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Raptor genomes reveal evolutionary signatures of predatory and nocturnal lifestyles.

Cho YS, Jun JH, Kim JA, Kim HM, Chung O, Kang SG, Park JY, Kim HJ, Kim S, Kim HJ, Jang JH, Na KJ, Kim J, Park SG, Lee HY, Manica A, Mindell DP, Fuchs J, Edwards JS, Weber JA, Witt CC, Yeo JH, Kim S, Bhak J.

Genome Biol. 2019 Aug 29;20(1):181. doi: 10.1186/s13059-019-1793-1.


The genome of the giant Nomura's jellyfish sheds light on the early evolution of active predation.

Kim HM, Weber JA, Lee N, Park SG, Cho YS, Bhak Y, Lee N, Jeon Y, Jeon S, Luria V, Karger A, Kirschner MW, Jo YJ, Woo S, Shin K, Chung O, Ryu JC, Yim HS, Lee JH, Edwards JS, Manica A, Bhak J, Yum S.

BMC Biol. 2019 Mar 29;17(1):28. doi: 10.1186/s12915-019-0643-7.


The Draft Genome of an Octocoral, Dendronephthya gigantea.

Jeon Y, Park SG, Lee N, Weber JA, Kim HS, Hwang SJ, Woo S, Kim HM, Bhak Y, Jeon S, Lee N, Jo Y, Blazyte A, Ryu T, Cho YS, Kim H, Lee JH, Yim HS, Bhak J, Yum S.

Genome Biol Evol. 2019 Mar 1;11(3):949-953. doi: 10.1093/gbe/evz043.


The Galleria mellonella Hologenome Supports Microbiota-Independent Metabolism of Long-Chain Hydrocarbon Beeswax.

Kong HG, Kim HH, Chung JH, Jun J, Lee S, Kim HM, Jeon S, Park SG, Bhak J, Ryu CM.

Cell Rep. 2019 Feb 26;26(9):2451-2464.e5. doi: 10.1016/j.celrep.2019.02.018.


Brca2 abrogation engages with the alternative lengthening of telomeres via break-induced replication.

Kwon MS, Lee JJ, Min J, Hwang K, Park SG, Kim EH, Kim BC, Bhak J, Lee H.

FEBS J. 2019 May;286(10):1841-1858. doi: 10.1111/febs.14796. Epub 2019 Mar 12.


Comparison of exercise electrocardiography and magnetocardiography for detection of coronary artery disease using ST-segment fluctuation score.

Shin ES, Chung JH, Gu Park S, Saleh A, Lam YY, Bhak J, Jung F, Morita S, Brachmann J.

Clin Hemorheol Microcirc. 2019 Feb 8. doi: 10.3233/CH-180485. [Epub ahead of print]


Investigation of Hanwoo-specific structural variations using whole-genome sequencing data.

Park J, Shin W, Mun S, Oh MH, Lim D, Oh DY, Bhak Y, Bhak J, Park YS, Han K.

Genes Genomics. 2019 Feb;41(2):233-240. doi: 10.1007/s13258-018-0772-3. Epub 2018 Dec 8.


Grading system for periodontitis by analyzing levels of periodontal pathogens in saliva.

Kim EH, Joo JY, Lee YJ, Koh JK, Choi JH, Shin Y, Cho J, Park E, Kang J, Lee K, Bhak J, Kim BC, Lee JY.

PLoS One. 2018 Nov 26;13(11):e0200900. doi: 10.1371/journal.pone.0200900. eCollection 2018.


Magnetocardiography scoring system to predict the presence of obstructive coronary artery disease.

Shin ES, Park SG, Saleh A, Lam YY, Bhak J, Jung F, Morita S, Brachmann J.

Clin Hemorheol Microcirc. 2018;70(4):365-373. doi: 10.3233/CH-189301.


Whole genome sequencing and bioinformatics analysis of two Egyptian genomes.

ElHefnawi M, Jeon S, Bhak Y, ElFiky A, Horaiz A, Jun J, Kim H, Bhak J.

