TY - GEN
T1 - High accuracy base calls in nanopore sequencing
AU - Faucon, Philippe
AU - Trevino, Robert
AU - Balachandran, Parithi
AU - Standage-Beier, Kylie
AU - Wang, Xiao
N1 - Publisher Copyright:
© 2017 Association for Computing Machinery.
PY - 2017/6/22
Y1 - 2017/6/22
N2 - Nanopore sequencing has introduced the ability to sequence long stretches of DNA, enabling the resolution of repeating segments, or paired SNPs across long stretches of DNA. Unfortunately, significant error rates >15%, introduced through systematic and random noise inhibit downstream analysis. We propose a novel method, using unsupervised learning, to correct biologically amplified reads before downstream analysis proceeds. We also demonstrate that our method has performance comparable to existing techniques without limiting the detection of repeats, or the length of the input sequence.
AB - Nanopore sequencing has introduced the ability to sequence long stretches of DNA, enabling the resolution of repeating segments, or paired SNPs across long stretches of DNA. Unfortunately, significant error rates >15%, introduced through systematic and random noise inhibit downstream analysis. We propose a novel method, using unsupervised learning, to correct biologically amplified reads before downstream analysis proceeds. We also demonstrate that our method has performance comparable to existing techniques without limiting the detection of repeats, or the length of the input sequence.
KW - Accuracy improvement
KW - DNA thumbprint
KW - Nanopore sequencing
UR - http://www.scopus.com/inward/record.url?scp=85032639457&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85032639457&partnerID=8YFLogxK
U2 - 10.1145/3121138.3121186
DO - 10.1145/3121138.3121186
M3 - Conference contribution
AN - SCOPUS:85032639457
T3 - ACM International Conference Proceeding Series
SP - 12
EP - 16
BT - Proceedings of 2017 6th International Conference on Bioinformatics and Biomedical Science, ICBBS 2017
PB - Association for Computing Machinery
T2 - 6th International Conference on Bioinformatics and Biomedical Science, ICBBS 2017
Y2 - 22 June 2017 through 24 June 2017
ER -