@inproceedings{f6710649f2d74245855ca1a52db057c5,
title = "SPATA: A seeding and patching algorithm for de novo transcriptome assembly",
abstract = "RNA-seq reads are sampled from the underlying human transcriptome sequence, consisting of hundreds of thousands of mRNA transcripts. De novo transcriptome reconstruction from RNA-seq reads is a promising approach but facing algorithmic and computational challenges derived from nonlinear transcript structures and ultra high-throughput read counts. To tackle this issue, we designed a divide-and-conquer strategy to perform reads localization followed by a novel algorithm to assemble reads de novo. Using simulation studies, we have demonstrated a high accuracy in transcriptome structures reconstruction.",
keywords = "RNA-seq, de novo assembly, read mapping, transcriptome",
author = "Zhiyu Zhao and Nguyen, {Tin Chi} and Nan Deng and Johnson, {Kristen Marie} and Dongxiao Zhu",
year = "2011",
month = dec,
day = "1",
doi = "10.1109/BIBMW.2011.6112351",
language = "English (US)",
isbn = "9781457716133",
series = "2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011",
pages = "26--33",
booktitle = "2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011",
note = "2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011 ; Conference date: 12-11-2011 Through 15-11-2011",
}