Publications

From TaejoonLab
Jump to: navigation, search

(* or #: equally contributed authors)

2017

  1. Kwon T (2017), AmphiBase: A new genomic resource for non-model amphibian species, Genesis, 55:e23010 (PMID: 28095648) DOI Link
  2. Lee SY, Kang MG, Shin S, Kwak C, Kwon T, Seo JK, Kim JS, Rhee HW (2017), Architecture Mapping of the Inner Mitochondrial Membrane Proteome by Chemical Tools in Live Cells, J Am Chem Soc., 139(10):3651-3662 (PMID: 28156110) DOI Link
  3. Chae S, Lee HK, Kim YK, Jung Sim H, Ji Y, Kim C, Ismail T, Park JW, Kwon OS, Kang BS, Lee DS, Bae JS, Kim SH, Min KJ, Kyu Kwon T, Park MJ, Han JK, Kwon T, Park TJ, Lee HS (2017), Peroxiredoxin1, a novel regulator of pronephros development, influences retinoic acid and Wnt signaling by controlling ROS levels, Sci Rep., 27(1):8874 (PMID: 28827763) DOI Link

2016

  1. Session AM*, Uno Y*, Kwon T*, Chapman JA, Toyoda A, Takahashi S, Fukui A, Hikosaka A, Suzuki A, Kondo M, van Heeringen SJ, Quigley I, Heinz S, Ogino H, Ochi H, Hellsten U, Lyons JB, Simakov O, Putnam N, Stites J, Kuroki Y, Tanaka T, Michiue T, Watanabe M, Bogdanovic O, Lister R, Georgiou G, Paranjpe SS, van Kruijsbergen I, Shu S, Carlson J, Kinoshita T, Ohta Y, Mawaribuchi S, Jenkins J, Grimwood J, Schmutz J, Mitros T, Mozaffari SV, Suzuki Y, Haramoto Y, Yamamoto TS, Takagi C, Heald R, Miller K, Haudenschild C, Kitzman J, Nakayama T, Izutsu Y, Robert J, Fortriede J, Burns K, Lotay V, Karimi K, Yasuoka Y, Dichmann DS, Flajnik MF, Houston DW, Shendure J, DuPasquier L, Vize PD, Zorn AM, Ito M, Marcotte EM, Wallingford JB, Ito Y, Asashima M, Ueno N, Matsuda Y, Veenstra GJ, Fujiyama A, Harland RM, Taira M, Rokhsar DS. (2016), Genome evolution in the allotetraploid frog Xenopus laevis., Nature, 538(7625):336-343 (PMID: 27762356) DOI Link (See XenopusLaevisGenomeArticles for more news and articles related to this paper.)
  2. LEE S-Y, Lee H, Lee H-K, Lee S-W, Ha SC, Kwon T, Seo JK, Lee C, Rhee H-W (2016), Proximity-Directed Labeling Reveals a New Rapamycin-Induced Heterodimer of FKBP25 and FRB in Live Cells, ACS Central Sci., 2(8):506–516 (PMID: 27610411) DOI Link
  3. Popov IK, Kwon T, Crossman DK, Crowley MR, Wallingford JB, Chang C (2016), Identification of new regulators of embryonic patterning and morphogenesis in Xenopus gastrulae by RNA sequencing, Dev. Biol., 426(2):429-441 (PMID: 27209239) DOI Link
  4. Teperek M, Simeone A, Gaggioli V, Miyamoto K, Allen G, Erkek S, Kwon T, Marcotte EM, Zegerman P, Bradshaw CR, Peters AHFM, Gurdon JB, Jullien J (2016), Sperm is epigenetically programmed to regulate gene transcription in embryos, Genome Res., 26:1034-1046 (PMID: 27034506) DOI Link

2015

  1. Murray JL, Kwon T, Marcotte EM, Whiteley M (2015), Intrinsic antimicrobial resistance determinants in the superbug Pseudomonas aeruginosa, mBio, 6(6):e01603-15 (PMID: 26507235) DOI Link
  2. Kwon T (2015), Benchmarking Transcriptome Quantification Methods for Duplicated Genes in Xenopus laevis, Cytogenet Genome Res, 145(3-4):253-64 (PMID: 26112470) DOI Link
  3. Evans B, Kwon T (2015), Molecular Polymorphism and Divergence of Duplicated Genes in Tetraploid African Clawed Frogs (Xenopus), Cytogenet Genome Res), 145(3-4):243-52 (PMID: 26066830) DOI Link
  4. Turk E, Wills AA, Kwon T, Sedzinski T, Wallingford JB, Stearns T (2015), Zeta-tubulin is a member of a conserved tubulin module and is a component of the centriolar basal foot in multiciliated cells, Current Biol., 25(16):2177-2183 (PMID: 26234217) DOI Link

