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Pubmed search: Kim, Sanguk [Full Author Name]

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Google scholar: Sanguk Kim

설명: 설명: 설명: 설명: 설명: 설명: 설명: cid:ii_1387300a37ab5371

 

114:

Lee JJ, Kang HJ, Kim D, Lim SO, Kim SS, Kim G, Kim S*, Lee JK*, Kim J*.

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expHRD: an individualized, transcriptome-based prediction model for homologous recombination deficiency assessment in cancer.BMC Bioinformatics. 2024 Jul 12;25(1):236. doi: 10.1186/s12859-024-05854-y.

 
113:

Sharma G, Sharma A, Kim I, Cha DG, Kim S, Park ES, Noh JG, Lee J, Ku JH, Choi YH, Kong J, Lee H, Ko H, Lee J, Notaro A, Hong SH, Rhee JH, Kim SG, De Castro C, Molinaro A, Shin K, Kim S, Kim JK, Rudra D, Im SH.

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A dietary commensal microbe enhances antitumor immunity by activating tumor macrophages to sequester iron.Nat Immunol. 2024 Apr 25. doi: 10.1038/s41590-024-01816-x. Online ahead of print.
PMID: 38664585

 
112:

Keum BR, Kim HJ, Lee J, Lee M, Hong SH, Chang HK, Han JK, Kim S, Chang DG, Kim GH.

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Heterogeneous osteoimmune profiles via single-cell transcriptomics in osteoporotic patients who fail bisphosphonate treatment.Proc Natl Acad Sci U S A. 2024 Feb 20;121(8):e2316871121. doi: 10.1073/pnas.2316871121. Epub 2024 Feb 12. PMID: 38346184

 
111:

Lee J, Kim D, Kong J, Ha D, Kim I, Park M, Lee K, Im SH, Kim S.

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Cell-cell communication network-based interpretable machine learning predicts cancer patient response to immune checkpoint inhibitors.Sci Adv. 2024 Feb 2;10(5):eadj0785. doi: 10.1126/sciadv.adj0785. Epub 2024 Jan 31.PMID: 38295179

 
110:

Han SK, Kwon HC, Yang JS, Kim S, Lee SV.

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OASIS portable: user-friendly offline suite for secure survival analysis.Mol Cells. 2024 Jan 17:100011. doi: 10.1016/j.mocell.2024.100011. Online ahead of print.PMID: 38242235 Free article.

 

109:

Semjid D+, Ahn H+, Bayarmagnai S, Kim S*, Lee JH*.
+Co-first authors * Corresponding authors

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Identification of novel candidate genes associated with non-syndromic tooth agenesis in Mongolian families.Clin Oral Investig. 2023 Dec 29;28(1):56. doi: 10.1007/s00784-023-05415-2.

 
108:

Lee S+, Ahn H+, Kim H, Kim S*, Lee JH*.
+Co-first authors * Corresponding authors

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Identification of potential key variants in mandibular premolar hypodontia through whole-exome sequencing.Front Genet. 2023 Sep 8;14:1248326. doi: 10.3389/fgene.2023.1248326. eCollection 2023.PMID: 37745851 Free PMC article.

 
107:

Park M, Kim D, Kim I, Im SH, Kim S.

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Drug approval prediction based on the discrepancy in gene perturbation effects between cells and humans.EBioMedicine. 2023 Jul 13;94:104705. doi: 10.1016/j.ebiom.2023.104705. Online ahead of print.
PMID: 37453362

 
106:

Kong J, Kim J, Kim D, Lee K, Han SK, Kim I, Lim S, Park M, Shin S, Lee WY, Yun SH, Kim HC, Hong HK, Cho YB, Park D, Kim S.

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Information about immune cell proportions and tumor stage improves the prediction of recurrence in patients with colorectal cancer.Patterns (N Y). 2023 Apr 20;4(6):100736. doi: 10.1016/j.patter.2023.100736.
eCollection 2023 Jun 9.
PMID: 37409049
 Free PMC article.

 
105:

Kim D, Ha D, Lee K, Lee H, Kim I, Kim S.

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An evolution-based machine learning to identify cancer type-specific driver mutations.Brief Bioinform. 2023 Jan 19;24(1):bbac593. doi: 10.1093/bib/bbac593.PMID: 36575568.

 
104:

Ha D, Kong J, Kim D, Lee K, Lee J, Park M, Ahn H, Oh Y, Kim S

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Development of bioinformatics and multi-omics analyses in organoids.BMB Rep. 2023 Jan;56(1):43-48. doi: 10.5483/BMBRep.2022-0155.PMID: 36284440 Free PMC article. Review.

 

103:

J.Sieger, F.Brummer, H. Ahn, G. Lee, S.Kim & R.O.Schill

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Reduced ageing in the frozen state in the tardigrade Milnesium inceptum (Eutardigrada: Aprochela)Journal of Zoology 318.4 (2022) Dec: 253-259 doi:10.1111/jzo.13018

 
102:

Kim D, Kim J, Lee J, Han SK, Lee K, Kong J, Kim YJ, Lee WY, Yun SH, Kim HC, Hong HK, Cho YB, Park D, Kim S.

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Deconvolution of bulk tumors into distinct immune cell states predicts colorectal cancer recurrence.iScience. 2022 Oct 17;25(11):105392. doi: 10.1016/j.isci.2022.105392. eCollection 2022 Nov 18.PMID: 36345336

 
101:

Kim D, Noh MH, Park M, Kim I, Ahn H, Ye D-Y, Jung GY, Kim S.

