Korean Genome Project

Korean Genome Project (KGP) is the largest Korean Genome Project which currently includes over 10,000 human genomes sequenced in Korea by April 2021.

KGP was originated from the national initiative of sequencing the reference Korean and whole population genomes in 2006 by KOBIC, KRIBB and NCSRD, KRISS, Daejeon in Korea. From 2009, KGP was supported by the Genome Research Foundation and TheragenEtex to build the Variome of Koreans as well as the Korean Reference Genome (KOREF). Starting from KOREF, a consensus variome reference, providing information on millions of variants from 40 additional ethnically homogeneous genomes from the Korean Personal Genome Project was completed in 2017.^[1] Updating the technology an improved version of KOREF was then constructed using long-read sequencing data produced by Oxford Nanopore PromethION and PacBio technologies has been released showcasing newer assembly technologies and techniques.^[2] In 2022 a new chromosome-level haploid assembly of KOREF was published, assembled using Oxford Nanopore Technologies PromethION, Pacific Biosciences HiFi-CCS, and Hi-C technology.^[3]

Since 2014, KGP has been supported by Ulsan National Institute of Science and Technology, Clinomics, and Ulsan City, Ulsan, Korea. KGP released 1,094 Korean whole genome sequences (the Korea1K or KGP 1000 project) on 27 May 2020 in Science Advances.^[4] Having a stable, high-quality reference, KOREF has been used to benchmark sequencing technologies such as MGI DNBSEQ-T7 and Illumina HiSeq2000, HiSeq2500, HiSeq4000, HiSeqX10, and NovaSeq6000 sequencing technologies.^[5] The variome data has already been a useful reference to study the origin and composition of Korean ethnicity when compared to ancient DNA sequences.^[6]

References[edit]

^ Cho, Yun Sung; Kim, Hyunho; Kim, Hak-Min; Jho, Sungwoong; Jun, JeHoon; Lee, Yong Joo; Chae, Kyun Shik; Kim, Chang Geun; Kim, Sangsoo; Eriksson, Anders; Edwards, Jeremy S. (24 November 2016). "An ethnically relevant consensus Korean reference genome is a step towards personal reference genomes". Nature Communications. 7 (1): 13637. Bibcode:2016NatCo...713637C. doi:10.1038/ncomms13637. ISSN 2041-1723. PMC 5123046. PMID 27882922.
^ Kim, Hui-Su; Jeon, Sungwon; Kim, Changjae; Kim, Yeon Kyung; Cho, Yun Sung; Kim, Jungeun; Blazyte, Asta; Manica, Andrea; Lee, Semin; Bhak, Jong (1 December 2019). "Chromosome-scale assembly comparison of the Korean Reference Genome KOREF from PromethION and PacBio with Hi-C mapping information". GigaScience. 8 (12). doi:10.1093/gigascience/giz125. PMC 6889754. PMID 31794015.
^ Kim, Hui-su; Jeon, Sungwon; Kim, Yeonkyung; Kim, Changjae; Bhak, Jihun; Bhak, Jong (1 January 2022). "KOREF_S1: phased, parental trio-binned Korean reference genome using long reads and Hi-C sequencing methods". GigaScience. 11: giac022. doi:10.1093/gigascience/giac022. ISSN 2047-217X. PMC 8952264. PMID 35333300.
^ Jeon, Sungwon; Bhak, Youngjune; Choi, Yeonsong; Jeon, Yeonsu; Kim, Seunghoon; Jang, Jaeyoung; Jang, Jinho; Blazyte, Asta; Kim, Changjae; Kim, Yeonkyung; Shim, Jungae (1 May 2020). "Korean Genome Project: 1094 Korean personal genomes with clinical information". Science Advances. 6 (22): eaaz7835. Bibcode:2020SciA....6.7835J. doi:10.1126/sciadv.aaz7835. ISSN 2375-2548. PMC 7385432. PMID 32766443.
^ Kim, Hak-Min; Jeon, Sungwon; Chung, Oksung; Jun, Je Hoon; Kim, Hui-Su; Blazyte, Asta; Lee, Hwang-Yeol; Yu, Youngseok; Cho, Yun Sung; Bolser, Dan M; Bhak, Jong (1 March 2021). "Comparative analysis of 7 short-read sequencing platforms using the Korean Reference Genome: MGI and Illumina sequencing benchmark for whole-genome sequencing". GigaScience. 10 (giab014). doi:10.1093/gigascience/giab014. ISSN 2047-217X. PMC 7953489. PMID 33710328.
^ Kim, Jungeun; Jeon, Sungwon; Choi, Jae-Pil; Blazyte, Asta; Jeon, Yeonsu; Kim, Jong-Il; Ohashi, Jun; Tokunaga, Katsushi; Sugano, Sumio; Fucharoen, Suthat; Al-Mulla, Fahd (1 May 2020). "The Origin and Composition of Korean Ethnicity Analyzed by Ancient and Present-Day Genome Sequences". Genome Biology and Evolution. 12 (5): 553–565. doi:10.1093/gbe/evaa062. ISSN 1759-6653. PMC 7250502. PMID 32219389.