Before 2015

  1. Kwon T, Huse HK, Vogel C, Whiteley M, Marcotte EM (2014), Protein-to-mRNA ratios are conserved between Pseudomonas aeruginosa strains, Journal of Proteome Research, 13(5):2370–2380 (PMID: 24742327) DOI Link
  2. Kwon T*, Chung M-I*, Gupta R, Baker JC, Marcotte EM, Wallingford JB (2014), Identifying direct target of transcription factor Rfx2 that coordinate ciliogenesis and cell movement, Genomics Data, 2:192-194 DOI Link
  3. Chung M-I*, Kwon T*, Gupta R, Baker JC, Marcotte EM, Wallingford JB (2014), Coordinated genomic control of ciliogenesis and cell movement by Rfx2, eLife, 3:e01439 (PMID: 24424412) DOI Link
  4. Gerster S, Kwon T, Ludwig C, Matondo M, Vogel C, Marcotte EM, Aebersold R, Bühlmann P (2013), Statistical approach to protein quantification, Mol. Cell. Proteomics, 13(2):666-77 (PMID: 24255132)
  5. Huse HK, Kwon T, Zlosnik JEA, Speert DP, Marcotte EM, Whiteley M (2013), An evolutionary approach to identify adaptive traits in a chronic pathoge, PLoS ONE, 8(12):e82621 (PMID: 24324811)
  6. Woods S*, Coghlan A*, Rivers D*, Warnecke T*, Jeffries SJ, Kwon T, Rogers A, Hurst LD, Ahringer J (2013), Duplication and retention biases of essential and non-essential genes revealed by systematic knockdown analyses, PLoS Genetics, 9(5):e1003330 (PMID: 23675306)
  7. Wessel AK, Liew J, Kwon T, Marcotte EM, Whiteley M (2013), The role of Pseudomonas aeruginosa peptidoglycan-associated outer membrane proteins in vesicle biogenesis, Journal of Bacteriology, 195(2):213-219 (PMID: 23123904)
  8. Uribe RA, Kwon T, Marcotte EM, Gross JM (2012), Id2a functions to limit Notch pathway activity and thereby influence retinoblast proliferation to differentiation during zebrafish retinogenesis, Developmental Biology, 371(2):280-292 (PMID: 22981606)
  9. Kwon T*, Choi H*, Vogel C, Nesvizhskii AI, Marcotte EM (2011), MSblender: a probabilistic approach for integrating peptide identifications from multiple database search engines., Journal of Proteome Research, 10(7):2949-58 (PMID: 21488652)
  10. Huse HK*, Kwon T*, Zlosnik JEA, Speert DP, Marcotte EM, Whiteley M (2010), Parallel evolution in Pseudomonas aeruginosa over 39,000 generations in vivo, mBio, 1(4):e00199-10 (PMID: 20856824) (Covered by Science News, Oct. 2010; mBio ‘Our Most Read Paper’ of May 2012.)
  11. Laurent J*, Vogel C*, Kwon T, Craig SA, Boutz DR, Huse HK, Nozue K, Walia H, Whiteley M, Ronald PC, Marcotte EM (2010), Protein abundances are more conserved than mRNA abundances across diverse taxa, Proteomics, 10(23):4209-12 (PMID: 21089048)
  12. Ramakrishnan SR, Vogel C, Kwon T, Penalva LO, Marcotte EM, Miranker DP (2009), Mining gene functional networks to improve mass-spectrometry based protein identification, Bioinformatics, 25(22):2955-2961 (PMID: 19633097)

Patents (Granted)

  1. Tae-Joon Kwon, Kyu-Sang Lee, Ji-young Oh, Method of designing primer and probe sets, primer and probe set designed by the method, kit comprising the sets, computer readable medium recorded thereon program to execute the method, and method of identifying target sequence using the sets (US7657382 B2; US20060204996 A1)
  2. Tae-Joon Kwon, Method of designing probe set, microarray using it, and computer readable medium with a program for executing the said method (US7657381 B2; US20060058967 A1)

  1. Taejoon Kwon, System for designing probe array using heterogeneneousgenomic information and method of the same (등록번호 1005060890000)
  2. Taejoon Kwon, Method for designing a probe set, a microarray havinga substrate immobilized thereon a probe designed bythe method and a computer readable medium recordedthereon a program to execute the method (등록번호 1006828910000)
  3. Taejoon Kwon, A microarray having microarray identificationinformation stored in the form of a spot, method ofproducing the microarray and method of using themicroarray (등록번호 1006244200000)
  4. Taejoon Kwon, Kyusang Lee, Ji-Young Oh, Method for designing primer and probe set, primer and probe set designed by the method, kit comprising the set, computer readable medium recorded thereon a program to execute the method, and method for identifying targetsequence using the set (등록번호 1011388640000)
  5. Ji-Young Oh, Kyusang Lee, Taejoon Kwon, Method for designing probe set, probe set designed bythe method, microarray comprising the probe set, andmethod for identifying target sequence using the probeset (등록번호 1004748400000)

Patents (Applied)

  1. Ji-young Oh, Kyu-Sang Lee, Tae-Joon Kwon, Method of designing probe set, probe set designed by the method, microarray comprising the probe set, computer readable medium recorded thereon program to execute the method, and method of identifying target sequence using the probe set (US20060204995 A1)
  2. Tae-Joon Kwon, Microarray having microarray identification information stored in the form of a spot, method of producing the microarray and method of using the microarray, (US20050227271 A1)
  3. Taejoon Kwon, Storage unit stores a crosslink map having records according to the version of a genome sequence; information searching and location estimation (US20040157254 A1)
  4. Tae-Joon Kwon, Computer database for use as diagnostic tool in genetic analysis (US20030092053 A1)