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Enzyme activity engineering based on sequence co-evolution analysis.   Metab Eng. 2022 Sep 13;74:49-60. doi: 10.1016/j.ymben.2022.09.001.PMID: 36113751

 
100:

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Network-based machine learning approach to predict immunotherapy response in cancer patients.   Nat Commun. 2022 Jun 28;13(1):3703. doi: 10.1038/s41467-022-31535-6. PMID: 35764641

 

99:

+Co-first authors * Corresponding authors

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The implication of holocytochrome c synthase mutation in Korean familial hypoplastic amelogenesis imperfecta.Clin Oral Investig. 2022 Mar 3. doi: 10.1007/s00784-022-04413-0. Online ahead of print.PMID: 35243551

 

98:

Ha D, Kim D, Kim I, Oh Y, Kong J, Han SK, Kim S.

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Evolutionary rewiring of regulatory networks contributes to phenotypic differences between human and mouse orthologous genes.                                                                          

Nucleic Acids Res. 2022 Feb 28;50(4):1849-1863. doi: 10.1093/nar/gkac050.

PMID: 35137181

 

97:

Jung Y, Artan M, Kim N, Yeom J, Hwang AB, Jeong DE, Altintas Ö, Seo K, Seo M, Lee D, Hwang W, Lee Y, Sohn J, Kim EJE, Ju S, Han SK, Nam HJ, Adams L, Ryu Y, Moon DJ, Kang C, Yoo JY, Park SK, Ha CM, Hansen M, Kim S, Lee C, Park SY, Lee SV

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MON-2, a Golgi protein, mediates autophagy-dependent longevity in Caenorhabditis elegans. Sci Adv. 2021 Dec 3;7(49):eabj8156. doi: 10.1126/sciadv.abj8156. Epub 2021 Dec 3.PMID: 34860542

 

96:

Cho CH, Jang S, Choi BY, Hong D, Choi DS, Choi S, Kim H, Han SK, Kim S, Kim MS, Palmgren M, Sohn KH, Yoon HS, Lee Y

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Phylogenetic analysis of ABCG subfamily proteins in plants: functional clustering and coevolution with ABCGs of pathogens
Physiol Plant. 2021 Jul 1. doi: 10.1111/ppl.13052. [Epub ahead of print]
PMID:  31828796

 

95:

Kim E, Choi S, Kang B, Kong J, Kim Y, Yoon WH, Lee HR, Kim S, Kim HM, Lee H, Yang C, Lee YJ, Kang M, Roh TY, Jung S, Kim S, Ku JH, Shin K.

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Creation of bladder assembloids mimicking tissue regeneration and cancer.
Nature. 2020 Dec;588(7839):664-669. doi: 10.1038/s41586-020-3034-x. Epub 2020 Dec 16.
PMID: 33328632

 

94:

Kong J, Lee H, Kim D, Han SK, Ha D, Shin K, Kim S.

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Network-based machine learning in colorectal and bladder organoid models predicts anti-cancer drug efficacy in patients.
Nat Commun. 2020 Oct 30;11(1):5485. doi: 10.1038/s41467-020-19313-8.
PMID: 33127883

 

93:

Lee M, Lee E, Han SK, Choi YH, Kwon DI, Choi H, Lee K, Park ES, Rha MS, Joo DJ, Shin EC, Kim S, Kim JK, Lee YJ

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Single-cell RNA sequencing identifies shared differentiation paths of mouse thymic innate T cells.
Nat Commun. 2020 Aug 31;11(1):4367. doi: 10.1038/s41467-020-18155-8.
PMID: 32868763

 

92:

Yoe J, Kim D, Kim S, Lee Y

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Capicua restricts cancer stem cell-like properties in breast cancer cells
Oncogene. 2020 Feb 27. doi: 10.1038/s41388-020-1230-7. [Epub ahead of print]
PMID: 32108163

 

91:

Lee JS, Kim E, Lee J, Kim D, Kim H, Kim CJ, Kim S, Jeong D, Lee Y

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Capicua suppresses colorectal cancer progression via repression of ETV4 expression
Cancer Cell Int. 2020 Feb 5: doi: 10.1186/s12935-020-1111-8. eCollection 2020.
PMID: 32042269

 

90:

Lee H, Kim I, Han SK, Kim D, Kong J, Kim S

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Domain-mediated interactions for protein subfamily identification
Sci Rep. 2020 Jan 14: doi: 10.1038/s41598-019-57187-z
PMID: 31937869

 

89:

Kim I, Lee H, Lee K, Han SK, Kim D, Kim S

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Link clustering explains non-central and contextually essential genes in protein interaction networks
Sci Rep. 2019 Aug 12;9(1):11672. doi: 10.1038/s41598-019-48273-3
PMID: 31406201

 

88:

Kim HK, Jeon J, Song IS, Heo HJ, Jeong SH, Long LT, Thu VT, Ko TH, Kim M, Kim N, Lee SR, Yang JS, Kang MS, Ahn JM, Cho JY, Ko KS, Rhee BD, Nilius B, Ha NC, Shimizu I, Minamino T, Cho KI, Park YS*, Kim S*, Han J*
* Corresponding authors

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Tetrahydrobiopterin enhances mitochondrial biogenesis and cardiac contractility via stimulation of PGC1α signaling
Biochim Biophys Acta Mol Basis Dis. 2019 Aug 2. pii: S0925-4439(19)30241-8. doi: 10.1016/j.bbadis.2019.07.018. [Epub ahead of print]
PMID: 31381993

 

87:

