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CURRENT POSITIONS
Distinguished Research Fellow, Institute of Statistical Science, Academia Sinica
Adjoint Professor of Biostatistics, Vanderbilt University Medical Center
Secretary-General, Academia Sinica
President, Chinese Statistical Association (Taiwan)
Immediate Past-President, International Association for Statistical Computing (IASC)
CONTACT INFORMATION
| Address: |
128 Academia Road Sec.2, Nankang, Taipei 115, Taiwan |
| Office: |
Room 209 |
| Telephone: |
+886 2 27835611 ext 407 |
| Facsimile: |
+886 2 27886833 |
| Email: |
cchen@stat.sinica.edu.tw |
| URL: |
gap.stat.sinica.edu.tw/ |
EDUCATION
| 1987 - 1992 |
Ph.D. |
Department of Mathematics (Program in Statistics) |
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University of California, Los Angeles |
USA |
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| 1987 - 1990 |
M.S. |
Department of Mathematics (Program in Statistics) |
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University of California, Los Angeles |
USA |
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| 1980 - 1984 |
B.S. |
Department of Statistics |
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National Chung-Hsing University |
Taiwan |
RESEARCH INTERESTS
Biobanking, Bioinformatics
Data/Information/Matrix Visualization
Dimension Reduction
Multivariate Statistical Methods
Pattern Recognition
SCIENTOMETRICS
Google Scholar (as of November 2025): https://scholar.google.com/citations?user=Ua8lkosAAAAJ&hl=en
- Citations: 6,445 (1,738 since 2020)
- h-index: 35 (20 since 2020)
- i10-index: 62 (41 since 2020)
ORCID ID: https://orcid.org/0000-0003-0899-7477
PROFESSIONAL EXPERIENCE
| 2025 - present |
Distinguished Research Fellow, Institute of Statistical Science, Academia Sinica,
Taipei, Taiwan |
| 2025 - present |
Adjoint Professor of Biostatistics, Vanderbilt University Medical Center |
| 2024 - present |
Secretary-General, Academia Sinica,
Taipei, Taiwan |
| 2019 - present |
Co-Principal Investigator, Taiwan Precision Medicine Initiative, Academia Sinica,
Taipei, Taiwan |
| 2011 - 2025 |
Research Fellow, Institute of Statistical Science, Academia Sinica,
Taipei, Taiwan |
| 2023 - 2024 |
Deputy Secretary-General, Academia Sinica,
Taipei, Taiwan |
| 2017 - 2023 |
Director, Institute of Statistical Science, Academia Sinica,
Taipei, Taiwan |
| 2017 - 2023 |
Co-Director, Data Science Degree Program, National Taiwan University and Academia Sinica,
Taipei, Taiwan |
| 2019 - 2022 |
Co-Principal Investigator, Taiwan Biobank,
Taipei, Taiwan |
| 2016 - 2017 |
Director, Department of Academic Affairs and Instrument Service, Academia Sinica,
Taipei, Taiwan |
| 2012 – 2016 |
Deputy Director, Institute of Statistical Science, Academia Sinica, Taipei, Taiwan |
| 2002 - 2011 |
Associate Research Fellow, Institute of Statistical Science, Academia Sinica, Taipei, Taiwan |
| 2007 - 2010 |
Adjunct Associate Professor, Institute of Statistics, National Central University, Jhongli, Taiwan |
| 2005 - 2010 |
Core Faculty Member, Bioinformatics Ph.D. Program,
Taiwan International Graduate Program, Academia Sinica, Taipei, Taiwan |
| 1993 - 2002 |
Assistant Research Fellow, Institute of Statistical Science, Academia Sinica, Taipei, Taiwan |
| 1998 - 1999 |
Adjunct Assistant Professor, Graduate Institute of Epidemiology,
College of Public Health, National Taiwan University, Taipei, Taiwan |
| 1994 - 1995 |
Adjunct Associate Professor, Institute of Mathematical Statistics,
National Chung-Cheng University, Chia-Yi, Taiwan |
| 1992 - 1993 |
Assistant Professor, Department of Statistics/Computer and Information Systems, George Washington University, Washington, D.C., U.S.A. |
EDITORIAL AND OTHER ACADEMIC SERVICES
Academic Society:
International
- President, International Association for Statistical Computing (IASC) (2023 - 2025)
- Council Member, The International Statistical Institute (ISI) (2015 - 2019)
- Chairperson, The Asian Regional Section (ARS) of The International Association for Statistical Computing (IASC) (2013 - 2015)
National
- President, the Chinese Statistical Association (Taiwan) (CSAT) (2023 - 2026)
- President, the Chinese Institute of Probability and Statistics (CIPS) (2013 - 2016)
Administrative Contributions at Academia Sinica:
Key Leadership Roles
- Secretary-General, AS (2024 - present)
- Deputy Secretary-General, AS (2023 - 2024)
- Director, Institute of Statistical Science (ISS), AS (2017 - 2023)
- Director, Department of Academic Affairs and Instrument Service (DAAIS), AS (2016 - 2017)
- Deputy Director, ISS, AS (2012 - 2016)
Editorships:
- Associate Editor, Computational Statistics (2004 - 2020)
- Associate Editor, Computational Statistics and Data Analysis (2004 - 2018)
- Associate Editor, Journal of the Japan Statistical Society (2013 - 2016)
- Statistics Consultant, Taiwanese Journal of Psychiatry (1996 - 2000)
- Associate Editor, BMC (BioMed Central) Research Notes (2008 - 2016)
- Associate Editor, Statistica Sinica (2005 - 2008)
- Associate Editor, Journal of the Korean Statistical Society (2002 - 2005)
International Conference Organizer:
Conference Chairman
- The 9th Conference of the Asian Regional Section of the IASC, December 17th ~ 19th, 2015, Singapore.
- Statistical Computing Asia 2015, July 1~2, 2015, Taipei, Taiwan.
- The 4th Workshop in Symbolic Data Analysis (SDA 2014), June 13th ~ 16th, 2014, Taipei, Taiwan.
- ISI-ISM-ISSAS (Indian Statistical Institute, Institute of Statistical Mathematics, Institute of Statistical Science, Academia Sinica) Joint Conference 2013, January 31st ~ February 1st, 2013, Taipei, Taiwan.