External links[edit]

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[1] Cho, Yun Sung; Kim, Hyunho; Kim, Hak-Min; Jho, Sungwoong; Jun, JeHoon; Lee, Yong Joo; Chae, Kyun Shik; Kim, Chang Geun; Kim, Sangsoo; Eriksson, Anders; Edwards, Jeremy S. (24 November 2016). "An ethnically relevant consensus Korean reference genome is a step towards personal reference genomes". Nature Communications. 7 (1): 13637. Bibcode:2016NatCo...713637C. doi:10.1038/ncomms13637. ISSN 2041-1723. PMC 5123046. PMID 27882922.

[2] Kim, Hui-Su; Jeon, Sungwon; Kim, Changjae; Kim, Yeon Kyung; Cho, Yun Sung; Kim, Jungeun; Blazyte, Asta; Manica, Andrea; Lee, Semin; Bhak, Jong (1 December 2019). "Chromosome-scale assembly comparison of the Korean Reference Genome KOREF from PromethION and PacBio with Hi-C mapping information". GigaScience. 8 (12). doi:10.1093/gigascience/giz125. PMC 6889754. PMID 31794015.

[3] Kim, Hui-su; Jeon, Sungwon; Kim, Yeonkyung; Kim, Changjae; Bhak, Jihun; Bhak, Jong (1 January 2022). "KOREF_S1: phased, parental trio-binned Korean reference genome using long reads and Hi-C sequencing methods". GigaScience. 11: giac022. doi:10.1093/gigascience/giac022. ISSN 2047-217X. PMC 8952264. PMID 35333300.

[4] Jeon, Sungwon; Bhak, Youngjune; Choi, Yeonsong; Jeon, Yeonsu; Kim, Seunghoon; Jang, Jaeyoung; Jang, Jinho; Blazyte, Asta; Kim, Changjae; Kim, Yeonkyung; Shim, Jungae (1 May 2020). "Korean Genome Project: 1094 Korean personal genomes with clinical information". Science Advances. 6 (22): eaaz7835. Bibcode:2020SciA....6.7835J. doi:10.1126/sciadv.aaz7835. ISSN 2375-2548. PMC 7385432. PMID 32766443.

[5] Kim, Hak-Min; Jeon, Sungwon; Chung, Oksung; Jun, Je Hoon; Kim, Hui-Su; Blazyte, Asta; Lee, Hwang-Yeol; Yu, Youngseok; Cho, Yun Sung; Bolser, Dan M; Bhak, Jong (1 March 2021). "Comparative analysis of 7 short-read sequencing platforms using the Korean Reference Genome: MGI and Illumina sequencing benchmark for whole-genome sequencing". GigaScience. 10 (giab014). doi:10.1093/gigascience/giab014. ISSN 2047-217X. PMC 7953489. PMID 33710328.

[6] Kim, Jungeun; Jeon, Sungwon; Choi, Jae-Pil; Blazyte, Asta; Jeon, Yeonsu; Kim, Jong-Il; Ohashi, Jun; Tokunaga, Katsushi; Sugano, Sumio; Fucharoen, Suthat; Al-Mulla, Fahd (1 May 2020). "The Origin and Composition of Korean Ethnicity Analyzed by Ancient and Present-Day Genome Sequences". Genome Biology and Evolution. 12 (5): 553–565. doi:10.1093/gbe/evaa062. ISSN 1759-6653. PMC 7250502. PMID 32219389.

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