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Research Output 1997 2019

  • 1445 Citations
  • 18 h-Index
  • 70 Article
  • 36 Conference contribution
  • 1 Chapter
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Article
2019

A Neural Named Entity Recognition and Multi-Type Normalization Tool for Biomedical Text Mining

Kim, D., Lee, J., So, C. H., Jeon, H., Jeong, M., Choi, Y., Yoon, W., Sung, M. & Kang, J., 2019 Jan 1, In : IEEE Access. 7, p. 73729-73740 12 p., 8730332.

Research output: Contribution to journalArticle

Open Access
Web services
Information retrieval
Application programming interfaces (API)
Demonstrations

ARPnet: Antidepressant response prediction network for major depressive disorder

Chang, B., Choi, Y., Jeon, M., Lee, J., Han, K. M., Kim, A., Ham, B. J. & Kang, J., 2019 Nov, In : Genes. 10, 11, 907.

Research output: Contribution to journalArticle

Open Access
Major Depressive Disorder
Antidepressive Agents
Prescriptions
Neuroimaging
Health Care Costs
5 Citations (Scopus)

Assessment of network module identification across complex diseases

The DREAM Module Identification Challenge Consortium, 2019 Sep 1, In : Nature Methods. 16, 9, p. 843-852 10 p.

Research output: Contribution to journalArticle

Open Access
Genes
Benchmarking
Gene Regulatory Networks
Neoplasm Genes
Genome-Wide Association Study

Can Machines Learn to Comprehend Scientific Literature?

Park, D., Choi, Y., Kim, D., Yu, M., Kim, S. & Kang, J., 2019 Jan 1, In : IEEE Access. 7, p. 16246-16256 11 p., 8606080.

Research output: Contribution to journalArticle

Linguistics
Deep learning
2 Citations (Scopus)

CollaboNet: Collaboration of deep neural networks for biomedical named entity recognition

Yoon, W., So, C. H., Lee, J. & Kang, J., 2019 May 29, In : BMC Bioinformatics. 20, 249.

Research output: Contribution to journalArticle

Open Access
Named Entity Recognition
Neural Networks
Data Mining
Learning
Text Mining
12 Citations (Scopus)

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

AstraZeneca-Sanger Drug Combination DREAM Consortium, 2019 Dec 1, In : Nature communications. 10, 1, 2674.

Research output: Contribution to journalArticle

Open Access
Pharmacogenetics
Drug Combinations
drugs
cancer
predictions

CONFIGURE: A pipeline for identifying context specific regulatory modules from gene expression data and its application to breast cancer

Park, S., Hwang, D., Yeo, Y. S., Kim, H. & Kang, J., 2019 Jul 11, In : BMC Medical Genomics. 12, 97.

Research output: Contribution to journalArticle

Open Access
Regulator Genes
Breast Neoplasms
Gene Expression
Genes
RNA

Global stock market prediction based on stock chart images using deep q-network

Lee, J., Kim, R., Koh, Y. & Kang, J., 2019 Jan 1, In : IEEE Access. 7, p. 167260-167277 18 p., 8901118.

Research output: Contribution to journalArticle

Open Access
Profitability
Financial markets
Artificial intelligence
Neural networks
Liquids
2 Citations (Scopus)

Multipath-DenseNet: A Supervised ensemble architecture of densely connected convolutional networks

Lodhi, B. & Kang, J., 2019 May 1, In : Information Sciences. 482, p. 63-72 10 p.

Research output: Contribution to journalArticle

Object recognition
Multipath
Convolution
Ensemble
Neural networks

ParaFaceTest: An ensemble of regression tree-based facial features extraction for efficient facial paralysis classification

Barbosa, J., Seo, W. K. & Kang, J., 2019 Apr 25, In : BMC Medical Imaging. 19, 1, 30.

Research output: Contribution to journalArticle

Open Access
Facial Paralysis
Iris
Facial Expression
Sclera
Interpersonal Relations

ReSimNet: drug response similarity prediction using Siamese neural networks

Jeon, M., Park, D., Lee, J., Jeon, H., Ko, M., Kim, S., Choi, Y., Tan, A. C. & Kang, J., 2019 Dec 15, In : Bioinformatics (Oxford, England). 35, 24, p. 5249-5256 8 p.