- Joint Meeting of the 2011 Taipei International Statistical Symposium and 7th Conference of the Asian Regional Section of the IASC (Joint2011), December 16th ~ 19th, 2011, Taipei, Taiwan.
- Statistical Computation and Visualization 2008 (SCV2008), December 1st ~ 3rd, 2008, Taipei, Taiwan.
Member of International Organizing Committee
- Joint Meeting of the IASC Satellite Conference for the 59th ISI WSC and the 8th Conference of IASC-ARS, Seoul, Korea (2013).
Consultative Members
- Joint Meeting of 10th Asian Regional Section (ARS) of the International Association for Statistical Computing (IASC) and the NZ Statistical Association (NZSA), December 10th ~ 14th, 2017, Auckland, New Zealand.
- The 22nd International Conference on Computational Statistics (CompStat2016), August 23rd ~ 26th, 2016, Oviedo, Spain. (Consultative Member of SPC).
- International conference on mathematics, statistics, and financial mathematics 2014 (ICMSFM2014) with IASC-ARS sessions, Petaling Jaya, Malaysia.
Member of Scientific Program Committee (SPC)
- IX Latin American Conference on Statistical Computing (LACSC 2025), November 3-7, 2025, Valparaíso, Chile.
- Symbolic Data Analysis Workshop 2025 (SDA 2025), June 9-11, 2025, Varaždin, Croatia.
- 2024 IMS International Conference on Statistics and Data Science (ICSDS), December 16-19, 2024, Nice, France.
- VIII Latin American Conference on Statistical Computing (LACSC), July 15-19, 2024, San José, Costa Rica.
- The International Symposium on Business and Industrial Statistics (ISBIS 2024), July 11-13, 2024, Special Region of Yogyakarta, Indonesia.
- Symbolic Data Analysis Workshop 2023 (SDA 2023), November 2-4, 2023, Cnam (Conservatoire National des Arts et Métiers). rue Saint Martin 292 Paris.
- IASC-ARS Interim Conference "The Interplay between Statistical Computing and AI," December 12-13, 2022, Education University of Hong Kong, Hong Kong.
- Symbolic Data Analysis Workshop 2022 (SDA 2022), September 7-8 2022, Caserta, Italy.
- Data Science, Statistics and Visualisation 2022 (DSSV 2022), June 27-29, 2022, National Cheng Kung University, Tainan, Taiwan.
- 2022 IMS International Conference on Statistics and Data Science (ICSDS), December 13-16, 2022, Florence, Italy.
- Data Science, Statistics and Visualisation 2021 (DSSV2021), July 7-9, 2021, Erasmus University Rotterdam, The Netherlands.
- The 16th IMT-GT International Conference on Mathematics, Statistics and their Applications (ICMSA 2020), 23 & 24 November 2020 in Klang Valley, Malaysia.
- 2020 Symbolic Data Analysis Workshop (SDA2020), June 11-12, 2020, Caserta, Italy.
- Data Science, Statistics and Visualisation (DSSV2018), July 9-11, 2018, Vienna University of Technology, Austria.
- The 61st World Statistics Congress (ISI2017), July 16th ~ 21st, 2017, Marrakech, Morocco. (Vice-Chair of SPC).
- The 5th Workshop in Symbolic Data Analysis (SDA 2015), November 17th ~ 19th, 2015, Orléans, France.
- IASC Satellite Conference 2015: Statistical Computing for Data Science, August 2nd ~ 4th, 2015, Búzios, Brazil.
- 2014 Computer Graphics Workshop (CGW 2014), Taipei, Taiwan (2014).
- The International Statistical Institute Regional Statistics Conference 2014 (ISI-RSC 2014), Kuala Lumpur, Malaysia (2014).
- 2013 Computer Graphics Workshop (CGW 2013), Hsin-chu, Taiwan (2013).
- The 2013 ICSA International Conference, Hong Kong (2013)
- 2012 Computer Graphics Workshop (CGW 2012), Puli, Taiwan (2012)
- The 4th IEEE Pacific Visualization Symposium, Hong Kong (2011)
- 2011 Computer Graphics Workshop (CGW 2011), Taipei, Taiwan (2011)
- The 3rd IEEE Pacific Visualization Symposium, Taipei, Taiwan (2010)
- Joint meeting of 4th World Conference of IASC and 6th Conference of IASC-ARS, Yokohama, Japan (2008)
- The IASC-ARS Special Conference, Seoul, Korea (2007)
- Workshop on Data and Information Visualization, Berlin, Germany (2006)
- The 4th Conference of IASC-ARS, Busan, Korea (2002)
TEACHING
Statistical Graphics and Data Visualization, Multivariate Analysis, Statistical Computing
GRADUATE STUDENTS AND POSTDOCTORAL FELLOWS
Graduated Master Students: 4, Ph.D. Students: 2, Postdoctoral Fellows: 15.
RESEARCH FUNDING
- PI, National Science and Technology Council (NSTC) individual projects: (2022-2026).
- PI, Ministry of Science and Technology (MOST) individual projects: (2012-2022).
- PI, Core Facility Component Project of Department of Life Sciences , National Science Council (NSC100-2319-B-010-002) (2011/05/01 - 2012/04/30): "Bioinformatics Consortium of Taiwan: Genomic Statistics for Life Science Studies Unit".
- PI, Core Facility Component Project of National Research Program for Genomic Medicine (NRPGM), NSC (2008/05/01-2011/04/30): "Advanced bioinformatics core: Genomic Statistics for Complex Diseases".
- PI, Program Project of Genomic and Proteomic Program, Academia Sinica (2005/01/01-2007/12/31): "Bioinformatic Study of Yeast Cis-regulatory Elements and Circuits".
- PI, Program Project of Academia Sinica Theme Project (2002/01/01-2004/12/31): "Information Visualization of Bioinformatics" in "Development of Knowledge-based Human Biology Databases".
- PI, National Science Council (NSC) individual projects: (1994-2008).
ACADEMIC VISITING
- Department of Statistics, The University of Auckland, Auckland, New Zealand.
- Network Information System Laboratory, Doshisha University, Kyoto, Japan.
- Department of Statistics and Applied Probability, National University of Singapore, Singapore.
- Department of Prob. and Mathematical Statistics, Charles University in Prague, Czech Republic.
- Center for Applied Statistics and Economics, Humboldt-Universität zu Berlin, Germany.
- Institute of Mathematical Statistics, Tokyo, Japan.
