Publications

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Journal Articles

2023

Jo-Wei Allison Hsieh, Pearl Chang, Lin-Yun Kuang, Yue-Ie Hsing, Pao-Yang Chen (2023) Rice transformation treatments leave specific epigenome changes beyond tissue culture Plant Physiology, In Press

Ya-Ting Sabrina Chang, Ming-Ren Yen, Pao-Yang Chen (2023) Methylome Imputation by Methylation Patterns Computational Epigenomics and Epitranscriptomics. Methods Mol Biol., 2023;2624:115-126 https://doi: 10.1007/978-1-0716-2962-8_8.

Rita Jui-Hsien Lu^☨, Pei-Yu Lin^☨, Ming-Ren Yen^☨, Bing-Heng Wu, Pao-Yang Chen (2023) MethylC-analyzer: a comprehensive downstream pipeline for the analysis of genome-wide DNA methylation Botanical Studies, https://doi.org/10.1186/s40529-022-00366-5

2022

Pierre Bourguet, Ramesh Yelagandula, Taiko Kim To, Akihisa Osakabe, Archana Alishe, Rita Jui-Hsien Lu, Tetsuji Kakutani, Pao-Yang Chen*, Frédéric Berger* (2022) The histone variant H2A.W cooperates with chromatin modifications and linker histone H1 to maintain transcriptional silencing of transposons in Arabidopsis bioRxiv, https://doi.org/10.1101/2022.05.31.493688

Yi-Tsung Tu, Chia-Yang Chen, Yi-Sui Huang, Chung-Han Chang, Ming-Ren Yen, Jo-Wei Allison Hsieh, Pao-Yang Chen* and Keqiang Wu* (2022) HISTONE DEACETYLASE 15 and MOS4-Associated Complex subunits 3A/3B coregulate intron retention of ABA-responsive genes Plant Physiology, kiac271, https://doi.org/10.1093/plphys/kiac271

Matthew Lowe, Ming-Ren Yen, Fei-Man Hsu, Linzi Hosohama, Zhongxun Hu, Tsotne Chitiashvili, Timothy Hunt, Isaac Gorgy, Matthew Bernard, S Wamaitha, Pao-Yang Chen*, Amander Ｔ Clark* (2022) EED is required for Mouse Primordial Germ Cell Differentiation in the Embryonic Gonad Developmental Cell https://doi.org/10.1016/j.devcel.2022.05.012

Yu-Wen Liu, Shin-Huei Fu, Ming-Wei Chien, Chao-Yuan Hsu, Ming-Hong Lin, Jia-Ling Dong, Rita Jui-Hsien Lu, Yi-Jing Lee, Pao-Yang Chen, Chih-Hung Wang, and Huey-Kang Sytwu (2022) Blimp-1 moulds the epigenetic architecture of IL-21-mediated autoimmune diseases through an autoregulatory circuit JCI Insight https://doi.org/10.1172/jci.insight.151614

Feng-Chih Kuo*, Yu-Chun Huang, Ming-Ren Yen, Chien-Hsing Lee, Kuo-Feng Hsu, Hsiang-Yu Yang, Li-Wei Wu, Chieh-Hua Lu, Yu-Juei Hsu, Pao-Yang Chen* (2022) Aberrant overexpression of HOTAIR inhibits abdominal adipogenesis through remodelling of genome-wide DNA methylation and transcription Molecular Metabolism Volume 60, 101473

Ya-Ting Sabrina Chang, Ming-Ren Yen, Pao-Yang Chen (2022) BSImp: imputing partially observed methylation patterns for evaluating methylation heterogeneity Frontiers in Bioinformatics, Research Topic in Computational Methods for Analysis of DNA Methylation Data https://doi: 10.3389/fbinf.2022.815289 (featured in Editorial)

2021

Pei-Yu Lin and Pao-Yang Chen (2021) Review of: Deep-BGCpred: A unified deep learning genome-mining framework for biosynthetic gene cluster prediction Qeios https://doi.org/10.32388/14X8U9

Chih-Yi Yang^☨, Rita Jui-Hsien Lu^☨, Ming-Kang Lee^☨, Shih-Hsiang Felix Hsiao, Ya-Ping Yen, Chun-Chun Cheng, Pu-Sheng Hsu, Yi-Tzang Tsai, Shih-Kuo Chen, I-Hsuan Liu, Pao-Yang Chen*, Shau-Ping Lin* (2021) Transcriptome Analysis of Dnmt3l Knock-Out Mice Derived Multipotent Mesenchymal Stem/Stromal Cells During Osteogenic Differentiation Frontiers in Cell and Developmental Biology, section Stem Cell Research https://doi.org/10.3389/fcell.2021.615098

