Research: Large-scale Genomics & Proteomics
R&D of the modern biotechnology heavily relies on large-scale bio data processing. We especially focus on genomics for DNA data and proteomics for protein data. For genomics, we are developing a MapReduce-based method for designing a set of short sequences called primers that can amplify target DNA sequences in PCR experiments. In addition, we are developing a new large-scale method that can detect deseases such as cancer using WGS or WES data generated by NGS technology. For proteomics, we focus on developing a new approach for accurate and fast analysis of tandem mass spectra data with considering protein modifications.
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Related Projects
- Big data and machine learning software for designing short oligonucleotide (PI)
National Research Foundation of Korea(NRF), Ministry of Education, Korea
June 2017 ~ May 2020
- A primer-based diagnostic S/W system for detecting disease genes (PI)
DGIST-GIST, Ministry of Science, Korea
March 2015 ~ Dec. 2015
Related Papers
- MRPrimerV: A database of PCR primers for RNA virus detection
Kim, H., Kang, N., An, K., Kim, D., Koo, J., and Kim, M.-S.
Nucleic Acids Research (NAR), Vol. 45, Issue D1, pp.D475-D481, Jan. 2017 (ISSN: 0305-1048, SCI, IF=10.162).
- MRPrimerW: A tool for rapid design of valid high-quality primers for multiple target qPCR experiments
Kim, H., Kang, N., An, K., Koo, J., and Kim, M.-S.
Nucleic Acids Research (NAR), Vol. 44, Issue W1, pp.W259-W266, July 2016 (ISSN: 0305-1048, SCI, IF=10.162).
- MRPrimer: a MapReduce-based method for the thorough design of valid and ranked primers for PCR
Kim, H., Kang, N., Chon, K., Kim, S., Lee, N., Koo, J., and Kim, M.-S.
Nucleic Acids Research (NAR), Vol. 43, Issue 20, e130, Nov. 2015 (ISSN: 0305-1048, SCI, IF=10.162).
- Olfactory Receptor Olfr544 responding to Azelaic Acid Regulates Glucagon Secretion in <alpha>-cells of Mouse Pancreatic Islets
Kang, N., Bahk, Y. Y., Lee, N., Jae, Y., Cho, Y. H., Ku, C. R., Byun, Y., Lee, E. J., Kim, M.-S., and Koo, J.
Biochemical and Biophysical Research Communications (BBRC), 2015 (accepted) (ISSN: 0006-291X, SCI, IF=2.281).
- Olfactory Marker Protein Expression Is an Indicator of Olfactory Receptor-Associated Events in Non-Olfactory Tissues
Kang, N., Kim, H., Jae, Y., Lee, N., Ku, C. R., Margolis, F., Lee, E. J., Bahk, Y. Y., Kim, M.-S., and Koo, J.
PLOS ONE, 2015 (accepted) (ISSN: 1932-6203, SCI, IF=3.53).
Patents
- Method for rapid design of valid high-quality primers and probes for multiple target genes in qPCR experiments
Kim, M.-S., Kim, H., Koo, J., Kang, N., An, K.
Korean Patent, Appl. No. 10-2016-0080872, June 28, 2016.
- Method for thoroughly designing valid and ranked primers for genome-scale dna sequence database
Kim, M.-S., Koo, J., Kim, H., Kang, N., Chon, K., Kim, S.
U.S. Patent Appl. No. US 14/824,678, July 15, 2015;
U.K. Patent Appl. No. UK 1514871.1, Aug. 20, 2015. Korean Patent Appl. No. 10-2015-0052999, Apr. 15, 2015, Reg. No. 10-1666506, Sept. 29, 2016.
Press Reports
- 메르스, 지카 조기 진단 데이터베이스 개발-1818종 RNA 바이러스 신속 진단
전자신문, YTN 사이언스, 대구 MBC 등 36개사 언론보도, Dec 13, 2016.
- 유전자 진단계의 ‘구글’을 꿈꾸다
인터뷰, 김민수 DGIST 정보통신융합공학전공 교수
과학동아, Oct 6, 2016.
- 초정밀·초고속 올리고뉴클레오티드 설계 기술 개발
전자신문, KBS(대구) 등 27개사 언론보도, May 23, 2016.
- 메르스 진단률 높이는 빅데이터기반 초고성능 유전자 진단 기술 개발
연합뉴스, 전자신문 등 25개사 언론보도, June 29, 2015.