Shen Q, Lee K, Han SK, Ahn HJ, Kim S, Lee JH

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Variants at potential loci associated with Sjogren's syndrome in Koreans: A genetic association study
Clin Immunol. 2019 Jul 23. pii: S1521-6616(19)30265-7. doi: 10.1016/j.clim.2019.07.010. [Epub ahead of print]
PMID: 31349012

 

86:

Kim D, Han SK, Lee K, Kim I, Kong J, Kim S

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Evolutionary coupling analysis identifies the impact of disease-associated variants at less-conserved sites
Nucleic Acids Res. 2019 Jun 14. pii: gkz536. doi: 10.1093/nar/gkz536. [Epub ahead of print]
PMID: 31199866

 

85:

Kim S, Kim Y, Kong J, Kim E, Choi JH, Yuk HD, Lee H, Kim HR, Lee KH, Kang M, Roe JS, Moon KC, Kim S*, Ku JH*, Shin K*
* Corresponding authors

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Epigenetic regulation of mammalian Hedgehog signaling to the stroma determines the molecular subtype of bladder cancer
Elife. 2019 Apr 30;8. pii: e43024. doi: 10.7554/eflie.43024.  [Epub ahead of print]
PMID: 31036156

 

84:

Han SK, Kong J, Kim S*, Lee JH*, Han DH*
* Corresponding authors

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Exomic and transcriptomic alterations of hereditary gingival fibromatosis
Oral Dis. 2019 Mar 25. doi: 10. 1111/odi.13093. [Epub ahead of print]
PMID: 30907493

 

83:

An SW, Choi ES, Hwang WS, Son HG, Yang JS, Seo KH, Nam HJ, Nguyen N, Kim EJ, Suh BK, Kim YR, Nakano SJ, Ryu YJ, Ha CM, Mori I, Park SK, Yoo JY, Kim S, Lee SJ

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KIN-4/MAST kinase promotes PTEN-mediated longevity of caenorhabditis elegans via binding through a PDZ domain
Aging Cell. 2019 Feb 17:e12906. doi: 10.1111/acel.12906
PMID: 30773781

 

82:

Yun SJ, Kim H, Lee SG, Jung SH, Kim JH, Ryu JE, Singh NJ, Jeon J, Han JK, Kim CH, Kim S, Jang SK, Kim WJ

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The mechanistic insight of a specific interaction between 15d-Prostaglandin-J2 and elF4A suggests an evolutionary conserved role across species
Biology Open. 2018 Sep 26. pii: bio.035402. doi: 10.1242/bio.035402 
PMID: 30257829

 

81:

Han SK, Kim D, Lee H, Kim I, Kim S.

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Divergence of noncoding regulatory elements explains gene-phenotype differences between human and mouse orthologous genes
Molecular Biology and Evolution. 2018 Jul 1;35(7): 1653-1667. doi: 10.1093/molbev/msy056
PMID: 29697819

 

80:

Lee H, Cheong SM, Han W, Koo Y, Jo SB, Cho GS, Yang JS, Kim S, Han JK

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Head formation requires Dishevelled degradation that is mediated by March2 in concert with Dapper1
Development. 2018 Apr 10;145(7). pii: dev143107. doi: 10.1242/dev.143107
PMID: 29549110

 

79:

Kim EJ, Kim DH, Lee JS, Yoe JH, Park JM, Kim CJ, Jeong DJ, Kim S*, Lee Y*
* Corresponding authors

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Capicua suppresses hepatocellular carcinoma progression by controlling ETV4-MMP1 axis
Hepatology. 2018 Jun;67(6):2287-2301. doi: 10.1002/hep.29738
PMID: 29251790

 

78:

Kim HK, Lee H, So JH, Jeong SH, Seo DY, Kim J, Kim S, Han J.

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Energy metabolism and whole-exome sequencing-based analysis of Sasang constitution: a pilot study
Integrative Medicine Research. 2017 Mar 2. doi: 10.1016/
Integr Med Res. 2017 Jun;6(2):165-178. doi: 10.1016/j.imr.2017.03.002. Epub 2017 May 26.
PMID: 28664140

 

77:

Kim YY, Hwang J, Kim HS, Kwon HJ, Kim S, Lee JH, Lee JH.

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Genetic alterations in mesiodens as revealed by targeted NGS and gene co-occurrence network analysis.
Oral Dis. 2017 Oct;23(7).966-972. doi: 10.1111/odi.12680. [Epub ahead of print]
PMID: 28415132

 
76:

Hwang J, Kim YL, Kang S, Kim S, Kim SO, Lee JH*, Han DH*.
* Corresponding authors

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Genetic analysis of hereditary gingival fibromatosis using whole exome sequencing and bioinformatics.
Oral Dis. 2017 Jan;23(1):102-109. doi: 10.1111/odi.12583. Epub 2016 Oct 10.
PMID: 27614106 [PubMed - as supplied by publisher]

 
75:

Kwon EK, Min CK, Kim Y, Lee JW, Aigerim A, Schmidt S, Nam HJ, Han SK, Kim K, Cha JS, Kim H, Kim S, Cho HS, Choi MS, Cho NH

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Constitutive activation of T cells by γ2-herpesviral GPCR through the interaction with cellular CXCR4
Biochim Biophys Acta. 2017 Jan; 1864(1):1-11. doi: 10.1016/j.bbamcr.2016.10.008. Epub 2016 Oct 15.
PMID: 27751885

 

74:

Han SK, Lee D, Lee H, Kim D, Son HG, Yang JS, Lee SV*, Kim S*.
* Corresponding authors

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OASIS 2: online application for survival analysis 2 with features for the analysis of maximal lifespan and healthspan in aging research.
Oncotarget. 2016 Aug 30;7(35):56147-56152. doi: 10.18632/oncotarget.11269.
PMID: 27528229 [PubMed - as supplied by publisher]

 
73:

Kim Y, Cheon S, Min CK, Sohn KM, Kang YJ, Cha YJ, Kang JI, Han SK, Ha NY, Kim G, Aigerim A, Shin HM, Choi MS, Kim S, Cho HS, Kim YS, Cho NH.