Yu-Shin Nai^☨, Yu-Chun Huang^☨, Ming-Ren Yen, Pao-Yang Chen (2021) Diversity of fungal DNA methyltransferases and their association with DNA methylation patterns Frontiers in Microbiology, section Evolutionary and Genomic Microbiology https://doi.org/10.3389/fmicb.2020.616922

Rita Jui-Hsein Lu^☨, Yen-Ting Liu^☨, Chih Wei Huang^☨, Ming-Ren Yen, Chung-Yen Lin, Pao-Yang Chen (2021) ATACgraph: profiling genome wide chromatin accessibility from ATAC-seq Frontiers in Genetics, section Epigenomics and Epigenetics https://doi.org/10.3389/fgene.2020.618478 Github

2020

Huei-Mien Ke, Hsin-Han Lee, Chan-Yi Ivy Lin, Yu-Ching Liu, Min R. Lu, Jo-Wei Allison Hsieh, Chiung-Chih Chang, Pei-Hsuan Wu, Meiyeh Jade Lu, Jeng-Yi Li, Gaus Shang, Rita Jui-Hsien Lu, László G. Nagy, Pao-Yang Chen, Hsiao-Wei Kao and Isheng Jason Tsai (2020) Mycena genomes resolve the evolution of fungal bioluminescence Proceedings of the National Academy of Sciences https://doi.org/10.1073/pnas.2010761117

Fu-Yu Hung, Chen Chen, Ming-Ren Yen, Jo-Wei Allison Hsieh, Chenlong Li, Yuan-Hsin Shih, Fang-Fang Chen, Pao-Yang Chen*, Yuhai Cui*, Keqiang Wu* (2020) The expression of long noncoding RNAs is associated with H3Ac and H3K4me2 changes regulated by the HDA6-LDL1/2 histone modification complex in Arabidopsis NAR Genomics and Bioinformatics Vol 2, Issue 3, lqaa066

Hong Zhu, Pao-Yang Chen, Silin Zhong, Christopher Dardick, Ann Callahan, Yong-Qiang An, Steve van Nocker, Yingzhen Yang, Gan-Yuan Zhong, Albert Abbott, Zongrang Liu (2020) Thermal-responsive genetic and epigenetic regulation of DAM cluster controlling dormancy and chilling requirement in peach floral buds Horticulture Research 7, 114

Jo-Wei Allison Hsieh, Ming-Ren Yen, Pao-Yang Chen (2020) Epigenomic regulation of OTU5 in Arabidopsis thaliana Genomics 112(5): 3549-3559

Chin-Sheng Teng, Bing-Heng Wu, Ming-Ren Yen, Pao-Yang Chen (2020) MethGET: web-based bioinformatics software for correlating genome-wide DNA methylation and gene expression BMC Genomics 21:375 Website

Sheng-Yao Su, I-Hsuan Lu, Wen-Chih Cheng, Wei-Chun Chung, Pao-Yang Chen, Jan-Ming Ho, Shu-Hwa Chen, Chung-Yen Lin (2020) EpiMOLAS: an intuitive web-based framework for genome-wide DNA methylation analysis BMC Genomics 21,163 Website

Emilie debladis, Tzuu-Fen Lee, Yan-Jiun Huang, Jui-Hsien Lu, Sandra Mathioni, Marie-Christine Carpentier, Christel Llauro, Davy Pierron, Delphine Mieulet, Emmanuel Guiderdoni, Pao-Yang Chen, Blake Meyers, Olivier Panaud, Eric Lasserre (2020) Construction and characterization of a knock-down RNA interference line of OsNRPD1 in rice (Oryza sativa ssp. Japonica cv. Nipponbare) Philosophical Transactions of the Royal Society B 375:20190338

2019

Yang Jie, Lianyu Yuan, Ming‐Ren Yen, Feng Zheng, Rujun Ji, Tao Peng, Dachuan Gu, Songguang Yang, Yuhai Cui, Pao‐Yang Chen, Keqiang Wu, Xuncheng Liu (2019) SWI3B and HDA6 are Required for Transposon Silencing in Arabidopsis The Plant Journal doi:10.1111/tpj.14666