Research output: Contribution to journalArticle

Chemical compounds
Drugs
Neural Networks
Neural networks
Prediction
2018
1 Citation (Scopus)

A pilot study of biomedical text comprehension using an attention-based deep neural reader: Design and experimental analysis

Kim, S., Park, D., Choi, Y., Lee, K., Kim, B., Jeon, M., Kim, J., Tan, A-C. & Kang, J., 2018 Jan 1, In : Journal of Medical Internet Research. 20, 1, e2.

Research output: Contribution to journalArticle

Research Design
PubMed
Literature
Neural Networks (Computer)
Datasets
5 Citations (Scopus)

BTNET: Boosted tree based gene regulatory network inference algorithm using time-course measurement data

Park, S., Kim, J. M., Shin, W., Han, S. W., Jeon, M., Jang, H. J., Jang, I. S. & Kang, J., 2018 Mar 19, In : BMC Systems Biology. 12, 20.

Research output: Contribution to journalArticle

Gene Regulatory Networks
Gene Regulatory Network
Benchmarking
Time measurement
Genes
6 Citations (Scopus)
Long-Term Memory
Short-Term Memory
neural networks
Genes
Neural networks
6 Citations (Scopus)

Classification of lung nodules in CT scans using three-dimensional deep convolutional neural networks with a checkpoint ensemble method

Jung, H., Kim, B., Lee, I., Lee, J. & Kang, J., 2018 Dec 3, In : BMC Medical Imaging. 18, 1, 48.

Research output: Contribution to journalArticle

Tomography
Lung
Lung Neoplasms
Learning
8 Citations (Scopus)

Deep learning of mutation-gene-drug relations from the literature

Lee, K., Kim, B., Choi, Y., Kim, S., Shin, W., Lee, S., Park, S., Kim, S., Tan, A-C. & Kang, J., 2018 Jan 25, In : BMC Bioinformatics. 19, 1, 21.

Research output: Contribution to journalArticle

Drugs
Mutation
Genes
Learning
Gene
2 Citations (Scopus)

DeepNAP: Deep neural anomaly pre-detection in a semiconductor fab

Kim, C., Lee, J., Kim, R., Park, Y. & Kang, J., 2018 Aug 1, In : Information Sciences. 457-458, p. 1-11 11 p.

Research output: Contribution to journalArticle

Anomaly
Semiconductors
Semiconductor materials
Recurrent neural networks
Labels
3 Citations (Scopus)

DeepPIM: A deep neural point-of-interest imputation model

Chang, B., Park, Y., Kim, S. & Kang, J., 2018 Oct 1, In : Information Sciences. 465, p. 61-71 11 p.

Research output: Contribution to journalArticle

Imputation
Learning systems
Model
Engineering
User Behavior
9 Citations (Scopus)

Detection of masses in mammograms using a one-stage object detector based on a deep convolutional neural network

Jung, H., Kim, B., Lee, I., Yoo, M., Lee, J., Ham, S., Woo, O. H. & Kang, J., 2018 Sep 1, In : PLoS One. 13, 9, e0203355.

Research output: Contribution to journalArticle

neural networks
detectors
Detectors
Neural networks
Weights and Measures
10 Citations (Scopus)

Drug drug interaction extraction from the literature using a recursive neural network

Lim, S., Lee, K. & Kang, J., 2018 Jan 1, In : PLoS One. 13, 1, e0190926.

Research output: Contribution to journalArticle

Drug interactions
drug interactions
Drug Interactions
neural networks
Neural networks
2 Citations (Scopus)

Exploring the molecular mechanisms of Traditional Chinese Medicine components using gene expression signatures and connectivity map

Yoo, M., Shin, J., Kim, H., Kim, J., Kang, J. & Tan, A-C., 2018 Jan 1, (Accepted/In press) In : Computer Methods and Programs in Biomedicine.