- Department of Statistics, SungKyunKwan University, Korea.
- Department of Statistics, Pukyong National University, Korea.
- National Center of Toxicology Research, Little Rock, Arkansas, USA.
MAJOR AWARDS AND HONORS
- Presented a Keynote Lecture at the 2019 Taiwan Econometric Research Annual Conference, Taipei, Taiwan (2019): "Matrix Visualization with Applications"
- Presented a Keynote Lecture at the 2014 Korean Statistical Society Fall Conference, Seoul, Korea (October 31st ~ November 1st, 2014): "Matrix Visualization: New Generation of Exploratory Data Analysis"
- ISI (The International Statistical Institute) Member, 2011.
- Presented the Opening Keynote Lecture at the 16th Symposium of International Association for Statistical Computing (COMPSTAT 2004) at Prague, Czech Republic (August 23-27, 2004): "Matrix Visualization and Information Mining.
SELECTED INVITED INTERNATIONAL PRESENTATIONS (Since 2004)
Keynote/Plenary Lectures:
International
- Keynote Lecture: "Matrix Visualization and Exploratory Data Analysis," IX Latin American Conference on Statistical Computing (LACSC 2025), Valparaíso, Chile (2025).
- Keynote Lecture: "Categorical and Cartographical Matrix Visualization," The 13th conference of the Asian Regional Section of the International Association for Statistical Computing, Ho Chi Minh City, Vietnam (2025).
- Keynote Lecture: "Statistical Computing and Artificial Intelligence: A Smart Health Project as An Example," IASC-ARS Interim Conference 2022, The Education University of Hong Kong, Hong Kong (2022).
- Banquet Speech: Symposium in honor of Professor Higuchi's retirement from the director-general of The Institute of Statistical Mathematics. Hitotsubashi Hall, National Center of Sciences Building, Tokyo, Japan (2019).
- Banquet Speech: The IASC-ARS 25th Anniversary Conference and the CASC 2nd Annual Conference. Beijing, China (2018).
- Keynote Lecture: "Matrix Visualization: New Generation of Exploratory Data Analysis," 2014 Korean Statistical Society Fall Conference, Seoul, Korea (2014).
- Plenary Talk: "Visualization of Publication Profile for A Statistician," Applicable Semiparametrics, Humboldt-Universität zu Berlin, Germany (2013).
- NCTR Center Seminar Talk: "A Brave New World of Biomedical Sciences: Statistics and Visualization," National Center for Toxicological Research, FDA, USA (2012).
- Keynote Lecture: "Visual information mining of high-dimensional data structure with generalized association plots," Symposium on Large-scale Data Linkage, Data Mining and Statistical Methods, Tokyo, Japan (2008).
- NCTR Center Seminar Talk: "Visualization and Information Mining for High Dimensional Biomedical Data," National Center for Toxicological Research, FDA, USA (2005).
- Opening Keynote Lecture: "Dimension Free Data Visualization and Information Mining", 16th Symposium of International Association for Statistical Computing (COMPSTAT 2004), Prague, Czech Republic (2004).
Domestic
- Keynote Lecture: "Matrix Visualization," The 34th South Taiwan Statistical Conference and the 2025 Annual Conference of the Chinese Institute of Probability and Statistics (CIPS), Taipei, Taiwan (2025).
- Keynote Lecture: "Matrix Visualization with Applications," 2019 Taiwan Econometric Society Annual Conference, Taipei, Taiwan (2019).
Invited Workshops (at least 3-hour lecture):
- Statistical Graphics and Data Visualization, Indian Statistical Institute, Kolkata, India (2020).
- Statistical Graphics and Data Visualization, Waseda University, Tokyo (2019).
- Two-day Workshop on "Matrix Visualization: Approaching Statistics and Statistical Approach," Institute for Statistics und Econometrics, Humboldt-Universität zu Berlin, Germany (2014).
- Ph.D. Course on "Matrix Visualization: Approaching Statistics and Statistical Approach," Charles University in Prague, Czech Republic (2013).
- Two-month Workshop on "Some Extensions and Applications of Matrix Visualization Using GAP," Institute of Statistical Mathematics, Tokyo, Japan (2011).
- Information Visualization for High Dimensional Data:the Matrix Visualization Approach, Section on Statistical Computation, Korean Statistical Society, Korea, Seoul, Korea (2009).
- Information Visualization for High Dimensional Data:the Matrix Visualization Approach, Busan & Kyungnam Branch of the Korean Statistical Society, Busan, Korea (2009).
- Information Visualization for High Dimensional Biomedical Data: the Matrix Visualization Approach, International Conference of Bioinformatics (InCoB), Taipei, Taiwan (2008).
- High dimensional data visualization: the matrix visualization approach, International Conference on the Frontiers of Statistics, Kunming, China (2007).
- Tutorial on Matrix Visualization and Information Mining, The Fourth Asia Pacific Bioinformatics Conference, Taipei, Taiwan (2006).
- GAP: Generalized Association Plots for Dimension Free Data Visualization, The 5th IASC Asian Conference on Statistical Computing, Hong Kong (2005).
- Two-day Workshop on "Dimension Free Data Visualization and Information Mining," Institute of Statistical Mathematics, Tokyo, Japan (2004).
- Data- and Information visualization: Generalized Association Plots, Institute for Statistics und Econometrics, Humboldt-Universität zu Berlin, Germany (2004).
Invited Talks (Selected list from 2000 onward):
- Data Science, Statistics and Big Health Data, Prof. Toshinari Kamakura's Retirement Commemoration Symposium, 18 March 2024, Okinawa, Japan.
- Data Science and Statistics: A Smart Health Project as An Example, 64th ISI World Statistics Congress 2023, 17 July 2023, Ottawa, Canada.
- iGAPdb: A Matrix Visualization Database for Interval-valued Symbolic Data Sets, 8th Workshop on Symbolic Data Analysis (SDA2022), September 7-8, 2022, University of Campania L. Vanvitelli, Italy.
- cGAPdb: A matrix visualization database for categorical data sets, 24th International Conference on Computational Statistics (CompStat 2022), August 23-26, 2022, University of Bologna, Italy.
- Matrix Visualization for Big Data, Indian Statistical Institute, Kolkata, India (2020).
- Matrix Visualization: New Generation of Exploratory Data Analysis, Waseda University, Tokyo (2019).