Yi-Jing Lee, Pearl Chang, Jui-Hsien Lu, Pao-Yang Chen*, Chung-Ju Rachel Wang* (2019) Assessing chromatin accessibility in maize using ATAC-seq bioRxiv, https://doi.org/10.1101/526079

You-Yuan Pang, Jui-Hsien Lu, Pao-Yang Chen (2019) Behavioral Epigenetics: Perspectives based on Experience-Dependent Epigenetic Inheritance Epigenomes 3(3), 18
Nien's artwork for cover page :

Phuong Nguyen Tran, Ming-Ren Yen, Chen-Yu Chiang, Hsiao-Ching Lin*, Pao-Yang Chen* (2019) Detecting and prioritizing biosynthetic gene clusters for bioactive compounds in bacteria and fungi Applied Microbiology and Biotechnology Vol 103, Issue 8, 3277-3287

Ta-Ching Chen, Pin-Yi She, Dong Feng Chen, Jui-Hsien Lu, Chang-Hao Yang, Ding-Siang Huang, Pao-Yang Chen, Chen-Yu Lu, Kin-Sang Cho, Hsin-Fu Chen, Wei-Fang Su (2019) Polybenzyl glutamate biocompatible scaffold promotes the efficiency of retinal differentiation toward retinal ganglion cell lineage from human induced pluripotent stem cells International Journal of Molecular Sciences 20(1), 178

2018

Jie Hou, Xiaowen Shi, Chen Chen, Soliman Islam, Adam F. Johnson, Tatsuo Kanno, Bruno Huettel, Ming-Ren Yen, Fei-Man Hsu, Tieming Ji, Pao-Yang Chen, Marjori Matzke, Antonius J.M. Matzke, Jianlin Cheng, James A. Birchler (2018) Global impacts of chromosomal imbalance on gene expression in Arabidopsis and other taxa Proceedings of the National Academy of Sciences https://doi.org/10.1073/pnas.1807796115 Commentary-Genomic Balance and Speciation

Fei-Man Hsu, Moloya Gohain, Archana Allishe, Yan-Jiun Huang, Jo-Ling Liao, Lin-Yun Kuang and Pao-Yang Chen (2018) Dynamics of the Methylome and Transcriptome during the Regeneration of Rice Epigenomes 2(3), 14

Yu Yuan Huang, Yan-Jiun Huang, Pao-Yang Chen (2018) BS-Seeker3: Ultrafast pipeline for bisulfite sequencing BMC Bioinformatics 19:111

Fei-Man Hsu, Chung-Ju Rachel Wang* and Pao-Yang Chen* (2018) Reduced Representation Bisulfite Sequencing in Maize Bio-protocol 8(6): e2778. DOI: 10.21769/BioProtoc.2778

Pearl Chang, Moloya Gohain, Ming-Ren Yen, Pao-Yang Chen (2018) Computational Methods for Assessing Chromatin Hierarchy Computational and Structural Biotechnology Journal https://doi.org/10.1016/j.csbj.2018.02.003

Pearl Chang, Yu-Fang Tseng, Pao-Yang Chen* and Chung-Ju Rachel Wang* (2018) Using flow cytometry to isolate maize meiocytes for next generation sequencing: A time and labor efficient method Current Protocols in Plant Biology https://doi.org/10.1002/cppb.20068

Yu Tao^☨, Ming-Ren Yen^☨, Tsotne Chitiashvili, Haruko Nakano, Rachel Kim, Linzi Hosohama, Yao Chang Tan, Atsushi Nakano, Pao-Yang Chen*, Amander T Clark* (2018) TRIM28-regulated transposon repression is required for human germline competency and not primed or naïve human pluripotency Stem Cell Reports Volume 10, Issue 1, p243–256 . (^☨ co-first, * co-corresponding authors)

Fei-Man Hsu, Moloya Gohain, Pearl Chang, Jui-Hsien Lu, Pao-Yang Chen (2018) Bioinformatics of Epigenetic Data Generated from Next-Generation Sequencing Epigenetics in Human Disease, 2nd edition, Elsevier Vol.6 in Translational Epigenetics 65-106 PDF

2017

Jer-Young Lin, Brandon Le, Min Chen, Kelli F. Henry, Jungim Hur, Tzung-Fu Hsieh, Pao-Yang Chen, Julie M. Pelletier, Matteo Pellegrini, Robert L. Fischer, John J. Harada, Robert B. Goldberg (2017) Similarity between soybean and Arabidopsis seed methylomes and loss of non-CG methylation does not affect seed development Proceedings of the National Academy of Sciences doi: 10.1073/pnas.1716758114

