International Journal

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  Graph Neural Network and BERT Model for Antimalarial Drug Predictions Using Plasmodium Potential Targets.
Mswahili ME, Ndomba GE, Jo K, Jeong Y-S*.
Applied Sciences. 2024 Feb 11; 14(4):1472.
  Ubiquitin ligase RNF20 coordinates sequential adipose thermogenesis with brown and beige fat-specific substrates.
Yong GJ*, Hahn N, Oh JY, Lee DB, Kim DW, Kim JE, Kim YY*, Ji Y, Han JS, Kim SM, Sohn JH, Lee WT, Kim SW, Park J, Huh JY, Jo K, Cho JY, Park JY, Kim JB.
Nature Communications. 2024 Jan 19; 15(1):1-17.

  NDAMA: A Novel Deep Autoencoder and Multivariate Analysis Approach for IoT-Based Methane Gas Leakage Detection.
Dashdondov K, Kim M, Jo K.
IEEE Access, 2023 Dec 7; 11:140740-140751.

  DRPreter: Interpretable Anticancer Drug Response Prediction Using Knowledge-Guided Graph Neural Networks and Transformer.
Shin J, Piao Y, Bang D, Kim S, Jo K.
International Journal of Molecular Sciences, 2022 Nov 11; 23(22):13919.
  Adipocyte HIF2α functions as a thermostat via PKA Cα regulation in beige adipocytes.
Han JS, Jeon YG, Oh M, Lee G, Nahmgoong H, Han SM, Choi J, Kim YY, Shin KC, Kim J, Jo K, Choe SS, Park EJ, Kim S, Kim JB.
Nature Communications, 2022 Jun 7; 13(1):1-16.

  Inferring transcriptomic cell states and transitions only from time series transcriptome data.
Jo K, Lee D, Sung IY, Jang H, Kim S.
Scientific Reports, 2021 Jun 15; 11:12566.
  mirTime: Identifying Condition-Specific Targets of MicroRNA in Time-series Transcript Data using Gaussian Process Model and Spherical Vector Clustering.
Kang H*, Ahn H*, Jo K, Oh M, Kim S.
Bioinformatics, 2021 June 1; 37(11):1544–1553.
  Graph Convolutional Network for Drug Response Prediction Using Gene Expression Data.
Kim S, Bae S, Piao Y, Jo K.
Mathematics, 2021 Apr 2; 9(7):772.

  DRIM: A web-based system for investigating drug response at the molecular level by condition-specific multi-omics data integration.
Oh M, Park S, Lee S, Lee D, Lim S, Jeong D, Jo K, Jung I, Kim S.
Frontiers in Genetics. 2020 Nov 12; 11:1-14.
  Logic-based analysis of gene expression data predicts association between TNF, TGFB1 and EGF pathways in basal-like breast cancer.
Buitrago B*, Jo K*, Kim M*, Rhee S, Talcott C, Kim S.
Methods, 2020 Jul 1; 179:89-100.

  Bioinformatic analysis of peripheral blood RNA-sequencing sensitively detects the cause of late graft loss following overt hyperglycemia in pig-to-nonhuman primate islet xenotransplantation.
Kim HJ, Moon JH, Chung H, Shin JS, Kim B, Kim JM, Kim JS, Yoon IH, Min BH, Kang SJ, Kim YH, Jo K, Choi J, Chae H, Lee WW, Kim S, Park CG.
Scientific Reports, 2019 Dec 11; 9(1):1-11.
  During adipocyte remodeling, lipid droplet configurations regulate insulin sensitivity through F-actin and G-actin reorganization.
Kim JI, Park J, Ji Y, Jo K, Han SM, Sohn JH, Shin KC, Han JS, Jeon YG, Goong HN, Han KH, Kim J, Kim S, Choe SS, Kim JB.
Molecular and Cellular Biology, 2019 Sep 27; 39(20):e00210-19.
  PropaNet: Time-varying condition-specific transcriptional network construction by network propagation.
Ahn H*, Jo K*, Jeong D, Pak M, Hur J, Jung W, Kim S.
Frontiers in Plant Science, 2019 June 14; 10: 698.
  GABA-stimulated adipose-derived stem cells suppress subcutaneous adipose inflammation in obesity.
Hwang I, Jo K, Shin KC, Kim JI, Ji Y, Park YJ, Park J, Jeon YG, Ka S, Suk S, Noh HL, Choe SS, Alfadda AA, Kim JK, Kim S, Kim JB.
Proceedings of the National Academy of Sciences of the United States of America, 2019 June 11; 116(24):11936-11945.