- Matrix Visualization: New Generation of Exploratory Data Analysis, Universiti Tunku Abdul Rahman (UTAR), Kuala Lumpur, Malaysia (2019).
- Examples of matrix visualization for exploratory data analysis (EDA), The International Statistical Institute Regional Statistics Conference 2014 (ISI-RSC 2014), Kuala Lumpur, Malaysia (2014).
- Exploratory Data Analysis of Interval-valued Symbolic Data with Matrix Visualization, International conference on mathematics, statistics, and financial mathematics 2014 (ICMSFM2014) with IASC-ARS sessions, Petaling Jaya, Malaysia (2014).
- Matrix Visualization: Approaching Statistics and Statistical Approach, Korean National Open University, Seoul, Korea (2014).
- Some Extensions of Matrix Visualization: the GAP Approach, Seoul National University, Seoul, Korea (2014).
- Matrix Visualization for Health Statistics: Phenotype, Environtype, and Genotype, 5th Asia-Pacific Conference on Public Health, Seoul, Korea (10-11 April, 2014).
- Covariate-adjusted matrix visualization via correlation decomposition, Charles University in Prague, Czech Republic (2013).
- Matrix Visualization for Symbolic Data Analysis, The Technical University of Liberec, Czech Republic (2013).
- Matrix Visualization for High-Dimensional Data with a Cartography Link, Palacký University, Czech Republic (2013).
- Matrix visualization for high-dimensional categorical data structure, Masaryk University, Czech Republic (2013).
- Matrix Visualization: Approaching Statistics and Statistical Approach, National University of Singapore (Singapore) (2012).
- Matrix Visualization with Biomedical Research Applications, East Asia Regional Biometric Conference 2012, Seoul, Korea (2012).
- Matrix Visualization: Approaching Statistics and Statistical Approach, The 58th World Statistics Congress of the International Statistical Institute (ISI2011), Dublin, Ireland (2011).
- Matrix Visualization for Symbolic Data Analysis, 2nd Workshop in Symbolic Data Analysis, University of Namur, Namur, Belgium (2011).
- Matrix Visualization for High-Dimensional Categorical Data Structure with a Cartography Link, International Workshop on Information System for Social Innovation, Institute of Statistical Mathematics, Tokyo, Japan (2011).
- Matrix Visualization and its Extension to Symbolic Data Analysis, シンボリックデータ解析に関する講演会, Hokkaido University, Sapporo, Japan (2011).
- Matrix visualization with applications: EDA for the 21st century, Chinese Week of Humboldt-Universität zu Berlin, Humboldt-Universität zu Berlin, Berlin, Germany (2010).
- Matrix visualization with applications: EDA (exploratory data analysis) for the 21st century", Sungkyunkwan University, Suwon, Korea (2010).
PUBLICATION
Refereed Journal Articles:
- Yang, H. C., Kwok, P. Y., Li, L. H., Liu, Y. M., Jong, Y. J., Lee, K. Y., ..., Wu, M. S., Pang, S. T., Chen, S. A., Chen, W. M., Chen, C. H., Sheu, W. H. H., Wu, J. Y. (2025), The Taiwan Precision Medicine Initiative: A Cohort for Large-Scale Studies, Nature. (link)
- Chen, H. H., Chen, C. H., Hou, M. C., Fu, Y. C., ..., Chen, C. H., ..., Sheu, W. H. H., Yang, S. F., Liou, J. M., Wang, J. Y., Chiou, J. F., Wu, J. Y., Fann, C. S. J. (2025), Population-Specific Polygenic Risk Scores Developed for the Han Chinese, Nature. (link)
- Wei, C. Y., Wen, M. S., Cheng, C. K., Sheen, Y. J., Yao, T. C., Lee, S. L., ..., Chen, C. H., Chien, C. C., Chiang, H. S., Chiu, Y. L., Chen, H. C., Kwok, P. Y. (2025), Clinical Impact of Pharmacogenetic Risk Variants in a Large Chinese Cohort, Nature Communications. (link)
- Chi, I. J., Tsai, S. J., Chen, C. H., Yang, A. C. (2025), Identifying Distinct Developmental Patterns of Brain Complexity in Autism: A Cross-Sectional Cohort Analysis Using the Autism Brain Imaging Data Exchange, Psychiatry and Clinical Neurosciences. https://doi.org/10.1111/pcn.13780
- Huang, Y. J., Chen, C. H., Yang, H. C. (2024), AI-Enhanced Integration of Genetic and Medical Imaging Data for Risk Assessment of Type 2 Diabetes, Nature Communications 15, 4230. https://doi.org/10.1038/s41467-024-48618-1
- Yen, T. J., Yang, C. T., Lee, Y. J., Chen, C. H., Yang, H. C. (2024), Fatty liver classification via risk controlled neural networks trained on grouped ultrasound image data, Scientific Reports 14, 7345. https://doi.org/10.1038/s41598-024-57386-3
- Ashouri, M., Shmuel, G., Chen, C. H., Phoa, K. H. (2023), An interactive clustering-based visualization tool for air quality data analysis, Aerosol and Air Quality Research 23(12). DOI: 10.4209/aaqr.230124
- Huang, H. L., Huang, Y. J., Chu, Y. C., Chen, C. W., Yang, H. C., Hwang, J. S., Chen, C. H., Chan, T. C. (2023), Exploring factors underlying poorly-controlled asthma in adults by integrating phenotypes and genotypes associated with obesity and asthma: a case-control study, Journal of Asthma and Allergy 16:135-147. DOI: 10.2147/JAA.S397067
- Chen, Y., Koch, T., Zakiyeva, N., Liu, K. L., Xu, Z. T., Chen, C. H., Nakano, J., Honda, K. (2023), Article's scientific prestige: Measuring the impact of individual articles in the web of science, Journal of Informetrics 17(1):101379.
