Results 1-49 of 49 (Search time: 0.005 seconds).
| Issue Date | Title | Author(s) | Relation | scopus | WOS | Fulltext/Archive link | |
|---|---|---|---|---|---|---|---|
| 1 | 2024 | Bioinformatics Analysis of DNA Methylation | Lin, PY; Chen, KL; Lin, GJ; Huang, SC; Chen, PY | Methods in Molecular Biology (Springer Nature) | |||
| 2 | 2024 | Chapter 3 - Bioinformatics of epigenetic data generated from next-generation sequencing | Sheu, CY L; Huang, YC; Lin, PY; Lin, GJ; Chen, PY | Epigenetics in Human Disease (Third Edition) (United Kingdom : Elsevier) | |||
| 3 | 2024 | Whole Genome Bisulfite Sequencing | Hsu, FM; Chen, PY ; Pellegrini, M | Methods in Molecular Biology (Springer Nature) | |||
| 4 | 2023 | Epigenomic Footprints in the Regeneration and Transformation of Rice | Hsieh, JW A; Chang, P; Kuang, LY; Hsing, YI, C; Chen, PY | ||||
| 5 | 2023 | Rice Transformation Leaves Footprints on the Genome-Wide DNA Methylation Landscape | Chen, PY | ||||
| 6 | 2023 | Estimating genome-wide DNA methylation heterogeneity with methylation patterns | Lin, PY; Chang, YT; Huang, YC; Chen, PY | Epigenetics & chromatin 16(1), 44 | |||
| 7 | 2023 | Estimating Genome-Wide DNA Methylation Heterogeneity in Rice | Lin, PY; Chang, YT; Lee, J; Huang, YCand, Chen, PY | ||||
| 8 | 2023 | There's more to it: uncovering genomewide DNA methylation heterogeneity | Lee, H; Lin, PY; Chen, PY | Epigenomics 15(13), 687-691 | |||
| 9 | 2023 | Rice transformation treatments leave specific epigenome changes beyond tissue culture | Hsieh, JA; Chang, P; Kuang, LY ; Hsing, YC ; Chen, PY | Plant physiology 193(2), 1297-1312 | |||
| 10 | 2023 | Detecting the Interplay Between DNA Methylation and Lipid Production in Plants | Hsieh, JW; Liu, YC; Huang, LT; Nakamura, Y; Chen, PY | ||||
| 11 | 2023 | Methylome Imputation by Methylation Patterns | Chang, YS; Yen, MR; Chen, PY | Methods in molecular biology (Clifton, N.J.) (New York, USA : Humana) | |||
| 12 | 2023 | MethylC-analyzer: a comprehensive downstream pipeline for the analysis of genome-wide DNA methylation | Lu, RJ; Lin, PY; Yen, MR; Wu, BH; Chen, PY | Botanical studies 64(1), 1 | |||
| 13 | 2022 | Epigenome Bioinformatics in Plants | Chen, PY | ||||
| 14 | 2022 | Epigenome bioinformatics in rice and plants | Chen, PY | ||||
| 15 | 2022 | EED is required for mouse primordial germ cell differentiation in the embryonic gonad | Lowe, MG; Yen, MR; Hsu, FM; Hosohama, L; Hu, Z; Chitiashvili, T; Hunt, TJ; Gorgy, I; Bernard, M; Wamaitha, SE; Chen, PY ; Clark, AT | Developmental cell 57(12), 1482-1495.e5 | |||
| 16 | 2022 | HISTONE DEACETYLASE 15 and MOS4-associated complex subunits 3A/3B coregulate intron retention of ABA-responsive genes | Tu, YT; Chen, CY; Huang, YS; Chang, CH; Yen, MR; Hsieh, JA; Chen, PY ; Wu, K | Plant physiology 190(1), 882-897 | |||
| 17 | 2022 | Blimp-1 molds the epigenetic architecture of IL-21–mediated autoimmune diseases through an autoregulatory circuit | Liu, YW; Fu, SH; Chien, MW; Hsu, CY; Lin, MH; Dong, JL; Lu, RJ; Lee, YJ; Chen, PY ; Wang, CH; Sytwu, HK | JCI insight 7(11), e151614 | |||
| 18 | 2022 | Aberrant overexpression of HOTAIR inhibits abdominal adipogenesis through remodelling of genome-wide DNA methylation and transcription | Kuo, FC; Huang, YC; Yen, MR; Lee, CH; Hsu, KF; Yang, HY; Wu, LW; Lu, CH; Hsu, YJ; Chen, PY | Molecular metabolism 60, 101473 | |||
| 19 | 2022 | BSImp: Imputing Partially Observed Methylation Patterns for Evaluating Methylation Heterogeneity | Chang, YT; Yen, MR; Chen, PY | Frontiers in Bioinformatics 2, 815289 | |||