  TimesVector: A vectorized clustering approach to the analysis of time series transcriptome data from multiple phenotypes.
Jung I, Jo K, Kang H, Ahn H, Yu Y, Kim S.
Bioinformatics, 2017 Dec 1;33(23):3827-3835.
  PINTnet: construction of condition-specic pathway interaction network by computing shortest paths on weighted PPI.
Moon JH, Lim S, Jo K, Lee S, Seo S, Kim S.
BMC Systems Biology, 2017 Mar 14; 11(Suppl 2): 15.

  Prioritizing biological pathways by recognizing context in time-series gene expression data.
Lee J, Jo K, Lee S, Kang J, Kim S.
BMC Bioinformatics, 2016 Dec 23;17(17):477.
  Influence maximization in time bounded network identifies transcription factors regulating perturbed pathways.
Jo K, Jung I, Moon JH, Kim S.
Bioinformatics, 2016 June 15;32(12):i128-i136.

  Time-series RNA-seq analysis package (TRAP) and its application to the analysis of rice, Oryza sativa L.ssp.Japonica, upon drought stress.
Jo K, Kwon HB, Kim S.
Methods, 2014 Jun 1;67(3):364-72.

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International Conference

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  MutTF: a Multi-omics Analysis for Detecting Mutational Signature-induced Gene Regulations by Transcription Factors.
You J, Kim Y, Kim K, Jo K.
The 17th International Conference on Data and Text Mining in Biomedical Informatics (DTMBIO 2023), Dec 18-21, Okinawa, Japan.
  Comparative Analysis of Regression Algorithms for Drug Response Prediction Using GDSC Dataset.
Ha S, Park J, Jo K.
The 17th International Conference on Data and Text Mining in Biomedical Informatics (DTMBIO 2023), Dec 18-21, Okinawa, Japan.

  Deep AutoEncoder-based Framework for Natural Gas Leak Prediction using Multivariate Outlier Detection.
Dashdondov K, Kim MH, Jo K.
The 11th ACM SIGKDD International Workshop on Urban Computing (UrbComp 2022), Aug 15, Washington, DC, USA.

  Influence maximization in time bounded network identifies transcription factors regulating perturbed pathways.
Jo K, Jung I, Moon JH, Kim S.
Intelligent Systems for Molecular Biology (ISMB) 2016, Jul 8-12, Orlando, FL.

  A new bioinformatics analysis reveals intestinal infection as a possible cause of intrahepatic graft rejection in non-human primate porcine islet xenotransplantation.
Kim HJ, Moon JH, Shin JS, Kim JS, Min BH, Kim JM, Kim YH, Lee WW, Kang BC, Kang SJ, Kim SJ, Jo K, Kim S, Park CG.
IPITA-IXA-CTS 2015, Nov 15-19, Melbourne, Australia.

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Domestic Journal

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  엣지 기반 적대적 예제 탐지 모델의 효율성에 관한 연구: 다양한 적대적 알고리즘에 관한 연구.
심재성, 조겨리.
한국컴퓨터정보학회논문지, 29(2), 2024 Feb 29, 31-41.