Research output: Contribution to journalArticle

Chinese Traditional Medicine
Transcriptome
Gene expression
Medicine
Drug Repositioning
1 Citation (Scopus)

Identification of novel susceptibility loci associated with hepatitis B surface antigen seroclearance in chronic hepatitis B

Kim, T. H., Lee, E. J., Choi, J. H., Yim, S. Y., Lee, S., Kang, J., Lee, Y. R., Lee, H. A., Choi, H. S., Kim, E-S., Keum, B., Seo, Y. S., Yim, H. J., Jeen, Y. T., Chun, H-J., Lee, H. S., Kim, C. D., Woo, H. G. & Um, S-H., 2018 Jul 1, In : PLoS One. 13, 7, e0199094.

Research output: Contribution to journalArticle

chronic hepatitis B
Chronic Hepatitis B
Surface Antigens
Hepatitis B Surface Antigens
surface antigens
5 Citations (Scopus)

In silico drug combination discovery for personalized cancer therapy

Jeon, M., Kim, S., Park, S., Lee, H. & Kang, J., 2018 Mar 19, In : BMC Systems Biology. 12, 16.

Research output: Contribution to journalArticle

Drug Combinations
Drug Discovery
Computer Simulation
Therapy
Drug therapy

In silico experiment system for testing hypothesis on gene functions using three condition specific biological networks

Lee, C. J., Kang, D., Lee, S., Lee, S., Kang, J. & Kim, S., 2018 Aug 1, In : Methods. 145, p. 10-15 6 p.

Research output: Contribution to journalArticle

Computer Simulation
Genes
Testing
Gene Knockout Techniques
Experiments
4 Citations (Scopus)

Mut2Vec: Distributed representation of cancerous mutations

Kim, S., Lee, H., Kim, K. & Kang, J., 2018 Apr 20, In : BMC Medical Genomics. 11, 33.

Research output: Contribution to journalArticle

Mutation
Learning
Protein Interaction Maps
Neoplasms
Data Mining
3 Citations (Scopus)

Systems pharmacology-based approach of connecting disease genes in genome-wide association studies with traditional Chinese medicine

Kim, J., Yoo, M., Shin, J., Kim, H., Kang, J. & Tan, A-C., 2018 Jan 1, In : International Journal of Genomics. 2018, 7697356.

Research output: Contribution to journalArticle

Genome-Wide Association Study
Chinese Traditional Medicine
Medicine
Genes
Association reactions
2017
29 Citations (Scopus)

ChimerDB 3.0: An enhanced database for fusion genes from cancer transcriptome and literature data mining

Lee, M., Lee, K., Yu, N., Jang, I., Choi, I., Kim, P., EunJang, Y., Kim, B., Kim, S., Lee, B., Kang, J. & Lee, S., 2017 Jan 1, In : Nucleic Acids Research. 45, D1, p. D784-D789

Research output: Contribution to journalArticle

Data Mining
Neoplasm Genes
Gene Fusion
Transcriptome
Data mining
10 Citations (Scopus)

Literature-based condition-specific miRNAmRNA target prediction

Oh, M., Rhee, S., Moon, J. H., Chae, H., Lee, S., Kang, J. & Kim, S., 2017 Mar 1, In : PLoS One. 12, 3, e0174999.

Research output: Contribution to journalArticle

MicroRNAs
microRNA
prediction
Genes
methodology
2016
22 Citations (Scopus)

BEST: Next-generation biomedical entity search tool for knowledge discovery from biomedical literature

Lee, S., Kim, D., Lee, K., Choi, J., Kim, S., Jeon, M., Lim, S., Choi, D., Kim, S., Tan, A-C. & Kang, J., 2016 Oct 1, In : PLoS One. 11, 10, e0164680.

Research output: Contribution to journalArticle

PubMed
Data mining
mutation
Mutation
Reaction Time
14 Citations (Scopus)

BRONCO: Biomedical entity Relation ONcology COrpus for extracting gene-variant-disease-drug relations

Lee, K., Lee, S., Park, S., Kim, S., Kim, S., Choi, K., Tan, A-C. & Kang, J., 2016, In : Database. 2016

Research output: Contribution to journalArticle

Oncology
processing technology
Natural Language Processing
Genes
drugs
1 Citation (Scopus)

CLIP-GENE: A web service of the condition specific context-laid integrative analysis for gene prioritization in mouse TF knockout experiments

Hur, B., Lim, S., Chae, H., Seo, S., Lee, S., Kang, J. & Kim, S., 2016 Oct 24, In : Biology Direct. 11, 1, 57.