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Spread of Mutant Middle East Respiratory Syndrome Coronavirus with Reduced Affinity to Human CD26 during the South Korean Outbreak.
MBio. 2016 Mar 1;7(2). pii: e00019-16. doi: 10.1128/mBio.00019-16.
PMID: 26933050 [PubMed - in process]

 

72:

Han SK, Kim I, Hwang J, Kim S.

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Network Modules of the Cross-Species Genotype-Phenotype Map Reflect the Clinical Severity of Human Diseases.
PLoS One. 2015 Aug 24;10(8):e0136300. doi: 10.1371/journal.pone.0136300. eCollection 2015.
PMID: 26301634 [PubMed - in process]

 
71:

Seo M, Seo K, Hwang W, Koo HJ, Hahm JH, Yang JS, Han SK, Hwang D, Kim S, Jang SK, Lee Y, Nam HG*, Lee SV*.
* Corresponding authors

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RNA helicase HEL-1 promotes longevity by specifically activating DAF-16/FOXO transcription factor signaling in Caenorhabditis elegans.
Proc Natl Acad Sci U S A. 2015 Jul 20. pii: 201505451.
PMID: 26195740 [PubMed - as supplied by publisher]

 
70:

Nam HJ, Kim I, Bowie JU, Kim S.

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Metazoans evolved by taking domains from soluble proteins to expand intercellular communication network.
Sci Rep. 2015 Apr 29;5:9576. doi: 10.1038/srep09576.
PMID: 25923201 [PubMed - as supplied by publisher]

 
69:

Kim JH, Ko YJ, Kim JY, Oh Y, Hwang J, Han S, Kim S, Lee JH*, Han DH*.
* Corresponding authors

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Genetic Investigation of Bisphosphonate-Related Osteonecrosis of Jaw (BRONJ) via Whole Exome Sequencing and Bioinformatics.
PLoS One. 2015 Feb 10;10(2):e0118084. doi: 10.1371/journal.pone.0118084. eCollection 2015.
PMID: 25668207 [PubMed - in process]

 

68:

Kim I, Lee H, Han SK, Kim S.

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Linear motif-mediated interactions have contributed to the evolution of modularity in complex protein interaction networks.
PLoS Comput Biol. 2014 Oct 9;10(10):e1003881. doi: 10.1371/journal.pcbi.1003881. eCollection 2014.
PMID: 25299147 [PubMed - in process] 

Access the recommendation on F1000Prime

 

67:

Hwang AB, Ryu EA, Artan M, Chang HW, Kabir MH, Nam HJ, Lee D, Yang JS, Kim S, Mair WB, Lee C, Lee SS, Lee SJ.

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Feedback regulation via AMPK and HIF-1 mediates ROS-dependent longevity in Caenorhabditis elegans.
Proc Natl Acad Sci U S A. 2014 Oct 21;111(42):E4458-67. doi: 10.1073/pnas.1411199111. Epub 2014 Oct 6.
PMID: 25288734 [PubMed - as supplied by publisher]

Access the recommendation on F1000Prime

 

66:

Lee S, Kim JY, Hwang J, Kim S, Lee JH*, Han DH*.
* Corresponding authors 

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Investigation of pathogenic genes in peri-implantitis from implant clustering failure patients: a whole-exome sequencing pilot study.
PLoS One. 2014 Jun 12;9(6):e99360. doi: 10.1371/journal.pone.0099360. eCollection 2014.
PMID:
24921256 [PubMed - in process]

 
65:

Kim DC, Yun SJ, Park YS, Jun DJ, Kim D, Jiten Singh N, Kim S*, Kim KT*.
* Corresponding authors 

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Pyrilamine inhibits nicotine-induced catecholamine secretion.
Neurochem Int. 2014 May 6. pii: S0197-0186(14)00100-4. doi:10.1016/j.neuint.2014.04.015.
PMID: 24813183 [PubMed - as supplied by publisher]

 
64:

Choi YS, Yoon S, Kim KL, Yoo J, Song P, Kim M, Shin YE, Yang WJ, Noh JE, Cho HS, Kim S*, Chung J*, Ryu SH*.
* Corresponding authors

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Computational Design of Binding Proteins to EGFR Domain II
PLoS One. 2014 Apr 7;9(4):e92513. doi: 10.1371/journal.pone.0092513. eCollection 2014.
PMID: 24710267 [PubMed - as supplied by publisher]

 
63:

Seo SW+, Yang JS+, Cho HS, Yang J, Kim SC, Park JM, Kim S*, Jung GY*.
+Joint first authors * Corresponding authors

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Predictive combinatorial design of mRNA translation initiation regions for systematic optimization of gene expression levels.
Sci Rep. 2014 Mar 31;4:4515. doi: 10.1038/srep04515.
PMID:
24682040 [PubMed - as supplied by publisher]

 

62:

Skorupka K, Han SK, Nam HJ, Kim S*, Faham S*.
* Corresponding authors

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Protein design by fusion: implications for protein structure prediction and evolution.
Acta Crystallogr D Biol Crystallogr. 2013 Dec;69(Pt 12):2451-60. doi: 10.1107/S0907444913022701. Epub 2013 Nov 19.
PMID: 24311586 [PubMed - in process]

 
61:

Kim HL, Kim S, Seo YR.

