A hybrid and scalable error correction algorithm for indel and substitution errors of long reads

AK Das, S Goswami, K Lee, SJ Park - BMC genomics, 2019 - Springer
Background Long-read sequencing has shown the promises to overcome the short length
limitations of second-generation sequencing by providing more complete assembly …

Distributed RMI-DBG model: scalable iterative de Bruijn Graph algorithm for short read genome assembly problem

ZZ Hosseini, SK Rahimi, E Forouzan… - Expert Systems with …, 2023 - Elsevier
Genome assembly is the computational process of merging short parts of DNA into larger
sequences called contigs. Rapid growth of high-throughput genome sequencing …

RMI-DBG algorithm: A more agile iterative de Bruijn graph algorithm in short read genome assembly

ZZ Hosseini, SK Rahimi, E Forouzan… - Journal of Bioinformatics …, 2021 - World Scientific
The de Bruijn Graph algorithm (DBG) as one of the cornerstones algorithms in short read
assembly has extended with the rapid advancement of the Next Generation Sequencing …

A cloud-aware autonomous workflow engine and its application to gene regulatory networks inference

A Bonnaffoux, E Caron, H Croubois… - CLOSER 2018-8th …, 2018 - inria.hal.science
With the recent development of commercial Cloud offers, Cloud solutions are today the
obvious solution for many computing use-cases. However, high performance scientific …

Parlech: Parallel long-read error correction with hadoop

AK Das, K Lee, SJ Park - 2018 IEEE International Conference …, 2018 - ieeexplore.ieee.org
Long-read sequencing is emerging as a promising sequencing technology because it can
tackle the short length limitation of second-generation sequencing, which has dominated the …

[LIBRO][B] A Study of Scalability and Cost-effectiveness of Large-scale Scientific Applications over Heterogeneous Computing Environment

AK Das - 2018 - search.proquest.com
Recent advances in large-scale experimental facilities ushered in an era of data-driven
science. These large-scale data increase the opportunity to answer many fundamental …

[CITAS][C] Introduction to selected papers from the 8th International Conference on Bioinformatics and Computational Biology (BICOB 2016)

N Haspel, T Ioerger, H Al-Mubaid - Journal of Bioinformatics and …, 2017 - World Scientific
The 8th International Conference on Bioinformatics and Computational Biology (BICOB
2016) was held in Las Vegas, NV on April 4–6, 2016. In recent years, computational biology …