Research output: Contribution to journalArticle

Transcription factors
Prioritization
prioritization
Transcription Factor
Web services
8 Citations (Scopus)

Efficient quantitative assessment of facial paralysis using iris segmentation and active contour-based key points detection with hybrid classifier

Barbosa, J., Lee, K., Lee, S., Lodhi, B., Cho, J-G., Seo, W. K. & Kang, J., 2016 Mar 12, In : BMC Medical Imaging. 16, 1, 23.

Research output: Contribution to journalArticle

Facial Paralysis
Iris
Facial Expression
Paralysis
Healthy Volunteers
8 Citations (Scopus)

HiPub: Translating PubMed and PMC texts to networks for knowledge discovery

Lee, K., Shin, W., Kim, B., Lee, S., Choi, Y., Kim, S., Jeon, M., Tan, A-C. & Kang, J., 2016 Sep 15, In : Bioinformatics. 32, 18, p. 2886-2888 3 p.

Research output: Contribution to journalArticle

Knowledge Discovery
PubMed
Data mining
Genes
Cells
4 Citations (Scopus)

Prioritizing biological pathways by recognizing context in time-series gene expression data

Lee, J., Jo, K., Lee, S., Kang, J. & Kim, S., 2016 Dec 23, In : BMC Bioinformatics. 17, 477.

Research output: Contribution to journalArticle

Gene Expression Data
Time Series Data
Gene expression
Time series
Pathway
2015
16 Citations (Scopus)

A bibliometric method for measuring the degree of technological innovation

Yeo, W., Kim, S., Park, H. & Kang, J., 2015 Jun 1, In : Technological Forecasting and Social Change. 95, p. 152-162 11 p.

Research output: Contribution to journalArticle

Bibliometrics
Inventions
Uncertainty
Innovation
Research
8 Citations (Scopus)

An integrated bioinformatics analysis to dissect kinase dependency in triple negative breast cancer

Ryall, K. A., Kim, J., Klauck, P. J., Shin, J., Yoo, M., Ionkina, A., Pitts, T. M., Tentler, J. J., Diamond, J. R., Eckhardt, S. G., Heasley, L. E., Kang, J. & Tan, A-C., 2015 Dec 9, In : BMC Genomics. 16, 12, S2.

Research output: Contribution to journalArticle

Triple Negative Breast Neoplasms
Computational Biology
Phosphotransferases
Cell Line
Pharmacology
12 Citations (Scopus)

Feasibility of using a mobile application for the monitoring and management of stroke-associated risk factors

Seo, W. K., Kang, J., Jeon, M., Lee, K., Lee, S., Kim, J. H., Oh, K. & Koh, S. B., 2015, In : Journal of Clinical Neurology (Korea). 11, 2, p. 142-148 7 p.

Research output: Contribution to journalArticle

Mobile Applications
Stroke
Glycosylated Hemoglobin A
Korea
Software
1 Citation (Scopus)

ICOSSY: An online tool for context-specific subnetwork discovery from gene expression data

Saha, A., Jeon, M., Tan, A-C. & Kang, J., 2015 Jul 6, In : PLoS One. 10, 7, e0131656.

Research output: Contribution to journalArticle

Gene expression
Phenotype
Gene Expression
phenotype
gene expression
11 Citations (Scopus)

Identifying kinase dependency in cancer cells by integrating high-throughput drug screening and kinase inhibition data

Ryall, K. A., Shin, J., Yoo, M., Hinz, T. K., Kim, J., Kang, J., Heasley, L. E. & Tan, A-C., 2015 Jun 18, In : Bioinformatics. 31, 23, p. 3799-3806 8 p.

Research output: Contribution to journalArticle

Preclinical Drug Evaluations
High Throughput
Screening
Cancer
Drugs
2014
11 Citations (Scopus)

Aggregative and stochastic model of main path identification: A case study on graphene

Yeo, W., Kim, S., Lee, J. M. & Kang, J., 2014 Jan 1, In : Scientometrics. 98, 1, p. 633-655 23 p.

Research output: Contribution to journalArticle

Stochastic models
Graphene
Markov processes
Trajectories
path analysis
9 Citations (Scopus)

Automatic context-specific subnetwork discovery from large interaction networks

Saha, A., Tan, A-C. & Kang, J., 2014 Jan 1, In : PLoS One. 9, 1, e84227.