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A novel role for Gadd45α in base excision repair: modulation of APE1 activity by the direct interaction of Gadd45α with PCNA.
Biochem Biophys Res Commun. 2013 May 3;434(2):185-90. doi: 10.1016/j.bbrc.2013.02.066. Epub 2013 Feb 26.
PMID: 23485469 [PubMed - indexed for MEDLINE]

 
60:

Park JH+, Park S+, Yang JS, Kwon OS, Kim S*, Jang SK*.
+Joint first authors * Corresponding authors

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Discovery of cellular proteins required for the early steps of HCV infection using integrative genomics.
PLoS One. 2013 Apr 12;8(4):e60333. doi: 10.1371/journal.pone.0060333. Print 2013.
PMID: 23593195 [PubMed - in process] PMCID: PMC3625227

 
59:

Nam HJ, Han SK, Bowie JU, Kim S.

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Rampant exchange of the structure and function of extramembrane domains between membrane and water soluble proteins.
PLoS Comput Biol. 2013 Mar;9(3):e1002997. doi: 10.1371/journal.pcbi.1002997. Epub 2013 Mar 21.

PMID: 23555228 [PubMed - in process]

 
58:

Yang JS, Kim J, Park S, Jeon J, Shin YE, Kim S.

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Spatial and functional organization of mitochondrial protein network.
Sci Rep. 2013 Mar 7;3:1403. doi: 10.1038/srep01403.

PMID: 23466738 [PubMed - in process]

 
57:

Seo SW+, Yang JS+, Kim I, Yang J, Min BE, Kim S*, Jung GY*.
+Joint first authors * Corresponding authors

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Predictive design of mRNA translation initiation region to control prokaryotic translation efficiency.
Metab Eng. 2013 Jan;15:67-74. doi: 10.1016/j.ymben.2012.10.006. Epub 2012 Nov 17.

PMID: 23164579 [PubMed - in process]

 

56:

Kim J, Kim I, Han SK, Bowie JU, Kim S.

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Network rewiring is an important mechanism of gene essentiality change.
Sci Rep. 2012;2:900. doi: 10.1038/srep00900. Epub 2012 Nov 29.
PMID: 23198090 [PubMed - in process]

 
55:

Park S, Yang JS, Kim J, Shin YE, Hwang J, Park J, Jang SK, Kim S.

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Evolutionary history of human disease genes reveals phenotypic connections and comorbidity among genetic diseases.
Sci Rep. 2012;2:757. doi: 10.1038/srep00757. Epub 2012 Oct 22
PMID: 23091697 [PubMed - in process]

 

54:

Meruelo AD, Han SK, Kim S, Bowie JU.

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Structural differences between thermophilic and mesophilic membrane proteins.
Protein Sci. 2012 Sep 21. doi: 10.1002/pro.2157.
[Epub ahead of print]
PMID: 23001966 [PubMed - as supplied by publisher]

 

53:

Cho BA, Ko Y, Kim YS, Kim S, Choi MS, Kim IS, Kim HR, Cho NH

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Phenotypic characterization of peripheral T cells and their dynamics in scrub typhus patients.
PLoS Negl Trop Dis. 2012 Aug;6(8):e1789. Epub 2012 Aug 14.
PMID: 22905277 [PubMed - in process]

 

52:

Yang JS, Seo SW, Jang S, Jung GY, Kim S.

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Rational Engineering of Enzyme Allosteric Regulation through Sequence Evolution Analysis
PLoS Comput Biol. 2012 Jul 12;8(7):e1002612.
PMID: 22807670 [PubMed - in process]

 

51:

Kim JK, Kwon O, Kim J, Kim EK, Park HK, Lee JE, Kim KL, Choi JW, Lim S, Seok H, Lee-Kwon W, Choi JH, Kang BH, Kim S, Ryu SH, Suh PG.

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PDZ Domain-containing 1 (PDZK1) Protein Regulates Phospholipase C-β3 (PLC-β3)-specific Activation of Somatostatin by Forming a Ternary Complex with PLC-β3 and Somatostatin Receptors
J Biol Chem. 2012 Jun 15;287(25):21012-24. Epub 2012 Apr 23.
PMID: 22528496 [PubMed - in process]

 

50:

Kim J, Kim I, Yang JS, Shin YE, Hwang J, Park S, Choi YS, Kim S.

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Rewiring of PDZ domain-ligand interaction network contributed to eukaryotic evolution
PLoS Genet. 2012 Feb;8(2):e1002510. Epub 2012 Feb 9.
PMID: 22346764

 

 

49:

Kim JH, Lee ER, Jeon K, Choi HY, Lim H, Kim SJ, Chae HJ, Park SH, Kim S, Seo YR, Kim JH, Cho SG.

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Role of BI-1 (TEGT)-mediated ERK1/2 activation in mitochondria-mediated apoptosis and splenomegaly in BI-1 transgenic mice
Biochim Biophys Acta. 2012 Apr;1823(4):876-88. Epub 2012 Jan 28.
PMID: 22309999

 

 

48:

Choi DS+, Yang JS+, Choi EJ, Jang SC, Park S, Kim OY, Hwang D, Kim KP, Kim YK, Kim S*, Gho YS*.
+Joint first authors * Corresponding authors

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The protein interaction network of extracellular vesicles derived from human colorectal cancer cells
J Proteome Res. 2012 Feb 3;11(2):1144-51. Epub 2012 Jan 9.
PMID: 22149170

 

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47:

Yang JS, Kim DK, Kim J, Kim S.