Ming-Ren Yen, Der-Fen Suen, Fei-Man Hsu, Yi-Hsiu Tsai, Hongyong Fu, Wolfgang Schmidt*, and Pao-Yang Chen* (2017) Deubiquitinating enzyme OTU5 contributes to DNA methylation patterns and is critical for phosphate nutrition signals Plant Physiology 175 (4) 1826-1838

Ta-Ching Chen, Chao-Yuan Yeh, Chao-Wen Lin, Chung-May Yang, Chang-Hao Yang, I-Hung Lin, Pao-Yang Chen, Jung-Yu Cheng, Fung-Rong Hu (2017) Vascular hypoperfusion in acute optic neuritis is a potentially new neurovascular model for demyelinating diseases PLoS ONE 12(9): e0184927

Huei-Mei Hsieh, Mei-Chu Chung, Pao-Yang Chen, Fei-Man Hsu, Wen-Wei Liao, Ai-Ning Sung, Chun-Ru Lin, Chung-Ju Wang, Yu-Hsin Kao, Mei-Jane Fang, Chi-Yung Lai, Chieh-Chen Huang, Jyh-Ching Chou, Wen-Neng Chou, Bill Chia-Han Chang and Yu-Ming Ju (2017) A termite symbiotic mushroom maximizing sexual activity at growing tips of vegetative hyphae. Botanical Studies 58: 39

Fei-Man Hsu, Ming-Ren Yen, Chi-Ting Wang, Chien-Yu Lin, Chung-Ju Rachel Wang* and Pao-Yang Chen* (2017) Optimized reduced representation bisulfite sequencing reveals tissue-specific mCHH islands in maize. Epigenetics & Chromatin 10:42 Gitlab

Pao-Yang Chen^☨, Alison Chu^☨, Wen-Wei Liao, Liudmilla Rubbi, Carla Janzen, Fei-Man Hsu, Amit Ganguly, Shanthie Thamotharan, Matteo Pelligrini, Sherin Devaskar (2017) Prenatal growth patterns and birthweight are associated with differential DNA methylation and gene expression of cardiometabolic risk genes in human placentas Reproductive Sciences 1-17

Meng-Ying Wu, Chia-Yeh Lin, Hsin-Yi Tseng, Fei-Man Hsu, Pao-Yang Chen and Cheng-Fu Kao (2017) H2B ubiquitylation and the histone chaperone Asf1 cooperatively mediate the formation and maintenance of heterochromatin silencing Nucleic Acids Research Vol 45, 14, 8225–8238

Fei-Man Hsu, Pao-Yang Chen (2017) Game theory in epigenetic reprogramming: Comment on: “Epigenetic game theory: How to compute the epigenetic control of maternal-to-zygotic transition” by Qian Wang et al. Physics of Life Reviews 20:143-145

2016

Sheng-Yao Su, Shu-Hwa Chen, I-Hsuan Lu, Yih-Shien Chiang, Yu-Bin Wang, Pao-Yang Chen* and Chung-Yen Lin* (2016) TEA: the epigenome platform for Arabidopsis methylome study. BMC Genomics 17:3326 Website

Joseph Hargan-Calvopina, Sara Taylor, Helene Cook, Zhongxun Hu, Serena A. Lee, Ming-Ren Yen, Yih-Shien Chiang, Pao-Yang Chen, Amander T. Clark (2016) Stage-Specific Demethylation in Primordial Germ Cells Safeguards against Precocious Differentiation. Developmental Cell 39 1:12

Wai-Shin Yong^☨, Fei-Man Hsu^☨, Pao-Yang Chen (2016) Profiling genome-wide DNA methylation. Epigenetics & Chromatin 9:26 (1st most cited paper of Epigenetics & Chromatin in 2016)

Colin Flinders^☨, Larry Lam^☨, Liudmilla Rubbi, Roberto Ferrari, Sorel Fitz-Gibbon, Pao-Yang Chen, Michael Thompson, Heather Christofk, David B Agus, Daniel Ruderman, Parag Mallick and Matteo Pellegrini (2016) Epigenetic changes mediated by polycomb repressive complex 2 and E2a are associated with drug resistance in a mouse model of lymphoma. Genome Medicine 8:54

Fei-Man Hsu^☨, Wai-Shin Yong^☨, Pao-Yang Chen (2016) Views on Profiling Genomewide DNA Methylation and Crop Methylomes. Crop, Environment & Bioinformatics 13:39-51