| 20 | 2021 | Dissecting the Dynamic Changes of Methylome During Rice Transformation | Chen, PY | ||||
| 21 | 2021 | Transcriptome Analysis of Dnmt3l Knock-Out Mice Derived Multipotent Mesenchymal Stem/Stromal Cells During Osteogenic Differentiation | Yang, CY; Lu, RJ; Lee, MK; Hsiao, FS; Yen, YP; Cheng, CC; Hsu, PS; Tsai, YT; Chen, SK; Liu, IH; Chen, PY ; Lin, SP | Frontiers in cell and developmental biology 9, 615098 | |||
| 22 | 2021 | Diversity of Fungal DNA Methyltransferases and Their Association With DNA Methylation Patterns | Nai, YS; Huang, YC; Yen, MR; Chen, PY | Frontiers in microbiology 11, 616922 | |||
| 23 | 2021 | ATACgraph: Profiling Genome-Wide Chromatin Accessibility From ATAC-seq | Rita Jui-Hsein Lu; Yen-Ting Liu; Chih Wei Huang; Ming-Ren Yen; Chung-Yen Lin ; Pao-Yang Chen | FRONTIERS IN GENETICS 11, 618478 | |||
| 24 | 2020 | Mycena genomes resolve the evolution of fungal bioluminescence | Ke, Huei-Mien; Lee, Hsin-Han; Lin, Chan-Yi Ivy; Liu, Yu-Ching; Lu, Min R.; Hsieh, Jo-Wei Allison; Chang, Chiung-Chih; Wu, Pei-Hsuan; Lu, Meiyeh Jade ; Li, Jeng-Yi; Shang, Gaus; Lu, Rita Jui-Hsien; Nagy, László G.; Chen, Pao-Yang ; Kao, Hsiao-Wei; Tsai, Isheng Jason | Proceedings of the National Academy of Sciences 117(49), 31267-31277 | |||
| 25 | 2020 | The expression of long non-coding RNAs is associated with H3Ac and H3K4me2 changes regulated by the HDA6-LDL1/2 histone modification complex in Arabidopsis | Hung, FY; Chen, C; Yen, MR; Hsieh, JW; Li, CL; Shih, YH; Chen, FF; Chen, PY ; Cui, YH; Wu, KQ | NAR Genomics and Bioinformatics 2(3), lqaa066 | |||
| 26 | 2020 | Epigenomic regulation of OTU5 in Arabidopsis thaliana | Hsieh, JW; Yen, MR; Chen, PY | GENOMICS 112(5), 3549-3559 | |||
| 27 | 2020 | Thermal-responsive genetic and epigenetic regulation of DAM cluster controlling dormancy and chilling requirement in peach floral buds | Zhu, H; Chen, PY ; Zhong, S; Dardick, C; Callahan, A; An, YQ; Nocker, S; Yang, YZ; Zhong, GY; Abbott, A; Liu, Z | HORTICULTURE RESEARCH 7, 114 | |||
| 28 | 2020 | MethGET: web-based bioinformatics software for correlating genome-wide DNA methylation and gene expression | Teng, CS; Wu, BH; Yen, MR; Chen, PY | BMC GENOMICS 21, 375 | |||
| 29 | 2020 | EpiMOLAS: an intuitive web-based framework for genome-wide DNA methylation analysis | Sheng-Yao Su; I-Hsuan Lu; Wen-Chih Cheng; Wei-Chun Chung; Pao-Yang Chen ; Jan-Ming Ho ; Shu-Hwa Chen; Chung-Yen Lin | BMC Genomics 21, 163 | |||
| 30 | 2020 | Construction and characterization of a knock-down RNA interference line of OsNRPD1 in rice (Oryza sativa ssp japonica cv Nipponbare) | Debladis, Emilie; Lee, Tzuu-Fen; Huang, Yan-Jiun; Lu, Jui-Hsien; Mathioni, Sandra M.; Carpentier, Marie-Christine; Llauro, Christel; Pierron, Davy; Mieulet, Delphine; Guiderdoni, Emmanuel; Chen, Pao-Yang ; Meyers, Blake C.; Panaud, Olivier; Lasserre, Eric | Philosophical Transactions of the Royal Society B: Biological Sciences 375(1795), 20190338 | |||
| 31 | 2019 | SWI3B and HDA6 interact and are required for transposon silencing in Arabidopsis | Yang, Jie; Yuan, Lianyu; Yen, Ming‐Ren; Zheng, Feng; Ji, Rujun; Peng, Tao; Gu, Dachuan; Yang, Songguang; Cui, Yuhai; Chen, Pao-Yang ; Wu, Keqiang; Liu, Xuncheng | The Plant Journal Early View | |||
| 32 | 2019 | The change of genome-wide DNA methylation during rice transformation | Chen, PY | ||||
| 33 | 2019 | Investigation of Genome-wide DNA Methylation in Plants, Animals and Fungi | Chen, PY | ||||
| 34 | 2019 | Exploring the transcriptome-methylome dynamics in Termitomyces eurhizus | Huang, YC; Hsieh, HM; Lin, CY; Ju, YM; Chen, PY | ||||