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Global sequence homology detection using word conservation probability
Interdisciplinary Bio Central. 2011 Oct 19;3(14):1-9.
PMID: -

 

 

46:

Cho NH, Cheong TC, Min JH, Wu JH, Lee SJ, Kim D, Yang JS, Kim S, Kim YK, Seong SY.

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A multifunctional core-shell nanoparticle for dendritic cell-based cancer immunotherapy
Nat Nanotechnol. 2011 Sep 11;6(10):675-82.
PMID: 21909083 [PubMed - as supplied by publisher]

 

 

45:

Yang JS, Nam HJ, M Seo, SK Han, Choi Y, Nam HG, Lee SJ*, Kim S*.
* Corresponding authors

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OASIS: Online Application for the Survival Analysis of Lifespan Assays Performed in Aging Research
PLoS ONE. 2011 Aug;6(8):e23525. Epub 2011 Aug 15.
PMID: 21858155 [PubMed - in process]

 

 

44:

Jeon J+, Jeong JH+, Baek JH+, Koo HJ, Park WH, Yang JS, Yu MH, Kim S*, Pak YK*.
+Joint first authors * Corresponding authors

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Network clustering revealed the systemic alterations of mitochondrial protein expression
PLoS Comput Biol. 2011 Jun;7(6):e1002093. Epub 2011 Jun 30.
PMID: 21738461 [PubMed - in process]

 

 

43:

Park S, Yang JS, Shin YE, Park J, Jang SK, Kim S.

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Protein localization as a principal feature of the etiology and comorbidity of genetic diseases
Nature Mol Syst Biol. 2011 May 24;7:494.
PMID: 21613983 [PubMed - in process]

 

 

42:

Lee J, Lee H, Kim J, Lee S, Kim DH, Kim S, Hwang I.

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Both the Hydrophobicity and a Positively Charged Region Flanking the C-Terminal Region of the Transmembrane Domain of Signal-Anchored Proteins Play Critical Roles in Determining Their Targeting Specificity to the Endoplasmic Reticulum or Endosymbiotic Organelles in Arabidopsis Cells
Plant Cell. 2011 Apr;23(4):1588-607. Epub 2011 Apr 22.
PMID: 21515817 [PubMed - as supplied by publisher]

 

 

41:

Jeon J, Nam HJ, Choi Y, Yang JS, Hwang J, Kim S.

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Molecular evolution of protein conformational changes revealed by a network of evolutionarily-coupled residues
Mol Biol Evol. 2011 Sep;28(9):2675-85. Epub 2011 Apr 6.
PMID: 21470969 [PubMed - as supplied by publisher]

 

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40:

Yang JS+, Kim JT+, Jeon J, Park HS, Kang GH, Park KS, Lee HK, Kim S*, Cho YM*.
+Joint first authors * Corresponding authors

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Changes in Hepatic Gene Expression upon Oral Administration of Taurine-Conjugated Ursodeoxycholic Acid in ob/ob Mice
PLoS One. 2010 Nov 5;5(11):e13858
PMID: 21079772 [PubMed - in process]

 

 

39:

Kim JK, Lim S, Kim J, Kim S, Kim JH, Ryu SH, Suh PG.

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Subtype-specific roles of phospholipase C-β via differential interactions with PDZ domain proteins
Adv Enzyme Regul. 2011;51(1):138-51. Epub 2010 Oct 28.
PMID: 21035486 [PubMed - as supplied by publisher]

 

 

38:

Choi YS+, Han SK+, Kim J, Yang JS, Jeon J, Ryu SH, Kim S.
+Joint first authors

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ConPlex: a sever for the evolutionary conservation analysis of protein complex structures
Nucleic Acids Res. 2010 Jul;38(Web Server issue):W450-6. Epub 2010 Apr 30.
PMID: 20435678 [PubMed - as supplied by publisher]

 

 

37:

Cho BA, Cho NH, Min CK, Kim SY, Yang JS, Lee JR, Jung JW, Lee WC, Kim K, Lee MK, Kim S, Kim KP, Seong SY, Choi MS, Kim IS.

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Global gene expression profile of Orientia tsutsugamushi.
Proteomics. 2010 Feb 22: 10(8):1699-1715
PMID: 20186754 [PubMed - as supplied by publisher]

 

 

36:

Lee GH, Ahn T, Kim DS, Park SJ, Lee YC, Yoo WH, Jung SJ, Yang JS, Kim S, Muhlrad A, Chae SW, Kim HR, Chae HJ.

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Bax Inhibitor-1 increases cell adhesion through actin polymerization: The involvement of calcium and actin binding.
Mol Cell Biol. 2010 Apr:30(7):1800-1813.
PMID: 20123969 [PubMed - as supplied by publisher]

 

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35:

Nam HJ, Jeon J, Kim S.

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Bioinformatic approaches for the structure and function of membrane proteins.
BMB Rep. 2009 Nov 30;42(11):697-704.
PMID: 19944009 [PubMed - in process]

 

 

34:

Jeon J, Yang JS, Kim S.

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Integration of evolutionary features for the identification of functionally important residues in major facilitator superfamily transporters.
PLoS Comput Biol. 2009 Oct;5(10):e1000522. Epub 2009 Oct 2.
PMID: 19798434 [PubMed - in process]

 

 

33:

Park S, Yang JS, Jang SK, Kim S.

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Construction of functional interaction networks through consensus localization predictions of the human proteome.
J Proteome Res. 2009 Jul;8(7):3367-76.
PMID: 19415893 [PubMed - as supplied by publisher]

 

 

32:

Choi YS, Yang JS, Choi Y, Ryu SH, Kim S.