2015

Fei-Man Hsu, Amander T Clark, Pao-Yang Chen (2015) Epigenetic reprogramming in the mammalian germline.Oncotarget DOI: 10.18632/oncotarget.6206

Wen-Wei Liao^☨, Ming-Ren Yen^☨, Evaline Ju, Fei-Man Hsu, Larry Lam, Pao-Yang Chen (2015) MethGO: a comprehensive tool for analyzing whole genome bisulte sequencing data. BMC Genomics 16(Suppl 12):S11 Software

Gkountela, Kelvin Zhang, Tiasha Shaq, Wen-Wei Liao, Joseph Hargan-Calvopina, Pao-Yang Chen*, Amander T Clark* (2015) DNA Demethylation Dynamics in the Human Prenatal Germline. Cell 161:1-12 (co-corresponding authors)

Taku Sasaki, Tatsuo Kanno, Shih-Chieh Liang, Pao-Yang Chen, Wen-Wei Liao, Wen-Dar Lin, Antonius J.M. Matzke* and Marjori Matzke* (2015) An Rtf2 domain-containing protein influences pre-mRNA splicing and is essential for embryonic development in Arabidopsis thaliana. Genetics doi: 10.1534/genetics.115.176438

2014

Pao-Yang Chen^☨, Barbara Montanini^☨, Wen-Wei Liao, Marco Morselli, Artur Jaroszewicz, David Lopez, Simone Ottonello and Matteo Pellegrini (2014) A comprehensive resource of genomic, epigenomic and transcriptomic sequencing data for the black truffe Tuber melanosporum. GigaScience 3:25

Barbara Montanini^☨, Pao-Yang Chen^☨, Marco Morselli, Artur Jaroszewicz, David Lopez, Francis Martin, Simone Ottonello and Matteo Pellegrini. (2014) Non-exhaustive DNA methylation-mediated transposon silencing in the black truffle genome, a complex fungal genome with massive repeat element content. Genome Biology 15:411

Negar M Ghahramani, Tuck C Ngun, Pao-Yang Chen, Yuan Tian, Sangitha Krishnan, Stephanie Muir, Liudmilla Rubbi, Arthur P Arnold, Geert J de Vries, Nancy G Forger, Matteo Pellegrini, Eric Vilain (2014) The effects of perinatal testosterone exposure on the DNA methylome of the mouse brain are late-emerging. Biol Sex Differ 5:8

Sasaki T, Lee TF, Liao, Wen-Wei, Naumann U, Liao Joling, Eun CH, Huang YY, Fu JL, Pao-Yang Chen, Meyers BC, Matzke AJM, and Matzke M. (2014) Distinct and concurrent pathways of Pol II and Pol IV-dependent siRNA biogenesis at a repetitive trans-silencer locus in Arabidopsis thaliana, The Plant Journal doi: 10.1111/tpj.12545

2013

Guo W, Fiziev P, Yan W, Cokus S, Sun X, Zhang MQ, Pao-Yang Chen* & Pellegrini M.* (2013) BS-Seeker2: a versatile aligning pipeline for bisulfite sequencing data. BMC Genomics 14(1): 774 (co-corresponding authors) Github

Pao-Yang Chen, Amit Ganguly, Liudmilla Rubbi, Luz D. Orozco, Marco Morselli, Davin Ashraf, Artur Jaroszewicz, Suhua Feng, Steve E. Jacobsen, Atsushi Nakano, Sherin U. Devaskar, and Matteo Pellegrini (2013) Intra-uterine calorie restriction affects placental DNA methylation and gene expression, Physiol. Genomics doi:10.1152

J. Vincent, Y. Huang, Pao-Yang Chen, S. Feng, J.. Calvopia, K. Nee, S. Lee, T. Le, A. Yoon, K. Faull, G. Fan, A. Rao, S. Jacobsen, M. Pellegrini, and A. Clark (2013) Stage-Specific Roles for Tet1 and Tet2 in DNA Demethylation in Primordial Germ Cells, Cell Stem Cell 12(4):470-8

Before 2013

Pao-Yang Chen, M. Pellegrini (2012) Methylomes, Epigenetic Regulation and Epigenomics from the Encyclopedia of Molecular Cell Biology and Molecular Medicine, pp. 815-837, UK: John Wiley & Sons, Inc. (invited review)