Gene. 2018 Aug 20;668:129-134. doi: 10.1016/j.gene.2018.05.048. Epub 2018 May 25.


Genomic analysis reveals secondary glioblastoma after radiotherapy in a subset of recurrent medulloblastomas.

Phi JH, Park AK, Lee S, Choi SA, Baek IP, Kim P, Kim EH, Park HC, Kim BC, Bhak J, Park SH, Lee JY, Wang KC, Kim DS, Shim KW, Kim SH, Kim CY, Kim SK.

Acta Neuropathol. 2018 Jun;135(6):939-953. doi: 10.1007/s00401-018-1845-8. Epub 2018 Apr 11.


KoVariome: Korean National Standard Reference Variome database of whole genomes with comprehensive SNV, indel, CNV, and SV analyses.

Kim J, Weber JA, Jho S, Jang J, Jun J, Cho YS, Kim HM, Kim H, Kim Y, Chung O, Kim CG, Lee H, Kim BC, Han K, Koh I, Chae KS, Lee S, Edwards JS, Bhak J.

Sci Rep. 2018 Apr 4;8(1):5677. doi: 10.1038/s41598-018-23837-x.


Sequencing and analysis of the whole genome of Indian Gujarati male.

Almal S, Jeon S, Agarwal M, Patel S, Patel S, Bhak Y, Jun J, Bhak J, Padh H.

Genomics. 2019 Mar;111(2):196-204. doi: 10.1016/j.ygeno.2018.02.003. Epub 2018 Feb 10.


Genomic structure of the native inhabitants of Peninsular Malaysia and North Borneo suggests complex human population history in Southeast Asia.

Yew CW, Lu D, Deng L, Wong LP, Ong RT, Lu Y, Wang X, Yunus Y, Aghakhanian F, Mokhtar SS, Hoque MZ, Voo CL, Abdul Rahman T, Bhak J, Phipps ME, Xu S, Teo YY, Kumar SV, Hoh BP.

Hum Genet. 2018 Feb;137(2):161-173. doi: 10.1007/s00439-018-1869-0. Epub 2018 Jan 30.


Corrigendum: An ethnically relevant consensus Korean reference genome is a step towards personal reference genomes.

Cho YS, Kim H, Kim HM, Jho S, Jun J, Lee YJ, Chae KS, Kim CG, Kim S, Eriksson A, Edwards JS, Lee S, Kim BC, Manica A, Oh TK, Church GM, Bhak J.

Nat Commun. 2017 Oct 9;8:16168. doi: 10.1038/ncomms16168.


Myotis rufoniger genome sequence and analyses: M. rufoniger's genomic feature and the decreasing effective population size of Myotis bats.

Bhak Y, Jeon Y, Jeon S, Chung O, Jho S, Jun J, Kim HM, Cho Y, Yoon C, Lee S, Kang JH, Lim JD, An J, Cho YS, Ryu DY, Bhak J.

PLoS One. 2017 Jul 5;12(7):e0180418. doi: 10.1371/journal.pone.0180418. eCollection 2017.


Genome-wide data from two early Neolithic East Asian individuals dating to 7700 years ago.

Siska V, Jones ER, Jeon S, Bhak Y, Kim HM, Cho YS, Kim H, Lee K, Veselovskaya E, Balueva T, Gallego-Llorente M, Hofreiter M, Bradley DG, Eriksson A, Pinhasi R, Bhak J, Manica A.

Sci Adv. 2017 Feb 1;3(2):e1601877. doi: 10.1126/sciadv.1601877. eCollection 2017 Feb.


Analysis of the FGF gene family provides insights into aquatic adaptation in cetaceans.

Nam K, Lee KW, Chung O, Yim HS, Cha SS, Lee SW, Jun J, Cho YS, Bhak J, Magalhães JP, Lee JH, Jeong JY.

Sci Rep. 2017 Jan 11;7:40233. doi: 10.1038/srep40233.


Genomes of coral dinoflagellate symbionts highlight evolutionary adaptations conducive to a symbiotic lifestyle.