- Huang, Y. J., Chu, Y. C., Chen, C. W., Yang, H. C., Huang, H. L., Hwang, J. S., Chen, C. H., Chan, T. C. (2022), Relationship among genetic variants, obesity traits and asthma in the Taiwan Biobank, BMJ Open Respiratory Research 9:e001355. DOI: 10.1136/bmjresp-2022-001355
- Yang, H. C., Wang, J. H., Yang, C. T., Lin, Y. C., Hsieh, H. N., Chen, P. W., Liao, H. C., Chen, C. H., Liao, J. C. (2022), Subtyping of major SARS-CoV-2 variants reveals different transmission dynamics based on 10 million genomes, PNAS Nexus, pgac181. https://doi.org/10.1093/pnasnexus/pgac181
- Kuo, Y. H., Chou, C. K., Fujiwara, T., Chen, C. H., Ma, K. L. (2022), Visual Analytics of Air Pollution Data with Machine-Learning-Aided Analysis Workflows, The 15th IEEE Pacific Visualization Symposium (IEEE PacificVis 2022). DOI: 10.1109/PacificVis53943.2022.00018
- Kwon, O. H., Kao, C. H., Chen, C. H., Ma, K. L. (2022), A Deep Generative Model for Reordering Adjacency Matrices, IEEE Transactions on Visualization and Computer Graphics. DOI: 10.1109/TVCG.2022.3153838
- Yang, H. C., Chen, C. H., Wang, J. H., Liao, H. C., Yang, C. T., Chen, C. W., Lin, Y. C., Kao, C. H., Lu, M. Y. J., and Liao, J. C. (2020), Analysis of genomic distributions of SARS-CoV-2 reveals a dominant strain type with strong allelic associations, Proceedings of the National Academy of Sciences Nov 2020, 202007840; DOI: 10.1073/pnas.2007840117.
- Wu, H. M., Kao, C. H., and Chen, C. H.* (2020), Dimension reduction and visualization of symbolic interval-valued data using sliced inverse regression, Advances in Data Science: Symbolic, Complex and Network Data, Diday E, Guan R, Saporta G, Wang H (eds). London: Wiley-ISTE, 49-78.
- Wu, H. M, Tien, Y. J., Ho, M. R., Hwu, H. G., Lin, W. C., Tao, M. H., Chen, C. H.* (2018), Covariate-adjusted heatmaps for visualizing biological data via correlation decomposition, Bioinformatics, 34(20), 3529–3538.
- Yang, H. C., Chen, I. C., Tsay, Y. C., Li, Z. R., Chen, C. H., Hwu, H. G., and Chen, C. H. (2017), Using an Event-History with Risk-Free Model to Study the Genetics of Alcoholism, Scientific Reports, 7: 1975.
- Chatla, S.B., Chen, C. H., Shmuéli, G. (2017), Selected topics in statistical computing, Encyclopedia with Semantic Computing and Robotic Intelligence, March 2017, Vol. 01, No. 01, World Scientific Publishing Company.
- Kuo, Y. L., Chen, C. H., Chuang, T. H., Hua, W. K., Lin, W. J., Hsu, W. H., Chang, P. M. H., Hsu, S. L., Huang, T. H., Kao, C. Y., Huang, F. C. Y. (2015), Gene expression profiling and pathway network analysis predicts a novel anti-tumor function for a botanical-derived drug, PG2, Evidence-Based Complementary and Alternative Medicine (eCAM), 2015, Article ID 917345.
- Huang, C. C., Tien, Y. J., Chen, M. J., Chen, C. H., Ho, H. N., Yang, Y. S. (2015) Symptom patterns and phenotypic subgrouping of women with polycystic ovary syndrome: Association between endocrine characteristics and metabolic aberrations, Human Reproduction, 30(4), 937–946.
- Chen, T. C., Lin, K. T., Chen, C. H., Lee, S. A., Lee, P. Y., Liu, Y. W., Kuo, Y. L., Wang, F. S., Lai, J. M., Huang, F. C. Y. (2014), Using an in Situ Proximity Ligation Assay to Systematically Profile Endogenous Protein−Protein Interactions in a Pathway Network, Journal of Proteome Research, 2014, 13, 5339−5346.
- Kao, C. H., Nakano, J., Shieh, S. H., Tien, Y. J., Wu, H. M., Yang, C. K., and Chen, C. H.* (2014). Exploratory data analysis of interval-valued symbolic data with matrix visualization, Computational Statistics and Data Analysis, 79 (2014), 14-29.
- Chien, W. H., Gau, S. S. F., Chen, C. H., Tsai, W. C., Wu, Y. Y., Chen, P. H., Shang, C. Y., Chen, C. H. (2013) Increased gene expression of FOXP1 in patients with autism spectrum disorders. Molecular Autism, 4:23.
- Yang, H. C., Liu, C. M., Liu, Y. L., Chen, C. W., Chang, C. C., Fann, C. S. J., Chiou, J.-J., Yang, Y. C., Chen, C. H., Faraone, S. V., Tsuang, M. T. and Hwu, H. G. (2013). The DAO Gene Is Associated with Schizophrenia and Interacts with Other Genes in the Taiwan Han Chinese Population. PLoS ONE, 8:3.
- Chen, Y. C., Tien, Y. J., Chen, C. H., Beltran, F. N., Amor, E. C., Wang, R. J., Wu, D. J., Mettling, C., Lin, Y. L., and Yang, W. C. (2013). Morus alba and active compound oxyresveratrol exert anti-inflammatory activity via inhibition of leukocyte migration involving MEK/ERK signaling. BMC Complementary and Alternative Medicine, 13:45.
- Liu, C. H., Chen, T. C., Chau, G. Y., Jan, Y. H., Chen, C. H., Hsu, C. N., Lin, K. T., Juang, Y. L., Lu, P. J., Cheng, H. C., Chen, M. H., Chang, C. F., Ting, Y. S., Kao, C. Y., Hsiao, M., and Huang, F. C. Y. (2013). An analysis of protein-protein interactions in cross-talk pathways reveals CRKL as a novel prognostic marker in hepatocellular carcinoma. Molecular and Cellular Proteomics, 12, 1335-1349.
- Liu, C. C., Tien, Y. J., Chen, C. H., Chiu, Y. N., Chien, Y. L., Hsieh, M. H., Liu, C. M., Hwang, T. J., and Hwu, H. G. (2013). Development of a brief self-report questionnaire for screening putative pre-psychotic states. Schizophrenia Research, 143(1), 32-37.
- Yang, H. C., Wang, P. L., Lin, C. W., Chen, C. H., Chen, C. H. (2012) Integrative analysis of single nucleotide polymorphisms and gene expression efficiently distinguishes samples from closely related ethnic populations. accepted for publication by BMC Genomics.
