Poster: In silico microarray algorithm: Accurate and fast taxonomic profiling from short read sequences

Tomoya Tagami, Tsuyoshi Hachiya, Yasubumi Sakakibara

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

We here propose a novel algorithm that can accurately estimate taxonomic composition of microbial communities from massive amount of short read sequences (60-120 bp). Our accuracy evaluation based on simulated datasets demonstrated that our method achieves much higher accuracies than previously proposed methods including Taxy, Qin's method and RDPClassifier. The source code is freely available under GNU Public Licence (GPL) from http://ism.dna.bio.keio.ac.jp.

Original languageEnglish
Title of host publication2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012
DOIs
Publication statusPublished - 2012
Event2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012 - Las Vegas, NV, United States
Duration: 2012 Feb 232012 Feb 25

Other

Other2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012
CountryUnited States
CityLas Vegas, NV
Period12/2/2312/2/25

Fingerprint

Microarrays
Profiling
Microarray
Chemical analysis
High Accuracy
Evaluation
Estimate

Keywords

  • metagenomics
  • microbial community
  • next-generation sequencers
  • taxonomic profiling

ASJC Scopus subject areas

  • Biomedical Engineering
  • Applied Mathematics

Cite this

Tagami, T., Hachiya, T., & Sakakibara, Y. (2012). Poster: In silico microarray algorithm: Accurate and fast taxonomic profiling from short read sequences. In 2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012 [6182660] https://doi.org/10.1109/ICCABS.2012.6182660

Poster : In silico microarray algorithm: Accurate and fast taxonomic profiling from short read sequences. / Tagami, Tomoya; Hachiya, Tsuyoshi; Sakakibara, Yasubumi.

2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012. 2012. 6182660.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Tagami, T, Hachiya, T & Sakakibara, Y 2012, Poster: In silico microarray algorithm: Accurate and fast taxonomic profiling from short read sequences. in 2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012., 6182660, 2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012, Las Vegas, NV, United States, 12/2/23. https://doi.org/10.1109/ICCABS.2012.6182660
Tagami T, Hachiya T, Sakakibara Y. Poster: In silico microarray algorithm: Accurate and fast taxonomic profiling from short read sequences. In 2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012. 2012. 6182660 https://doi.org/10.1109/ICCABS.2012.6182660
Tagami, Tomoya ; Hachiya, Tsuyoshi ; Sakakibara, Yasubumi. / Poster : In silico microarray algorithm: Accurate and fast taxonomic profiling from short read sequences. 2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012. 2012.
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