Aranda M, Li Y, Liew YJ, Baumgarten S, Simakov O, Wilson MC, Piel J, Ashoor H, Bougouffa S, Bajic VB, Ryu T, Ravasi T, Bayer T, Micklem G, Kim H, Bhak J, LaJeunesse TC, Voolstra CR.

Sci Rep. 2016 Dec 22;6:39734. doi: 10.1038/srep39734.


An ethnically relevant consensus Korean reference genome is a step towards personal reference genomes.

Cho YS, Kim H, Kim HM, Jho S, Jun J, Lee YJ, Chae KS, Kim CG, Kim S, Eriksson A, Edwards JS, Lee S, Kim BC, Manica A, Oh TK, Church GM, Bhak J.

Nat Commun. 2016 Nov 24;7:13637. doi: 10.1038/ncomms13637. Erratum in: Nat Commun. 2017 Oct 09;8:16168.


Comparison of carnivore, omnivore, and herbivore mammalian genomes with a new leopard assembly.

Kim S, Cho YS, Kim HM, Chung O, Kim H, Jho S, Seomun H, Kim J, Bang WY, Kim C, An J, Bae CH, Bhak Y, Jeon S, Yoon H, Kim Y, Jun J, Lee H, Cho S, Uphyrkina O, Kostyria A, Goodrich J, Miquelle D, Roelke M, Lewis J, Yurchenko A, Bankevich A, Cho J, Lee S, Edwards JS, Weber JA, Cook J, Kim S, Lee H, Manica A, Lee I, O'Brien SJ, Bhak J, Yeo JH.

Genome Biol. 2016 Oct 11;17(1):211.


An adaptive detection method for fetal chromosomal aneuploidy using cell-free DNA from 447 Korean women.

Kim S, Jung H, Han SH, Lee S, Kwon J, Kim MG, Chu H, Han K, Kwak H, Park S, Joo HJ, An M, Ha J, Lee K, Kim BC, Zheng H, Zhu X, Chen H, Bhak J.

BMC Med Genomics. 2016 Oct 3;9(1):61.


Short-term calorie restriction ameliorates genomewide, age-related alterations in DNA methylation.

Kim CH, Lee EK, Choi YJ, An HJ, Jeong HO, Park D, Kim BC, Yu BP, Bhak J, Chung HY.

Aging Cell. 2016 Dec;15(6):1074-1081. doi: 10.1111/acel.12513. Epub 2016 Aug 25.


The genetics of an early Neolithic pastoralist from the Zagros, Iran.

Gallego-Llorente M, Connell S, Jones ER, Merrett DC, Jeon Y, Eriksson A, Siska V, Gamba C, Meiklejohn C, Beyer R, Jeon S, Cho YS, Hofreiter M, Bhak J, Manica A, Pinhasi R.

Sci Rep. 2016 Aug 9;6:31326. doi: 10.1038/srep31326.


RNA-Seq analysis reveals new evidence for inflammation-related changes in aged kidney.

Park D, Kim BC, Kim CH, Choi YJ, Jeong HO, Kim ME, Lee JS, Park MH, Chung KW, Kim DH, Lee J, Im DS, Yoon S, Lee S, Yu BP, Bhak J, Chung HY.

Oncotarget. 2016 May 24;7(21):30037-48. doi: 10.18632/oncotarget.9152.


Comparison of two high-throughput semiconductor chip sequencing platforms in noninvasive prenatal testing for Down syndrome in early pregnancy.

Kim S, Jung H, Han SH, Lee S, Kwon J, Kim MG, Chu H, Chen H, Han K, Kwak H, Park S, Joo HJ, Kim BC, Bhak J.

BMC Med Genomics. 2016 Apr 30;9(1):22. doi: 10.1186/s12920-016-0182-9.


Genomic legacy of the African cheetah, Acinonyx jubatus.