- Kuo, Y. L., Chang, M. H. P., Liu, Y. W., Chen, P. H., Lee, P. Y., Liu, R. S., Lai, J. M., Tien, Y. J., Wu, Y. C., Su, L. J., Kao, C. Y., Chen, C. H.*, and Huang, F. C. Y.* (2012) In silico Therapeutic Drug Screening for Reversing the Lung Adenocarcinoma Overexpressed Gene Signatures. Open Access Scientific Reports, 1: 101. DOI: 10.4172/scientificreports.101.
- Tsai, C. A., Huang, C. H., Chang, C. W., and Chen, C. H. (2012). Recursive Feature Selection with Significant Variables of Support Vectors. to appear in Computational and Mathematical Methods in Medicine.
- Chang, C. T., Tsai, C. N., Tang, C. Y., Chen, C. H., Lian, J. H., Hu, C. Y., Tsai, C. L., Chao, A., Lai, C. H., Wang, T. H., and Lee, Y. S. (2012). Mixed Sequence Reader (MSR): a program for analyzing DNA sequences with heterozygous base calling. The Scientific World Journal, Volume 2012, Article ID 365104, 10 pages DOI: 10.1100/2012/365104.
- Liu, C. C., Chen, C. H., Hwu, H. G., Shiue, S. Y., Hua, M. S., Chen, C. H., Hwang, T. J., Liu, C. M., Hsieh, M. H., Liu, S. K., and Chen, W. J. (2012). Medium-term course and outcome of schizophrenia depicted by the sixth-month subtype after an acute episode. Journal of the Formosan Medical Association, 111, 265-274..
- Shaw, G. T. W., Shih, E. S. C., Chen, C. H,, and Hwang, M. J. (2011). Preservation of Ranking Order in the Expression of Human Housekeeping Genes. PLoS ONE 6(12): e29314. DOI: 10.1371/journal.pone.0029314.
- Lee, Y. S., Chao, A., Chen, C. H., Chou, T., Wang, S. M. M., and Wang, T. H. (2011). Analysis of Human Meiotic Recombination Events with A Parent-Sibling Tracing Approach, BMC Genomics, 12:434.
- Lai, C. Y., Yu, S. .L, Hsieh, M. H., Chen, C. H., Chen, H. Y., Wen, C. C., Huang, Y. H., Hsiao, P. C., Hsiao, C. K., Liu, C. M., Yang, P. C., Hwu, H. G., and Chen, W. J. (2011). MicroRNA expression aberration as potential peripheral blood biomarkers for schizophrenia, PLoS ONE, 2011; 6 (6):e21635.
- Yang, H. C., Lin, H. C., Kang, M., Chen, C. H., Lin, C. W., Li, L. H., Wu, J. Y., Chen, Y. T., Pan, W. H. (2011). SAQC: SNP Array Quality Control, BMC Bioinformatics, 12:100.
- Yang, H. C., Chang, L. C., Huggins,R. M., Chen, C. H., and Mullighan, C. G. (2011). LOHAS: Loss-of-Heterozygosity Analysis Suite, Genetic Epidemiology, 35 (4), 247–260.
- Ho, M. R., Tsai, K. W., Chen, C. H., and Lin, W. C. (2011). dbDNV: a resource of duplicated-gene nucleotide variants in human genome, Nucleic Acids Research, 39, Database issue.
- Wu, H. M., Tien, Y. J., and Chen, C. H*. (2010). GAP: A graphical environment for matrix visualization and cluster analysis, Computational Statistics and Data Analysis, 54 (3), 767-778.
- Ho, M. R., Chen, C. H., and Lin, W. C. (2010). Gene-oriented ortholog database: a functional comparison platform for orthologous loci, Database: The Journal of Biological Databases and Curation, 2010:baq002.
- Hou, C. C., Chen, C. H., Yang, N. S., Chen, Y. P., Lo, C. P., Wang, S. Y., Tien, Y. J., Tsai, P. W., and Shyur, L. F. (2010). Comparative metabolomics approach coupled with cell- and gene-based assays for species classification and anti-inflammatory bioactivity validation of Echinacea plants, Journal of Nutritional Biochemistry, 21, 1045-1059.
- Zou, W., Lin, W. J., Foley, S. L., Chen, C. H., Nayak, R., and Chen, J. J. (2010). Evaluation of Pulsed-field Gel Electrophoresis Profiles for the Identification of Salmonella Serotypes, Journal of Clinical Microbiology, 48 (9), 3122-3126.
- Lin, S. H., Liu, C. M., Liu, Y. L., Fann, C. S. J., Hsiao, P. C., Wu, J. Y., Hung, S. I., Chen, C. H., Wu, H. M., Jou, Y. S., Liu, S. K., Hunag, T. J., Hsieh, M. H., Chang, C. C., Yang, W. C., Lin, J. J., Chou, F. H. C., Faraone, S. V., Tsuang, M. T., Hwu, H. G., and Chen, W. J. (2009). Clustering by neurocognition for fine-mapping of the schizophrenia susceptibility loci on chromosome 6p, Genes, Brain and Behavior, 8 (8), 785-294.
- Chien, S. C., Young, P. H., Hsu, Y. J., Chen, C. H., Tien, Y. J., Shiu, S. Y., Li, T. H., Yang, C. W., Marimuthu, P., Tsai, L. F. L., Yang, W. C. (2009). Anti-diabetic properties of three common Bidens pilosa variants in Taiwan, Phytochemistry, 70 (10), 1246-1254.
- Lee, Y. S., Chen, C. H., Tsai, C. N., Chao, A., and Wang, T. H. (2009). Microarray Labeling Extension Values: Laboratory Signatures for Affymetrix GeneChips, Nucleic Acids Research, 37 (8), e61.
- Wang, C. Y., Staniforth, V., Chiao, M. T., Hou, C. C., Wu, H. M., Yeh, K. C., Chen, C. H., Hwang, P. I., Wen, T. N., Shyur, L. F., and Yang, N. S. (2008). Genomics and proteomics of immune modulatory effects of a butanol fraction of Echinacea purpurea in human dendritic cells, BMC Genomics, 9:479.
- Wu, T. T., Sun, W., Yuan, S. S., Chen, C. H., W., Li, K. C. (2008). A Method for Analyzing Censored Survival Phenotype with Gene Expression Data, BMC Bioinformatics, 9:417.
