Resources – Data Science Laboratory

Software

DeepSpark

http://deepspark.snu.ac.kr

Spark-based deep learning framework supporting asynchronous updates and Caffe compatibility

+ Related publications

DeepSpark: Spark-Based Deep Learning Supporting Asynchronous Updates and Caffe Compatibility

Hanjoo Kim, Jaehong Park, Jaehee Jang, and Sungroh Yoon, arXiv:1602.08191v2 [cs.LG], Februaray 2016.
paper link code

HiTRACE

http://hitrace.org (online)
https://simtk.org/home/hitrace (scripts)

A robust tool for high-throughput analysis of capillary electrophoresis

+ Related publications

HiTRACE-Web: an Online Tool for Robust Analysis of High-Throughput Capillary Electrophoresis

Hanjoo Kim, Pablo Cordero, Rhiju Das, and Sungroh Yoon, Nucleic Acids Research, vol. 41, no. W1, pp. W492-498, July 2013.
paper link server

HiTRACE: High-throughput robust analysis for capillary electrophoresis

Sungroh Yoon, Jinkyu Kim, Justine Hum, Hanjoo Kim, Seunghyun Park, Wipapat Kladwang and Rhiju Das, Bioinformatics, vol. 27, no. 13, pp. 1798-1805, July 2011.
paper link code suppl

RICom

http://data.snu.ac.kr/ricom

RWR with Intergraph Compression

+ Related publications

Measuring Large-Scale Dynamic Graph Similarity by RICom: RWR with Intergraph Compression

Jaekoo Lee, Gunn Kim, and Sungroh Yoon, in Proceedings of IEEE International Conference on Data Mining (ICDM), pp. 829-834, Atlantic City, New Jersey, USA, November 2015.
paper link

CASPER

http://data.snu.ac.kr/casper

Context-Aware Scheme for Paired-End Reads

+ Related publications

CASPER: Context-Aware Scheme for Paired-End Read from High-Throughput Short-Read Amplicon Sequencing

Sunyoung Kwon, Byunghan Lee, and Sungroh Yoon, BMC Bioinformatics , vol. 15, no. suppl 9, p. S10, September 2014.
paper link

CASPER: Context-Aware Scheme for Paired-End Read from High-Throughput Short-Read Amplicon Sequencing

Sunyoung Kwon, Byunghan Lee, and Sungroh Yoon, in Proceedings of 2014 RECOMB-Seq (Massively Parallel Sequencing) , Pittsburgh, USA, March 2014. [full paper published in BMC Bioinformatics]

NASCUP

http://data.snu.ac.kr/nascup

Nucleic Acid Sequence Classification by Universal Probability

+ Related publications

NASCUP: Nucleic Acid Sequence Classification by Universal Probability

Sunyoung Kwon, Gyuwan Kim, Byunghan Lee, Sungroh Yoon, and Young-Han Kim, in 2016 RECOMB-Seq (Massively Parallel Sequencing), Los Angeles, USA, April 2016.
paper suppl arXiv

DUDE-Seq

http://data.snu.ac.kr/pub/dude-seq

+ Related publications

DUDE-Seq: Fast, Flexible, and Robust Denoising for Targeted Amplicon Sequencing

Byunghan Lee, Taesup Moon, Sungroh Yoon, and Tsachy Weissman, PLOS ONE, 12(7):e0181463, July 2017.
paper link arXiv suppl

MUGAN

Multi-GPU accelerated AmpliconNoise server for rapid microbial diversity assessment

+ Related publications

Rapid and Robust Denoising of Pyrosequenced Amplicons for Metagenomics

Byunghan Lee, Joonhong Park, and Sungroh Yoon, in Proceedings of IEEE International Conference on Data Mining (ICDM 2012), Brussels, Belgium, December 2012.
paper link

vHOT

http://data.snu.ac.kr/vhot

Viral microRNA host-target database

+ Related publications

vHoT: a Database for Predicting Inter-Species Iteractions between Viral microRNA and Host Genomes

Hanjoo Kim, Seunghyun Park, Hyeyoung Min, and Sungroh Yoon, Archives of Virology, vol. 157, no. 3, pp. 497-501, March 2012.
paper link server

PCRC

http://data.snu.ac.kr/PCRC/kr (Korean)
http://data.snu.ac.kr/PCRC (English)

Prostate cancer risk calculator

+ Related publications

Can the Prostate Risk Calculator Based on Western Population be Applied to Asian Population?

Duck Ki Yoon, Jae Young Park, Sungroh Yoon, Man Sik Park, Du Geon Moon, and Fritz H. Schröder, The Prostate, vol. 72, no. 7, pp. 721-729, May 2012.
paper link server

Initial biopsy outcome prediction in Korean patients – comparison of a noble web-based Korean prostate cancer risk calculator versus prostate-specific antigen testing

Jae Young Park, Sungroh Yoon, Man Sik Park, Dae-Yeon Cho, Hong-Seok Park, Du Geon Moon and Duck Ki Yoon, JKMS, vol. 26, no. 1, pp. 85-91, January 2011.
paper link server

Lab photos

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