Dobrynin P, Liu S, Tamazian G, Xiong Z, Yurchenko AA, Krasheninnikova K, Kliver S, Schmidt-Küntzel A, Koepfli KP, Johnson W, Kuderna LF, García-Pérez R, Manuel Md, Godinez R, Komissarov A, Makunin A, Brukhin V, Qiu W, Zhou L, Li F, Yi J, Driscoll C, Antunes A, Oleksyk TK, Eizirik E, Perelman P, Roelke M, Wildt D, Diekhans M, Marques-Bonet T, Marker L, Bhak J, Wang J, Zhang G, O'Brien SJ.

Genome Biol. 2015 Dec 10;16:277. doi: 10.1186/s13059-015-0837-4.


The first whole genome and transcriptome of the cinereous vulture reveals adaptation in the gastric and immune defense systems and possible convergent evolution between the Old and New World vultures.

Chung O, Jin S, Cho YS, Lim J, Kim H, Jho S, Kim HM, Jun J, Lee H, Chon A, Ko J, Edwards J, Weber JA, Han K, O'Brien SJ, Manica A, Bhak J, Paek WK.

Genome Biol. 2015 Oct 21;16:215. doi: 10.1186/s13059-015-0780-4.


Ancient Ethiopian genome reveals extensive Eurasian admixture throughout the African continent.

Gallego Llorente M, Jones ER, Eriksson A, Siska V, Arthur KW, Arthur JW, Curtis MC, Stock JT, Coltorti M, Pieruccini P, Stretton S, Brock F, Higham T, Park Y, Hofreiter M, Bradley DG, Bhak J, Pinhasi R, Manica A.

Science. 2015 Nov 13;350(6262):820-2. doi: 10.1126/science.aad2879. Epub 2015 Oct 8. Erratum in: Science. 2016 Feb 19;351(6275). pii: aaf3945. doi: 10.1126/science.aaf3945.


Profiling age-related epigenetic markers of stomach adenocarcinoma in young and old subjects.

Kim BC, Jeong HO, Park D, Kim CH, Lee EK, Kim DH, Im E, Kim ND, Lee S, Yu BP, Bhak J, Chung HY.

Cancer Inform. 2015 Apr 20;14:47-54. doi: 10.4137/CIN.S16912. eCollection 2015.


SLC15A2 genomic variation is associated with the extraordinary response of sorafenib treatment: whole-genome analysis in patients with hepatocellular carcinoma.

Lee YS, Kim BH, Kim BC, Shin A, Kim JS, Hong SH, Hwang JA, Lee JA, Nam S, Lee SH, Bhak J, Park JW.

Oncotarget. 2015 Jun 30;6(18):16449-60.


Whole genome sequencing of an ethnic Pathan (Pakhtun) from the north-west of Pakistan.

Ilyas M, Kim JS, Cooper J, Shin YA, Kim HM, Cho YS, Hwang S, Kim H, Moon J, Chung O, Jun J, Rastogi A, Song S, Ko J, Manica A, Rahman Z, Husnain T, Bhak J.

BMC Genomics. 2015 Mar 12;16:172. doi: 10.1186/s12864-015-1290-1.


Genome-wide analysis of DNA methylation before-and after exercise in the thoroughbred horse with MeDIP-Seq.

Gim JA, Hong CP, Kim DS, Moon JW, Choi Y, Eo J, Kwon YJ, Lee JR, Jung YD, Bae JH, Choi BH, Ko J, Song S, Ahn K, Ha HS, Yang YM, Lee HK, Park KD, Do KT, Han K, Yi JM, Cha HJ, Ayarpadikannan S, Cho BW, Bhak J, Kim HS.

Mol Cells. 2015 Mar;38(3):210-20. doi: 10.14348/molcells.2015.2138. Epub 2015 Jan 30.


HEpD: a database describing epigenetic differences between Thoroughbred and Jeju horses.

Gim JA, Lee S, Kim DS, Jeong KS, Hong CP, Bae JH, Moon JW, Choi YS, Cho BW, Cho HG, Bhak J, Kim HS.

Gene. 2015 Apr 10;560(1):83-8. doi: 10.1016/j.gene.2015.01.047. Epub 2015 Jan 28.


Insights into the evolution of longevity from the bowhead whale genome.