| 35 | 2019 | Behavioral Epigenetics: Perspectives Based on Experience-Dependent Epigenetic Inheritance | Pang, YY; Lu, JH; Chen, PY | Epigenomes 3(3), 18 | |||
| 36 | 2019 | The transformation impact on methylome and transcriptome of transgenic rice | Gohain, M; Chang, P; Lu, JH; Hsu, FM; Kuang, LY; Hsing, YI; Chen, PY | ||||
| 37 | 2019 | Detecting and prioritizing biosynthetic gene clusters for bioactive compounds in bacteria and fungi. | Tran, PN; Yen, MR; Chiang, CY; Lin, HC ; Chen, PY | Applied microbiology and biotechnology 103(8), 3277-3287 | |||
| 38 | 2019 | Polybenzyl glutamate biocompatible scaffold promotes the efficiency of retinal differentiation toward retinal ganglion cell lineage from human-induced pluripotent stem cells | 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 | International Journal of Molecular Sciences 20(1), 178 | |||
| 39 | 2018 | Exploring the transcriptome-methylome dynamics in Termitomyces mushroom | Hsu, FM; Hsieh, HM; Lu, JH; Hsieh, CJ; Huang, YJ; Yen, MR; Lin, CY; Ju, YM; Chen, PY | ||||
| 40 | 2017 | Deubiquitinating Enzyme OTU5 Contributes to DNA Methylation Patterns and Is Critical for Phosphate Nutrition Signals. | Yen, MR; Suen, DF; Hsu, FM; Tsai, YH; Fu, H; Schmidt, W; Chen, PY | Plant physiology 175(4), 1826-1838 | |||
| 41 | 2017 | Similarity between soybean and Arabidopsis seed methylomes and loss of non-CG methylation does not affect seed development. | Lin, JY ; Le, BH; Chen, M; Henry, KF; Hur, J; Hsieh, TF; Chen, PY ; Pelletier, JM; Pellegrini, M; Fischer, RL; Harada, JJ; Goldberg, RB | Proceedings of the National Academy of Sciences of the United States of America 114(45), E9730-E9739 | |||
| 42 | 2017 | A termite symbiotic mushroom maximizing sexual activity at growing tips of vegetative hyphae | 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; Yu-Ming Ju | Botanical Studies 58, 39 | |||
| 43 | 2017 | Vascular hypoperfusion in acute optic neuritis is a potentially new neurovascular model for demyelinating diseases. | Chen, TC; Yeh, CY; Lin, CW; Yang, CM; Yang, CH; Lin, IH; Chen, PY ; Cheng, JY; Hu, FR | PloS one 12(9), e0184927 | |||
| 44 | 2017 | Optimized reduced representation bisulfite sequencing reveals tissue-specific mCHH islands in maize. | Hsu, FM; Yen, MR; Wang, CT; Lin, CY; Wang, CJR ; Chen, PY | Epigenetics & chromatin 10, 42 | |||
| 45 | 2017 | H2B ubiquitylation and the histone chaperone Asf1 cooperatively mediate the formation and maintenance of heterochromatin silencing. | Wu, MY; Lin, CY; Tseng, HY; Hsu, FM; Chen, PY ; Kao, CF | Nucleic acids research 45(14), 8225-8238 | |||
| 46 | 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. | Hsu, FM; Chen, PY | Physics of life reviews 20, 143-145 | |||
| 47 | 2014 | Distinct and concurrent pathways of Pol II- and Pol IV-dependent siRNA biogenesis at a repetitive trans-silencer locus in Arabidopsis thaliana. | Sasaki, T; Lee, TF; Liao, WW; Naumann, U; Liao, JL; Eun, C; Huang, YY; Fu, JL; Chen, PY ; Meyers, BC; Matzke, AJ; Matzke, M | The Plant journal : for cell and molecular biology 79(1), 127-38 | |||
| 48 | 2014 | The effects of perinatal testosterone exposure on the DNA methylome of the mouse brain are late-emerging. | Ghahramani, NM; Ngun, TC; Chen, PY ; Tian, Y; Krishnan, S; Muir, S; Rubbi, L; Arnold, AP; de Vries, GJ; Forger, NG; Pellegrini, M; Vilain, E | Biology of sex differences 5, 8 | |||
| 49 | 2013 | BS-Seeker2: a versatile aligning pipeline for bisulfite sequencing data. | Guo, W; Fiziev, P; Yan, W; Cokus, S; Sun, X; Zhang, MQ; Chen, PY ; Pellegrini, M | BMC genomics 14, 774 |