Pao-Yang Chen, S. Feng, J. Joo, S. Jacobsen, M. Pellegrini (2011) A comparative analysis of DNA methylation across human embryonic stem cell lines, Genome Biology 12:R62 (highly accessed)

Shota Atsumi, Tung-Yun Wu, I. Machado, W. Huang, Pao-Yang Chen, Matteo Pellegrini, James C Liao (2010) Evolution, genomic analysis, and reconstruction of isobutanol tolerance in Escherichia coli. Nature-EMBO Molecular Systems Biology 6: 499

R. Chodavarapu, S. Feng, Y. Bernatavichute, Pao-Yang Chen, H. Stroud, Y. Yu, J. Hetzel, F. Kuo, J. Kim, S. Cokus, D. Casero, M. Bernal, P. Huijser, A. Clark, U. Krmer, S. Merchant, X. Zhang, S. Jacobsen, M. Pellegrini (2010) Relationship between nucleosome positioning and DNA methylation. Nature 466, 388-392

S. Feng, S. Cokus, X. Zhang, Pao-Yang Chen, M. Bostick, M. Goll, J. Hetzel, J. Jain, S. Strauss, M. Halpern, C. Ukomadu, K. Sadler, M. Pellegrini, S. Jacobsen (2010) Conservation and divergence of plant and animal methylation patterning. Proceedings of the National Academy of Sciences, 11;107(19):8689-94

Pao-Yang Chen, S. Cokus, M. Pellegrini, (2010) BS Seeker: precise mapping for bisulfite sequencing. BMC Bioinformatics 11: 203 (highly accessed)

R. Hamer*, Pao-Yang Chen*, J. Armitage, G. Reinert, C. Deane (2010) Deciphering chemotaxis pathways using cross species comparisons. BMC Systems Biology, 4: 3 (co-furst authors)

Pao-Yang Chen, C. Deane, G. Reinert (2008) Predicting and validating protein interactions using network structure. PLoS Computational Biology 4(7): e1000118

Pao-Yang Chen, C. Deane, G. Reinert (2007) A statistical approach using network structure in the prediction of protein characteristics. Bioinformatic 23 (17): 2314-2321

C. Lin, S. Chen, C. Cho, C. Chen, F. Lin, C. Lin, Pao-Yang Chen, C. Lo, C. Hsiung, (2006) Fly-DPI: database of protein interactomes for D. melanogaster in the approach of systems biology.BMC Bioinformatics 7 (5) S18

C. Chen, C. Lin, C. Cho, L. Wang, C. Chang, Pao-Yang Chen, C. Lo, C. Hsiung, (2005) HP-DPI: Helicobacter Pylori Database of Protein Interactomes, a combined experimental and inferring interactions. Bioinformatics, 21(7):1288-1290

Y. Chen, J. Chen, K. Richard, Pao-Yang Chen, D. Christiani, (2004) Lung adenocarcinoma and human papillomavirus infection. Cancer15;101(6):1428-36

C. Hwu, C. Hsiao, S. Kuo, K. Wu, C. Ting, T. Quertermous, B, Rodriguez, I. Chen, J. Grove, Pao-Yang Chen, L. Ho, (2004) Physical inactivity is an important lifestyle determinant of insulin resistance in hypertensive patients. Blood Pressure 13 (6): 355-361 (Selected in the Outstanding Thesis Collection by Ministry of National Defense, Taiwan)

Ching Liu and Pao-Yang Chen (1999) Mapping and analysis of Quantitative Trait Loci (QTL) for Poisson distributed data. Chinese Agronomy Journal 9(3):127-141

Patent

Epigenetic discrimination of DNA United States Patent Application 16/325097

Popular Science

基因上的魔法師—不改 DNA 就可以調整性狀的「表觀遺傳調控」，為作物改良帶來新曙光 黃湘芹、謝若微、李映漾、陳柏仰 PanSci 泛科學 (2022)

中研院研究室實習初體驗：做研究要耐得住寂寞？我認為不盡然 吳東憲 The News Lens 關鍵評論網 (2020)

Fei-Man Hsu, Pao-Yang Chen (2017) 表觀遺傳重置 – 胚胎如何抹除父母的記憶並保留細胞的全能性？ 中研院週報知識天地 1604

7分之1機率不孕，下一代更嚴重？5大因素解析 BabyHome編輯 (2016)
不孕症 可能天注定 聯合報 (2015)
中研院跨國研究　助了解不孕症 蘋果日報 (2015)
禍延三代！懷孕初期吸菸、飲酒　恐導致子孫不孕 自由時報 (2015)