Efficient privacy-preserving variable-length substring match for genome sequence

Yoshiki Nakagawa, Satsuya Ohata, Kana Shimizu*

*この研究の対応する著者

研究成果: Conference contribution

抄録

Finding a similar substring that commonly appears in query and database sequences is an essential task for genome data analysis. This study proposes a secure two-party variable-length string search protocol based on secret sharing. The unique feature of our protocol is that time, communication, and round complexities are not dependent on the database length N, after the query input. This property brings dramatic performance improvements in search time, since N is usually quite large in an actual genome database, and the same database is repeatedly used for many queries. Our concept hinges on a technique that efficiently applies the compressed full-text index (FOCS 2000) for a secret-sharing scheme. We conducted an experiment using a human genomic sequence with the length of 10 million as the database and a query with the length of 100 and found that the query response time of our protocol was at least three orders of magnitude faster than a well-designed baseline protocol under the realistic computation/network environment.

本文言語English
ホスト出版物のタイトル21st International Workshop on Algorithms in Bioinformatics, WABI 2021
編集者Alessandra Carbone, Mohammed El-Kebir
出版社Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing
ISBN(電子版)9783959772006
DOI
出版ステータスPublished - 2021 7 1
イベント21st International Workshop on Algorithms in Bioinformatics, WABI 2021 - Virtual, Chicago, United States
継続期間: 2021 8 22021 8 4

出版物シリーズ

名前Leibniz International Proceedings in Informatics, LIPIcs
201
ISSN(印刷版)1868-8969

Conference

Conference21st International Workshop on Algorithms in Bioinformatics, WABI 2021
国/地域United States
CityVirtual, Chicago
Period21/8/221/8/4

ASJC Scopus subject areas

  • ソフトウェア

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