Research output: Contribution to journalArticle

Genes
Biological Phenomena
Gene Regulatory Networks
Phenotype
genes
6 Citations (Scopus)

BEReX: Biomedical entity-relationship explorer

Jeon, M., Lee, S., Lee, K., Tan, A-C. & Kang, J., 2014 Jan 1, In : Bioinformatics. 30, 1, p. 135-136 2 p.

Research output: Contribution to journalArticle

Databases
Information Services
Bioinformatics
Korea
Computational Biology
17 Citations (Scopus)

Bioinformatics-driven discovery of rational combination for overcoming EGFR-mutant lung cancer resistance to EGFR therapy

Kim, J., Vasu, V. T., Mishra, R., Singleton, K. R., Yoo, M., Leach, S. M., Farias-Hesson, E., Mason, R. J., Kang, J., Ramamoorthy, P., Kern, J. A., Heasley, L. E., Finigan, J. H. & Tan, A-C., 2014 Sep 1, In : Bioinformatics. 30, 17, p. 2393-2398 6 p.

Research output: Contribution to journalArticle

Lung Cancer
Growth Factors
Bioinformatics
Computational Biology
Epidermal Growth Factor Receptor
2 Citations (Scopus)

Development of Test Toolkit of Hard Review to Evaluate a Random Clinical Decision Support System for the Management of Chronic Adult Diseases

Ahn, J. T., Park, G-H., Son, J., Lim, C. S., Kang, J., Cha, J., Park, K. & Kim, D. M., 2014 May 24, (Accepted/In press) In : Wireless Personal Communications.

Research output: Contribution to journalArticle

Decision support systems
Public health
Medical problems
Human engineering
Screening
46 Citations (Scopus)

DSigDB: Drug signatures database for gene set analysis

Yoo, M., Shin, J., Kim, J., Ryall, K. A., Lee, K., Lee, S., Jeon, M., Kang, J. & Tan, A-C., 2014 Jul 31, In : Bioinformatics. 31, 18, p. 3069-3071 3 p.

Research output: Contribution to journalArticle

Pharmaceutical Databases
Drugs
Signature
Genes
Gene
2013
4 Citations (Scopus)

A quantitative approach to recommend promising technologies for SME innovation: A case study on knowledge arbitrage from LCD to solar cell

Yeo, W., Kim, S., Coh, B. Y. & Kang, J., 2013 Aug 1, In : Scientometrics. 96, 2, p. 589-604 16 p.

Research output: Contribution to journalArticle

small and medium-sized enterprise
Liquid crystal displays
Solar cells
Innovation
innovation
3 Citations (Scopus)

Comparative meta-analysis between human and mouse cancer microarray data reveals critical pathways

Chopra, P., Kang, J. & Hong, S. M., 2013 Sep 11, In : International Journal of Data Mining and Bioinformatics. 8, 3, p. 349-365 17 p.

Research output: Contribution to journalArticle

Critical Pathways
Microarrays
Ontology
Meta-Analysis
Cations
15 Citations (Scopus)

K-Map: Connecting kinases with therapeutics for drug repurposing and development

Kim, J., Yoo, M., Kang, J. & Tan, A-C., 2013 Jan 1, In : Human Genomics. 7, 1, 20.

Research output: Contribution to journalArticle

Drug Repositioning
Phosphotransferases
Therapeutics
Protein Kinases
Eukaryotic Cells

Mining botnets and their evolution patterns

Choi, J., Kang, J., Lee, J., Song, C., Jin, Q., Lee, S. & Uh, J., 2013 Jul 1, In : Journal of Computer Science and Technology. 28, 4, p. 605-615 11 p.

Research output: Contribution to journalArticle

Spamming
Long Term Evolution (LTE)
Spam
Electronic mail
Computer networks
6 Citations (Scopus)

On the efficacy of per-relation basis performance evaluation for PPI extraction and a high-precision rule-based approach

Lee, J., Kim, S., Lee, S., Lee, K. & Kang, J., 2013 Apr 12, In : BMC Medical Informatics and Decision Making. 13, SUPPL1, S7.

Research output: Contribution to journalArticle

Proteins
Research