ExPDrug: Integration of an interpretable neural network and a knowledge graph for pathway-based drug repurposing.
Kim J, Jang H, Park Y, Jung I, Jo K.
Computers in Biology and Medicine. 2025 Mar (2025 Jan 29 online).
Positional Embeddings and Zero-shot Learning using BERT for Molecular-Property Prediction.
Mswahili ME, Hwang JH, Rajapakse JC, Jo K†, Jeong Y-S†.
Journal of Cheminformatics. 2025 Feb 5; 17.
Comparative analysis of regression algorithms for drug response prediction using GDSC dataset.
Ha S, Park J, Jo K.
BMC Research Notes. 2025 Jan 13; 18:10.
Relational Graph Convolution Network with Multi Features for Anti-COVID-19 Drugs Discovery using 3CLpro Potential Target.
Mswahili ME, Ndomba GE, Kim YJ, Jo K†, Jeong Y-S†.
Current Bioinformatics. 2025 Jan 1 (2024 Mar 8 online); 20(1):18-30.
Graph Neural Networks with Multi-Features for Predicting Cocrystals Using APIs and coformers Interactions.
Mswahili ME, Jo K, Lee SD, Jeong Y-S.
Current Medicinal Chemistry. 2024 May 22; 31(36):5953-5968.
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.
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.
퓨샷 러닝을 활용한 다중 오믹스 데이터 기반 암 드라이버 유전자 검출 모델.
문희범*, 한태현*, 박정호, 조겨리.
한국정보과학회 2023 한국소프트웨어종합학술대회 논문집, 2023 Dec, 1645-1647.
대규모 공개 데이터셋을 활용한 머신 러닝 회귀 모델의 약물 반응성 예측 성능 비교.
하수정, 조겨리.
한국정보과학회 2023 한국컴퓨터종합학술대회 논문집, 2023 Jun, 1136-1138.
다중선형회귀 모형을 이용한 피아노 즉흥연주와 재현연주에서의 전전두엽의 뇌활성도 분석.
박주호, 오민석, 유지원, 조겨리.
한국정보과학회 2023 한국컴퓨터종합학술대회 논문집, 2023 Jun, 1853-1855.
멀티 오믹스 데이터 및 생물학적 네트워크 정보를 이용한 드라이버 유전자 분류.
박정호, 조겨리.
한국정보처리학회 ASK2023 학술발표대회 논문집, 2023 May, 30(1):490-492.