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Evolutionary conservation in multiple faces of protein interaction.
Proteins. 2009 Feb 27; 77(1):14-25.
PMID: 19350617 [PubMed - as supplied by publisher]

 

 

31:

Min CK, Bang SY, Cho BA, Choi YH, Yang JS, Lee SH, Seong SY, Kim KW, Kim S, Jung JU, Choi MS, Kim IS, Cho NH.

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Role of Amphipathic Helix of a Herpesviral Protein in Membrane Deformation and T Cell Receptor Downregulation.
PLoS Pathog. 2008 Nov;4(11):e1000209. Epub 2008 Nov 21.

PMID: 19023411 [PubMed - as supplied by publisher]

 

 

30:

Lee DW+, Kim JK+, Lee S, Choi S, Kim S*, Hwang I*.
+Joint first authors * Corresponding authors

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Arabidopsis nuclear-encoded plastid transit peptides contain multiple sequence subgroups with distinctive chloroplast-targeting sequence motifs.
Plant Cell. 2008 Jun;20(6):1603-1622.
PMID: 18552198 [PubMed - indexed for MEDLINE]

 

 

29:

Min C, Yang JS, Kim S, Choi M, Kim I, Cho N.

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Genome-based construction of the metabolic pathways of Orientia tsutsugamushi and comparative analysis within the Rickettsiales order.
Comparative and Functional Genomics. 2008:623145
PMID: 18528528 [PubMed - in process]

 

 

28:

Lim DW, Kim J, Kim S, Carthew RW, Lee YS.

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Functional analysis of dicer-2 missense mutations in the siRNA pathway of Drosophila.
Biochem Biophys Res Commun. 2008 Jul 4;371(3):525-30. Epub 2008 Apr 30.
PMID: 18454937 [PubMed - as supplied by publisher]

 

 

27:

Kim YY, Kim DY, Shim D, Song WY, Lee J, Schroeder JI, Kim S, Moran N, Lee Y.

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Expression of the Novel Wheat Gene TM20 Confers Enhanced Cadmium Tolerance to Bakers' Yeast.
J Biol Chem. 2008 Jun 6;283(23):15893-15902. Epub 2008 Apr 14.
PMID: 18411273 [PubMed - as supplied by publisher]

 

 

26:

Kim HR, Lee GH, Ha KC, Ahn T, Lee BJ, Cho SG, Kim S, Seo YR, Shin YJ, Chae SW, Reed JC, Chae HJ.

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Bax Inhibitor-1 Is a pH-dependent Regulator of Ca2+ Channel Activity in the Endoplasmic Reticulum.
J Biol Chem. 2008 Jun 6;283(23):15946-15955. Epub 2008 Mar 31.
PMID: 18378668 [PubMed - as supplied by publisher]

 

 

25:

Page RC, Kim S, Cross TA.

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Transmembrane helix uniformity examined by spectral mapping of torsion angles.
Structure 2008. May 07;16: 787-797
PMID: 18462683 [PubMed - in process]

 

 

24:

Choi S*, Jeon J*, Yang JS, Kim S.
*Joint first authors

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Common occurrence of internal repeat symmetry in membrane proteins
Proteins. 2008 Apr;71(1):68-80.
PMID: 17932930 [PubMed - indexed for MEDLINE]

 

 

23:

Gorman PM, Kim S, Guo M, Melnyk R, McLaurin J, Fraser PE, Bowie JU, Chakrabartty A.

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Dimerization of the transmembrane domain of amyloid precursor proteins and familial Alzheimers disease mutants.
BMC Neurosci. 2008 Jan 30;9(1):17
PMID: 18234110 [PubMed - indexed for MEDLINE]

 

 

22:

Plotkowski ML, Kim S, Phillips ML, Partridge AW, Deber CM, Bowie JU.

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The transmembrane domain of Myelin Protein Zero can form dimers: Possible implications for Myelin construction.
Biochemistry. 2007 Oct 30;46(43):12164-73. Epub 2007 Oct 4.
PMID: 17915947 [PubMed - in process]

 

 

21:

Kim YK, Park HW, Yang JS, Oh SY, Chang YS, Shin ES, Lee JE, Kim S*, Gho YS, Cho SH, Min KU, Kim YY.
*Corresponding author

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Association and functional relevance of E237G, a polymorphism of the high-affinity immunoglobulin E-receptor β chain gene, to airway hyper-responsiveness
Clinical & Experimental Allergy 2007 Apr;37(4):592-598.
PMID: 17430357 [PubMed - in process]

 

 

20:

Barwe SP*, Kim S*, Rajasekaran SA, Bowie JU, Rajasekaran AK.
*Joint first authors

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Janus model of the Na,K-ATPase β-subunit transmembrane domain: Distinct faces mediate α/β assembly and β-β homo-oligomerization
J Mol Biol. 2007 Jan 19;365(3):706-14. Epub 2006 Oct 31.
PMID: 17078968 [PubMed - in process]

 

 

19:

Jeong MY*, Kim S*, Yun CW, Choi YJ, Cho SG.
*Joint first authors

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Engineering a de novo internal disulfide bridge to improve the thermal stability of xylanase from Bacillus stearothermophilus No. 236.
J Biotechnol. 2007 Jan1;127(2):300-9. Epub 2006 Jul 16.
PMID: 16919348 [PubMed - as supplied by publisher]

 

 

18:

Oberai A, Ihm Y, Kim S, Bowie JU.

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A limited universe of membrane protein families and folds.
Protein Sci. 2006 Jul;15(7):1723-34.
PMID: 16815920 [PubMed - in process]

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17:

Go MY, Kim S, Partridge AW, Melnyk RA, Rath A, Deber CM, Mogridge J.