Keane M, Semeiks J, Webb AE, Li YI, Quesada V, Craig T, Madsen LB, van Dam S, Brawand D, Marques PI, Michalak P, Kang L, Bhak J, Yim HS, Grishin NV, Nielsen NH, Heide-Jørgensen MP, Oziolor EM, Matson CW, Church GM, Stuart GW, Patton JC, George JC, Suydam R, Larsen K, López-Otín C, O'Connell MJ, Bickham JW, Thomsen B, de Magalhães JP.

Cell Rep. 2015 Jan 6;10(1):112-22. doi: 10.1016/j.celrep.2014.12.008.


Whole genome sequence and analysis of the Marwari horse breed and its genetic origin.

Jun J, Cho YS, Hu H, Kim HM, Jho S, Gadhvi P, Park KM, Lim J, Paek WK, Han K, Manica A, Edwards JS, Bhak J.

BMC Genomics. 2014;15 Suppl 9:S4. doi: 10.1186/1471-2164-15-S9-S4. Epub 2014 Dec 8.


The feasibility study of non-invasive fetal trisomy 18 and 21 detection with semiconductor sequencing platform.

Jeon YJ, Zhou Y, Li Y, Guo Q, Chen J, Quan S, Zhang A, Zheng H, Zhu X, Lin J, Xu H, Wu A, Park SG, Kim BC, Joo HJ, Chen H, Bhak J.

PLoS One. 2014 Oct 20;9(10):e110240. doi: 10.1371/journal.pone.0110240. eCollection 2014.


New lung cancer panel for high-throughput targeted resequencing.

Kim EH, Lee S, Park J, Lee K, Bhak J, Kim BC.

Genomics Inform. 2014 Jun;12(2):50-7. doi: 10.5808/GI.2014.12.2.50. Epub 2014 Jun 30.


Genome-wide analysis of DNA methylation patterns in horse.

Lee JR, Hong CP, Moon JW, Jung YD, Kim DS, Kim TH, Gim JA, Bae JH, Choi Y, Eo J, Kwon YJ, Song S, Ko J, Yang YM, Lee HK, Park KD, Ahn K, Do KT, Ha HS, Han K, Yi JM, Cha HJ, Cho BW, Bhak J, Kim HS.

BMC Genomics. 2014 Jul 15;15:598. doi: 10.1186/1471-2164-15-598.


Whole-genome analysis of a patient with early-stage small-cell lung cancer.

Han JY, Lee YS, Kim BC, Lee GK, Lee S, Kim EH, Kim HM, Bhak J.

Pharmacogenomics J. 2014 Dec;14(6):503-8. doi: 10.1038/tpj.2014.17. Epub 2014 Apr 8.


Identification and characterization of microRNAs in normal equine tissues by Next Generation Sequencing.

Kim MC, Lee SW, Ryu DY, Cui FJ, Bhak J, Kim Y.

PLoS One. 2014 Apr 2;9(4):e93662. doi: 10.1371/journal.pone.0093662. eCollection 2014.


Genomic profile analysis of diffuse-type gastric cancers.

Lee YS, Cho YS, Lee GK, Lee S, Kim YW, Jho S, Kim HM, Hong SH, Hwang JA, Kim SY, Hong D, Choi IJ, Kim BC, Kim BC, Kim CH, Choi H, Kim Y, Kim KW, Kong G, Kim HL, Bhak J, Lee SH, Lee JS.

Genome Biol. 2014 Apr 1;15(4):R55. doi: 10.1186/gb-2014-15-4-r55.


PPP1R1B-STARD3 chimeric fusion transcript in human gastric cancer promotes tumorigenesis through activation of PI3K/AKT signaling.

Yun SM, Yoon K, Lee S, Kim E, Kong SH, Choe J, Kang JM, Han TS, Kim P, Choi Y, Jho S, Yoo H, Bhak J, Yang HK, Kim SJ.

Oncogene. 2014 Nov 13;33(46):5341-7. doi: 10.1038/onc.2013.472. Epub 2013 Nov 25.


Minke whale genome and aquatic adaptation in cetaceans.