  엣지 기반 분류를 이용한 적대적 예제 탐지.
심재성, 조겨리.
한국컴퓨터정보학회논문지, 28(10), 2023 Oct 31, 67-76.
  돌연변이 시그니처와 유전자 발현 데이터의 통합 분석 및 시그니처 연관 전사인자 선발 기법.
유지원, 김유은, 김광수, 조겨리.
차세대융합기술학회논문지, Vol7, No8, 2023 Aug 28, 1209-1216.
  fNIRS를 이용한 피아노 즉흥연주와 재현연주에서의 전전두피질의 뇌 활성도 비교 분석.
조겨리, 강효지.
한국융합과학회지, Vol12, No7, 2023 Jul 31, 239-259.

  Linear interpolation and Machine Learning Methods for Gas Leakage Prediction Base on Multi-source Data Integration.
Dashdondov K, Jo K, Kim MH.
Journal of the Korea Convergence Society, 2022 Mar 28, 13(3):33-41.

  네트워크를 이용한 시계열 유전체 분석 기법의 연구 동향.
조겨리, 김선.
정보과학회지, Vol32, No10, 2014 Oct 1, pp22-27.

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Domestic Conference

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  대규모 공개 데이터셋을 활용한 머신 러닝 회귀 모델의 약물 반응성 예측 성능 비교.
하수정, 조겨리.
한국정보과학회 학술발표논문집, 2023 Jun, pp1136-1138.
  다중선형회귀 모형을 이용한 피아노 즉흥연주와 재현연주에서의 전전두엽의 뇌활성도 분석.
박주호, 오민석, 유지원, 조겨리.
한국정보과학회 학술발표논문집, 2023 Jun, pp1853-1855.
  멀티 오믹스 데이터 및 생물학적 네트워크 정보를 이용한 드라이버 유전자 분류.
박정호, 조겨리.
한국정보처리학회 학술대회논문집 301 (2023), 490-492.

  멀티모달 퓨전을 활용한 폐색전증 예측 모델의 성능 개선.
김준구, 조겨리.
한국정보과학회 학술발표논문집, 2022 Jun, 1002-1004.

  멀티 오믹스 데이터를 이용한 드라이버 유전자 분류.
박정호, 하수정, 조겨리.
한국정보과학회 학술발표논문집, 2021 Dec, 1533-1535.
  돌연변이 시그니처와 유전자 발현량의 시계열 연관 분석 프레임워크.
유지원, 윤정환, 조겨리.
한국정보과학회 학술발표논문집, 2021 Jun, pp2019-2021.
  설명가능한 인공지능을 활용한 합성곱 신경망 모델의 원 이미지 분류 강건도 분석.
박정호, 장혁순, 조겨리.
한국정보과학회 학술발표논문집, 2021 Jun, pp2002-2004.

  그래프 컨볼루션 네트워크와 유전자 발현 데이터를 활용한 약물 반응 예측 모델.
김성훈, 배석훈, 박은화, 조겨리.
한국정보과학회 학술발표논문집, 2020 Dec, 1466-1468.

  Korean Society for Bioinformatics and Systems Biology BIOINFO 2015, Oct 23.

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Awards

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  학부생/주니어논문경진대회 장려상 (문희범, 한태현, 박정호, 조겨리), KSC2023, 2024 Feb 02.
  우수학부생논문상 (장호중, 주정진, 김준구, 조겨리), KCSE2024, 2024 Feb 01.

  학부생/주니어논문경진대회 장려상 (박주호, 오민석, 유지원, 조겨리), KCC2023, 2023 Jul 25.
  ASK2023 학술대회 우수논문상 (박정호, 조겨리), ASK2023, 2023 May 19.

  학부생/주니어논문경진대회 장려상 (유지원, 윤정환, 조겨리), KCC2021, 2021 Jul 23.

  Naver PhD Fellowship(Kyuri Jo), 2017 Jan 20.

  Best Paper Award(Kyuri Jo), BIOINFO 2016, 2016 Aug 19.
  ISMB Travel Fellowship(Kyuri Jo), ISMB 2016, 2016 Jul 12.

  Best Poster Award(Kyuri Jo), BIOINFO 2015, 2015 Oct 23.

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