOI: 10.5220/0004247601850189


in Bibtex Style

@conference{bioinformatics13,
author={Giulia Paciello and Elisa Ficarra and Alberto Zamò and Chiara Pighi and Carmelo Foti and Francesco Abate and Enrico Macii and Andrea Acquaviva},
title={A Novel Pipeline for V(D)J Junction Identification using RNA-Seq Paired-end Reads},
booktitle={Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2013)},
year={2013},
pages={185-189},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0004247601850189},
isbn={978-989-8565-35-8},
}


in EndNote Style

TY - CONF
JO - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2013)
TI - A Novel Pipeline for V(D)J Junction Identification using RNA-Seq Paired-end Reads
SN - 978-989-8565-35-8
AU - Paciello G.
AU - Ficarra E.
AU - Zamò A.
AU - Pighi C.
AU - Foti C.
AU - Abate F.
AU - Macii E.
AU - Acquaviva A.
PY - 2013
SP - 185
EP - 189
DO - 10.5220/0004247601850189