- Lee, Y. S., Chao, A., Chao, A. S., Chang, S. D., Chen, C. H., Wu, W. M., Wang, T. H., Wang, H. S. (2008). CGcgh: a tool for molecular karyotyping using DNA microarray-based comparative genomic hybridization (array-CGH)," Journal of Biomedical Science, 15 (6): 687-96.
- Liu, Y. L., Fann, C. S. J., Liu, C. M., Chen, W. J., Wu, J. Y., Hung, S. I., Chen, C. H., Jou, Y. S., Liu, S. K., Hwang, T. J., Hsieh, M. H., Chang, C. C., Yang, W. C., Lin, J. J., Chou, F. H. C., Faraone, S. V., Tsuang, M. T., and,Hwu, H. G. (2008). RASD2, MYH9, and CACNG2 Genes at Chromosome 22q12 Associated with the Subgroup of Schizophrenia with Non-deficit in Sustained Attention and Executive Function, Biological Psychiatry, 64 (9), 789–796.
- Ho, M. R., Jang, W. J., Chen, C. H., Ch’ang, L. Y., and Lin, W. C. (2008). Designating Eukaryotic Orthology via Transcription Units, Nucleic Acids Research, 36 (10), 3436-3442.
- Yeh, L. L., Hwu, H. G., Chen, C. H., Chen, C. H., Wu, A. C. C. (2008). Factors Related to Perceived Needs of Primary Caregivers of Patients with Schizophrenia, Journal of the Formosan Medical Association, 107 (8), 644-652.
- Tien, Y. J., Lee, Y. S., Wu, H. M., and Chen, C. H*. (2008). Methods for Simultaneously Identifying Coherent Local Clusters with Smooth Global Patterns in Gene Expression Profiles, BMC Bioinformatics, 9:155.
- Chou, C. C., Hsiao, H. Y., Hong, Q. S., Chen, C. H., Peng, Y. W., Chen, H. W., and Yang, P. C. (2008). Single-Walled Carbon Nanotubes can Induce Pulmonary Injury in Mouse Model, Nano Letters, 8 (2), 437-445.
- Chen, J. J., Tsai, C. A., Tzeng, S., and Chen, C. H*. (2007). Gene Selection with Multiple Ordering Criteria, BMC Bioinformatics, 8:74.
- Chen, H. Y., Yu, S. L., Chen, C. H., Chang, G. C., Chen, C. Y., Yuan, A., Cheng, C. L., Wang, C. H., Terng, H. J., Kao, S. F., Chen, W. J., Chen, J. J. W., Yang, P. C. (2007). A Five-Gene Signature and Clinical Outcome in Non–Small-Cell Lung Cancer, The New England Journal of Medicine, 356:11-20.
- Sher, Y. P., Chou, C. C., Chou , R. H., Wu, H. M., Chang, W. W-S, Chen, C. H., Wu, C. W., Yang, P. C., Yu, C. L., and Peck, K. (2006). Human Kallikrein 8 Protease Confers a Favorable Clinical Outcome in Non–Small Cell Lung Cancer by Suppressing Tumor Cell Invasiveness, Cancer Research, 66, 11763-11770.
- Pan, W. H., Chang, Y. P., Yeh, N. H., Chen, C. H., and Tzeng, S. L. (2006). Evaluating the DOH (Department of Health) Food Guide Based on Taiwanese Food Choices, Nutritional Sciences Journal, 30 (3), 116-126.
- Chiu, M. J., Hua, M. S., Chen, T. F., Hwu, H. G., Kao, C. H., and Chen, C. H. (2006). Brain responses of explicit and implicit memory - an ERP study, NeuroReport, 17 (14), 1483~1486.
- Chen, J. J., Tsai, C. A., Moon, H., Ahn, H., and Chen, C. H. (2006). Decision threshold adjustment in class prediction, SAR and QSAR in Environmental Research, 17 (3), 337-352.
- Chou, C. C., Lee, T. T., Chen, C. H., Hsiao, H. Y., Lin, Y. L., Ho, M. S., Yang, P. C., and Peck, K. (2006). Design of microarray probes for virus identification and detection of emerging viruses at the genus level, BMC Bioinformatics, 7:232.
- Liu, Y. L., Fann, C. S. J., Liu, C. M., Chen, W. J., Wu, J. Y., Hung, S. I., Chen, C. H., Jou, Y. S., Liu, S. K., Hwang, T. J., Shieh, M. H., Ouyang, W. C., Chan, H. Y., Chen, J. J., Lin, C. Y., Lee, S. F. C., Hwu, H. G. (2006). A Single Nucleotide Polymorphism Fine Mapping Study of Chromosome 1q42.1 Reveals the Vulnerability Genes for Schizophrenia, GNPAT and DISC1: Association with Impairment of Sustained Attention, Biological Psychiatry, 60, 554-562.
- Pan, W. H., Lynn, K. S., Chen, C. H., Wu, Y. L., Lin, C. Y., and Chang, H. Y. (2006). Using endophenotypes for pathway clusters to map complex disease genes, Genetic Epidemiology, 30 (2):143-54.
- Lee, Y. S., Chen, C. H., Chao, A., Chen, E. S., Wei, M. L., Chen, L. K., Yang, K., Lin, M. C., Wang, Y. H., Liu, J. W., Eng, H. L., Chiang, P. C., Wu, T. S., Tsao, K. C., Huang, C. G., Tien, Y. J., Wang, T. H., Wang, H. S., Lee, Y. S. (2005). Molecular signature of clinical severity in recovering patients with severe acute respiratory syndrome coronavirus (SARS-CoV), BMC Genomics, 6:132.
- Chen, J. J. W., Lin, Y. C., Yao, P. L., Yuan, A., Chen, H. Y., Shun, C. T., Tsai, M. F., Chen, C. H., and Yang, P. C. (2005). Tumor-Associated Macrophages: The Double Edged Sword in Cancer Progression, Journal of Clinical Oncology, 23, 1-12.
- Tsai, C. A., Lee, T. C., Ho, I. C., Yang, U. C., Chen, C. H., and Chen, J. J. (2005). Multi-class Clustering and Prediction in the Analysis of Microarray Data, Mathematical Biosciences, 193 (1): 79-100.
- Chen, C. H., and Li, K. C. (2004). A Three-way Classification Strategy for Reducing Class-Abundance: the Zip Code Recognition Example, Optimality, J. Rojo & V. Perez-Abreu, Editors. I.M.S. Lecture Notes-Monograph Series, 44, 63-86.
