TY - GEN
T1 - Reconstruction from Substrings with Partial Overlap
AU - Yehezkeally, Yonatan
AU - Bar-Lev, Daniella
AU - Marcovich, Sagi
AU - Yaakobi, Eitan
N1 - Publisher Copyright: © 2022 IEICE.
PY - 2022/1/1
Y1 - 2022/1/1
N2 - This paper introduces a new family of reconstruction codes which is motivated by applications in DNA data storage and sequencing. In such applications, DNA strands are sequenced by reading some subset of their substrings. While previous works considered two extreme cases in which all substrings of some fixed length are read or substrings are read with no overlap, this work considers the setup in which consecutive substrings are read with some given minimum overlap. First, an upper bound is provided on the attainable rates of codes that guarantee unique reconstruction. Then, we present efficient constructions of asymptotically optimal codes that meet that upper bound.
AB - This paper introduces a new family of reconstruction codes which is motivated by applications in DNA data storage and sequencing. In such applications, DNA strands are sequenced by reading some subset of their substrings. While previous works considered two extreme cases in which all substrings of some fixed length are read or substrings are read with no overlap, this work considers the setup in which consecutive substrings are read with some given minimum overlap. First, an upper bound is provided on the attainable rates of codes that guarantee unique reconstruction. Then, we present efficient constructions of asymptotically optimal codes that meet that upper bound.
UR - http://www.scopus.com/inward/record.url?scp=85206850995&partnerID=8YFLogxK
M3 - Conference contribution
T3 - Proceedings of 2022 International Symposium on Information Theory and Its Applications, ISITA 2022
SP - 104
EP - 108
BT - Proceedings of 2022 International Symposium on Information Theory and Its Applications, ISITA 2022
T2 - 17th International Symposium on Information Theory and Its Applications, ISITA 2022
Y2 - 17 October 2022 through 19 October 2022
ER -