Yim HS, Cho YS, Guang X, Kang SG, Jeong JY, Cha SS, Oh HM, Lee JH, Yang EC, Kwon KK, Kim YJ, Kim TW, Kim W, Jeon JH, Kim SJ, Choi DH, Jho S, Kim HM, Ko J, Kim H, Shin YA, Jung HJ, Zheng Y, Wang Z, Chen Y, Chen M, Jiang A, Li E, Zhang S, Hou H, Kim TH, Yu L, Liu S, Ahn K, Cooper J, Park SG, Hong CP, Jin W, Kim HS, Park C, Lee K, Chun S, Morin PA, O'Brien SJ, Lee H, Kimura J, Moon DY, Manica A, Edwards J, Kim BC, Kim S, Wang J, Bhak J, Lee HS, Lee JH.

Nat Genet. 2014 Jan;46(1):88-92. doi: 10.1038/ng.2835. Epub 2013 Nov 24.


Whole genome comparison of donor and cloned dogs.

Kim HM, Cho YS, Kim H, Jho S, Son B, Choi JY, Kim S, Lee BC, Bhak J, Jang G.

Sci Rep. 2013 Oct 21;3:2998. doi: 10.1038/srep02998.


The tiger genome and comparative analysis with lion and snow leopard genomes.

Cho YS, Hu L, Hou H, Lee H, Xu J, Kwon S, Oh S, Kim HM, Jho S, Kim S, Shin YA, Kim BC, Kim H, Kim CU, Luo SJ, Johnson WE, Koepfli KP, Schmidt-Küntzel A, Turner JA, Marker L, Harper C, Miller SM, Jacobs W, Bertola LD, Kim TH, Lee S, Zhou Q, Jung HJ, Xu X, Gadhvi P, Xu P, Xiong Y, Luo Y, Pan S, Gou C, Chu X, Zhang J, Liu S, He J, Chen Y, Yang L, Yang Y, He J, Liu S, Wang J, Kim CH, Kwak H, Kim JS, Hwang S, Ko J, Kim CB, Kim S, Bayarlkhagva D, Paek WK, Kim SJ, O'Brien SJ, Wang J, Bhak J.

Nat Commun. 2013;4:2433. doi: 10.1038/ncomms3433.


iAnn: an event sharing platform for the life sciences.

Jimenez RC, Albar JP, Bhak J, Blatter MC, Blicher T, Brazas MD, Brooksbank C, Budd A, De Las Rivas J, Dreyer J, van Driel MA, Dunn MJ, Fernandes PL, van Gelder CW, Hermjakob H, Ioannidis V, Judge DP, Kahlem P, Korpelainen E, Kraus HJ, Loveland J, Mayer C, McDowall J, Moran F, Mulder N, Nyronen T, Rother K, Salazar GA, Schneider R, Via A, Villaveces JM, Yu P, Schneider MV, Attwood TK, Corpas M.

Bioinformatics. 2013 Aug 1;29(15):1919-21. doi: 10.1093/bioinformatics/btt306. Epub 2013 Jun 5.


Comprehensive genome- and transcriptome-wide analyses of mutations associated with microsatellite instability in Korean gastric cancers.

Yoon K, Lee S, Han TS, Moon SY, Yun SM, Kong SH, Jho S, Choe J, Yu J, Lee HJ, Park JH, Kim HM, Lee SY, Park J, Kim WH, Bhak J, Yang HK, Kim SJ.

Genome Res. 2013 Jul;23(7):1109-17. doi: 10.1101/gr.145706.112. Epub 2013 Jun 4.


The genetic basis of white tigers.

Xu X, Dong GX, Hu XS, Miao L, Zhang XL, Zhang DL, Yang HD, Zhang TY, Zou ZT, Zhang TT, Zhuang Y, Bhak J, Cho YS, Dai WT, Jiang TJ, Xie C, Li R, Luo SJ.

Curr Biol. 2013 Jun 3;23(11):1031-5. doi: 10.1016/j.cub.2013.04.054. Epub 2013 May 23.

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