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Self-association of the Transmembrane Domain of an Anthrax Toxin Receptor.
J Mol Biol. 2006 Jun 30;360(1):145-56. Epub 2006 May 15.
PMID: 16756998 [PubMed - as supplied by publisher]

 

 

16:

Choi Y, Yang J, Ryu SH, Kim S.

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Retrieving protein domain encoding DNA sequences automatically through database cross-referencing
Bioinformatics and Biosystems 2006 Jun 1;1:95-98.

 

 

15:

Lee DW, Lee S, Lee GJ, Lee KH, Kim S, Cheong GW, Hwang I.

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Functional characterization of sequence motifs in the transit Peptide of Arabidopsis small subunit of rubisco.
Plant Physiol. 2006 Feb;140(2):466-83. Epub 2005 Dec 29.
PMID: 16384899 [PubMed - in process]

 

 

14:

Kim S, Jeon TJ, Oberai A, Yang D, Schmidt JJ, Bowie JU.

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Transmembrane glycine zippers: physiological and pathological roles in membrane proteins.
Proc Natl Acad Sci U S A. 2005 Oct 4;102(40):14278-83. Epub 2005 Sep 22.
PMID: 16179394 [PubMed - in process]

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13:

Edwards MD*, Li Y*, Kim S*, Miller S, Bartlett W, Black S, Dennison S, Iscla I, Blount P, Bowie JU, Booth IR.
*Joint first authors

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Pivotal role of the glycine-rich TM3 helix in gating the MscS mechanosensitive channel.
Nat Struct Mol Biol. 2005 Feb;12(2):113-9. Epub 2005 Jan 23.
PMID: 15665866 [PubMed - indexed for MEDLINE]
Highlighted on NSMB
   News and Views 2005; 12(2): 104-105.

 

 

12:

Partridge AW, Liu S, Kim S, Bowie JU, Ginsberg MH.

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Transmembrane domain helix packing stabilizes integrin alphaIIbbeta3 in the low affinity state.
J Biol Chem. 2005 Feb 25;280(8):7294-300. Epub 2004 Dec 10.
PMID: 15591321 [PubMed - indexed for MEDLINE]

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11:

Kim S, Chamberlain AK, Bowie JU.

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A model of the closed form of the nicotinic acetylcholine receptor m2 channel pore.
Biophys J. 2004 Aug;87(2):792-9.
PMID: 15298888 [PubMed - indexed for MEDLINE]

 

 

10:

Kim S, Cross TA.

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2D solid state NMR spectral simulation of 3(10), alpha, and pi-helices.
J Magn Reson. 2004 Jun;168(2):187-93.
PMID: 15140426 [PubMed - indexed for MEDLINE]

 

 

09:

Chamberlain AK, Lee Y, Kim S, Bowie JU.

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Snorkeling preferences foster an amino acid composition bias in transmembrane helices.
J Mol Biol. 2004 May 28;339(2):471-9.
PMID: 15136048 [PubMed - indexed for MEDLINE]

 

 

08:

Kim S, Chamberlain AK, Bowie JU.

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Membrane channel structure of Helicobacter pylori vacuolating toxin: role of multiple GXXXG motifs in cylindrical channels.
Proc Natl Acad Sci U S A. 2004 Apr 20;101(16):5988-91. Epub 2004 Apr 5.
PMID: 15067113 [PubMed - indexed for MEDLINE]

 

 

07:

Melnyk RA*, Kim S*, Curran AR*, Engelman DM, Bowie JU, Deber CM.
*Joint first authors

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The affinity of GXXXG motifs in transmembrane helix-helix interactions is modulated by long-range communication.
J Biol Chem. 2004 Apr 16;279(16):16591-7. Epub 2004 Feb 5.
PMID: 14766751 [PubMed - indexed for MEDLINE]

 

 

06:

Kim S*, Chamberlain AK*, Bowie JU.
*Joint first authors

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A simple method for modeling transmembrane helix oligomers.
J Mol Biol. 2003 Jun 13;329(4):831-40.
PMID: 12787681 [PubMed - indexed for MEDLINE]

 

 

05:

Nishimura K*, Kim S*, Zhang L, Cross TA.
*Joint first authors

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The closed state of a H+ channel helical bundle combining precise orientational and distance restraints from solid state NMR.
Biochemistry. 2002 Nov 5;41(44):13170-7.
PMID: 12403618 [PubMed - indexed for MEDLINE]

 

 

04:

Kim S, Cross TA.

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Uniformity, ideality, and hydrogen bonds in transmembrane alpha-helices.
Biophys J. 2002 Oct;83(4):2084-95.
PMID: 12324426 [PubMed - indexed for MEDLINE]

 

 

03:

Wang J, Kim S, Kovacs F, Cross TA.

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Structure of the transmembrane region of the M2 protein H(+) channel.
Protein Sci. 2001 Nov;10(11):2241-50.
PMID: 11604531 [PubMed - indexed for MEDLINE]    Cover Article

 

 

02:

Kim S, Quine JR, Cross TA.

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Complete cross-validation and R-factor calculation of a solid-state NMR derived structure.
J Am Chem Soc. 2001 Aug 1;123(30):7292-8.
PMID: 11472156 [PubMed]

 

 

01:

Wang J, Denny J, Tian C, Kim S, Mo Y, Kovacs F, Song Z, Nishimura K, Gan Z, Fu R, Quine JR, Cross TA.

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Imaging membrane protein helical wheels.
J Magn Reson. 2000 May;144(1):162-7.
PMID: 10783287 [PubMed - indexed for MEDLINE]    Cover Article