- Tsai, C. A., Chen, C. H., Lee, T. C., Ho, I. C., Yang, U. C., and Chen, J. J. (2004). Gene selection for sample classifications in microarray experiments, DNA and Cell Biology, 23, 607-614.
- Chou, C. C., Chen, C. H., Lee, T. T., and Peck, K. (2004). Optimization of probe length and the number of probes per gene for optimal microarray analysis of gene expression, Nucleic Acids Research, 32 (12).
- Chou, C. C., Chen, C. H., Lee, T. T., and Peck, K. (2004). Optimization of probe length and the number of probes per gene for optimal microarray analysis of gene expression, Nucleic Acids Research, 32 (12).
- Chen, C. H., Lu, H. H. S., Liao, C. T., Chen, C. H., Yang, U. C., Lee, Y. S. (2003), Gene Expression Analysis Refining System (GEARS) via Statistical Approach: A Preliminary Report, Genome Informatics, 14:316–317.
- Hwu, H. G., Chen, C. H., Hwang, T. J., Liu, C. M., Cheng, J. J., Lin, S. K., Liu, S. K., Chen, C. H., Chi, Y. Y., OuYoung, C. W., Lin, H. N., and Chen, W. J. (2002). Symptom Patterns and Subgrouping of Schizophrenic Patients: Significance of Negative Symptoms Assessed on Admission, Schizophrenia Research, 56, 105-119 (1 July 2002).
- Chen, C. H. (2002). Generalized Association Plots for Information Visualization: The applications of the convergence of iteratively formed correlation matrices, Statistica Sinica, 12, 1-23.
- Chen, C. H., and Li, K. C. (2001). Generalization of Fisher's Linear Discriminant Analysis via the Approach of Sliced Inverse Regression, Journal of the Korean Statistical Society, 30, 193-217.
- Chen, C. H*., and Chen, J. A. (2000). Interactive Diagnostic Plots for Multidimensional Scaling with Applications in Psychosis Disorder Data Analysis, Statistica Sinica, 10, 665-691.
- Li, K. C., Lue, H. H., and Chen, C. H. (2000). Interactive Tree-Structured Regression via Principal Hessian Directions, Journal of the American Statistical Association, 95, 547-560.
- Li, K. C., Wang, J. L., and Chen, C. H. (1999). Dimension Reduction for Censored Regression Data, Annals of Statistics, 27, 1-23.
- Chen, C. H., and Li, K. C. (1998). Can SIR be as Popular as Multiple Linear Regression? Statistica Sinica, 8, 289-316.
- Lin A. S., Chen, C. H., Hwu H. G., Lin H. N., and Chen J. A. (1998). Psychopathological Dimensions in Schizophrenia: A Correlational Approach to Items of the SANS and SAPS, Psychiatry Research, 77, 121-130.
Book Chapters:
- Chen, J. J. and Chen, C. H. (2010). Microarray Gene Expression, Encyclopedia of Biopharmaceutical Statistics, 3rd Edition (S. Chow ed.), Marcel Dekker, Inc., New York, 780-794.
- Wu, H. M., Tzeng, S. L., and Chen, C. H*. (2008). Matrix Visualization, Handbook of Computational Statistics: Data Visualization, Chen CH, Härdle W, Unwin A (eds). Berlin: Springer-Verlag, 681-708.
- Unwin, A., Chen, C. H., and Härdle, W. (2008). Introduction, Handbook of Computational Statistics: Data Visualization, Chen CH, Härdle W, Unwin A (eds). Berlin: Springer-Verlag, 3-12.
- Chen, C. H. (2005). Sliced Inverse Regression, Encyclopedia of Statistics in Behavioral Sciences, Eds. B. Everitt and D. C. Howell, Wiley, 4, 1856-1863.
- Chen, J. J. and Chen, C. H. (2003). Microarray Gene Expression, Encyclopedia of Biopharmaceutical Statistics, 2nd Edition (S. Chow ed.), Marcel Dekker, Inc., New York, 599-613.
Refereed Proceedings Articles:
- Liu, C. H., Chen, T. C., Chen, C. H., Kao, C. Y., Huang, C.Y. (2013) Differential network biology reveals a positive correlation between a novel protein-protein interaction and cancer cells migration, Conf Proc IEEE Eng Med Biol Soc. 2013;2013:2700-3. DOI: 10.1109/EMBC.2013.6610097.
- Tzeng, S. L., Wu, H. M., and Chen, C. H*. (2009). Selection of Proximity Measures for Matrix Visualization of Binary Data, Proceedings of the 2009 2nd International Conference on BioMedical Engineering and Informatics (BMEI 2009), 1932-1940, Tianjin, China (available in IEEE Xplore Digital Library).
- Chen, C. H*., Hwu, H. G., Jang, W. J., Kao, C. H., Tien, Y. J., Tzeng, S., and Wu, H. M. (2004). Matrix Visualization and Information Mining, Proceedings in Computational Statistics 2004 (Compstat 2004), 85-100, Physika Verlag, Heidelberg.
- Chang, S. C., Chen, C. H*., Chi, Y. Y., and Ouyoung, C. W. (2002). Relativity and Resolution for High Dimensional Information Visualization with Generalized Association Plots (GAP), Section for Invited Papers, Proceedings in Computational Statistics 2002 (Compstat 2002), 55-66Berlin, Germany.
Proceedings Articles:
- Chen, C. H. (1999). Extensions of Generalized Association Plots, 1999 Proceedings of the Section on Statistical Graphics of the American Statistical Association, 111-116.
- Chen, C. H. (1996). The Properties and Applications of the Convergence of Correlation Matrices, 1996 Proceedings of the Section on Statistical Graphics of the American Statistical Association, 49-54.
Books:
- Handbook of Computational Statistics: Data Visualization. Chen CH, Härdle W, Unwin A (eds). Berlin: Springer-Verlag, 2008.
Generalized Association Plots (GAP) Software Released
Package download:
- GAP (continuous, binary, ordinal): https://maokao.idv.tw/software/GAP64.zip
- iGAP (Symbolic-Interval): https://maokao.idv.tw/software/iGAP64.zip
Online demo:
- GAP (continuous, binary, ordinal): https://maokao.github.io/GAPOnline/
- iGAP (Symbolic-Interval): https://maokao.github.io/iGAPOnline/
- 3d GAP (Cube-based): https://maokao.github.io/GAP3D/
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