2023
The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks
Marouen Ben Guebila, Tian Wang, Camila M. Lopes-Ramos, Viola Fanfani, Des Weighill, Rebekka Burkholz, Daniel Schlauch, Joseph N. Paulson, Michael Altenbuchinger, Katherine H. Shutta, Abhijeet R. Sonawane, James Lim, Genis Calderer, David G.P. van IJzendoorn, Daniel Morgan, Alessandro Marin, Cho-Yi Chen, Qi Song, Enakshi Saha, Dawn L. DeMeo, Megha Padi, John Platig, Marieke L. Kuijjer, Kimberly Glass, John Quackenbush
Genome Biology. 2023; 24:45.
https://doi.org/10.1186/s13059-023-02877-1
2022
Phylotranscriptomic patterns of network stochasticity and pathway dynamics during embryogenesis
Kuei-Yueh Ko, Cho-Yi Chen, Hsueh-Fen Juan, Hsuan-Cheng Huang
Bioinformatics. 2022; 38(3):763–769.
https://doi.org/10.1093/bioinformatics/btab735
2021
GWAS Meta-Analysis Reveals Shared Genes and Biological Pathways Between Major Depressive Disorder and Insomnia
Yi-Sian Lin, Chia-Chun Wang, Cho-Yi Chen
Genes. 2021; 12(10):1506.
https://doi.org/10.3390/genes12101506
Exploring the impact of complex diseases on non-diseased human tissue transcriptomes
Chi-Lam Poon, Cho-Yi Chen
Frontiers in Genetics. 2021; 12:696836.
https://doi.org/10.3389/fgene.2021.696836
Adaptation to Endoplasmic Reticulum Stress Enhances Resistance of Oral Cancer Cells to Cisplatin by Up-Regulating Polymerase η and Increasing DNA Repair Efficiency
Cho-Yi Chen, Masaoki Kawasumi, Tien-Yun Lan, Chi-Lam Poon , Yi-Sian Lin, Pin-Jou Wu, Yao-Chung Chen, Bing-Hong Chen, Cheng-Hsien Wu, Jeng-Fan Lo, Rueyhung Roc Weng, Yi-Chen Sun, Kai-Feng Hung
International Journal of Molecular Sciences. 2021; 22(1):355
https://doi.org/10.3390/ijms22010355
2020
New COVID-19 saliva-based test: How good is it compared with the current nasopharyngeal or throat swab test?
Kai-Feng Hung, Yi-Chen Sun, Bing-Hong Chen, Jeng-Fan Lo, Chao-Min Cheng, Cho-Yi Chen, Cheng-Hsien Wu, Shou-Yen Kao
Journal of the Chinese Medical Association. 2020; 83(10):891-894
https://doi.org/10.1097/JCMA.0000000000000396
Sex Differences in Gene Expression and Regulatory Networks across 29 Human Tissues
Camila M Lopes-Ramos, Cho-Yi Chen, Marieke L Kuijjer, Joseph N Paulson, Abhijeet R Sonawane, Maud Fagny, John Platig, Kimberly Glass, John Quackenbush, Dawn L DeMeo
Cell Reports. 2020; 31(12):107795
https://doi.org/10.1016/j.celrep.2020.107795