Pei-Yu Lin
Hello, there
- Resume
- Projects
- Publications
Experiences
Research Assistant (RA)
Institute of Plant ans Microbial Biology, Academia SinicaNov 2019 - present (4 yr)
Taipei, Taiwan
• Adopted a novel method for fungal genomic research and reach 90% accuracy in essential gene prediction
• Analysed the NGS samples mostly ATAC-seq and RNA-seq
• Developed and maintain the programmes for bioinformatic analyses
• Wrote research reports and papers
• Gave lectures in the universities for graduated students about NGS analyses
• Maintained and managed the four servers and lab website
• Recruited new lab members and mentored undergraduate students
Bioinformatics
Biostatistics
Epigenetics
R
Python
Intern
Conservation centre, Taipei ZooJul 2016 - Aug 2016 (2 mon)
Taipei, Taiwan
• Designed and implemented behavioural enrichment strategies for sun bears
• Wrote and present research reports
Ecology
Conservation
Behaviour
Bears
Zoology
Education
University of Aberdeen
MSc in Ecology and ConservationAug 2018 - Jun 2019
Influences of Social and Spacing System on the Subadult of Townsend’s Vole (Microtus townsendii)
Fu Jen Catholic University
BSc in Life ScienceSep 2014 - Jun 2018
Olfactory Cues to Elicit Aggressive Response of Two Gall-forming Aphids in Hormaphidinae
Fungal Genomics
Main project | Nov 2019 - Present
Predict biosynthesis gene clusters based on essential genes
Collaboration | May 2021 - Present
Fungi
Genomics
Core genes
Essential genes
BGC
Maize (Epi)genomics
Jun 2022 - Present
Collaboration | Jun 2021 - Present
ATAC-seq
RNA-seq
Zea Maize
Methylation Analyses
Dec 2021 - Present
OCt 2022 - Present
Methylation heterogeneity
Mathematical model
Biodiversity framework
*co-first author
Publications
HT Lee, PY. Lin and PY. Chen (2023) There’s More to It: Uncovering Genomewide DNA Methylation Heterogeneity Epigenomics, https://doi.org/10.2217/epi-2023-0228 R. JH. Lu*, PY. Lin*, MR. Yen*, BH. Wu and PY. 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 PY. Lin and PY. 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
Book chapter
PY. Lin, KL. Chen, GJ. Lin, SC. Huang and PY. Chen (2023) Bioinformatics Analysis of DNA Methylation. Methods in Molecular Biology, under review CY. L. Sheu*, YC. Huang*, PY. Lin , GJ. Lin and PY. Chen (2023) Bioinformatics of Epigenetic Data Generated from Next-Generation Sequencing, chapter 4. Elsevier in Translational Epigenetics, 3 edition
Conferences
2023 - Jul : Identification of Core Genes in Fungal Genomes Assisting the Discovery of Essential Genes. oral session presented at 2023 MSA Annual Meeting: Elevating Mycology, Flagstaff, Arizona, USA
2022 - Jul : Estimating Genome-wide DNA Methylation Heterogeneity with Methylation Patterns. oral session presented at The 31th South Taiwan Statistic Conference, Taichung, Taiwan
2021 - Dec : 500 Fungal Genomes: Predicting Essential Genes through Core Genes by Network Statistics. poster session presented at Academic Advisory Committee Meeting, online
2021 - Nov : A network-based method for predicting fungal essential genes through identification of core genes. oral presented at Annual Meeting of Taiwan Mycological Society, online
2021 - Oct : A network-based method for predicting fungal essential genes through identification of core genes. oral presented at The 30th South Taiwan Statistic Conference, Kaohsiung, Taiwan
2021 - Jul : 500 Fungal Genomes: Finding Essential Genes based on Core Genes Prediction. poster session presented at Botany 2021 Virtual, online
2021 - Apr : Finding Potential Drug Targets of Pathogenic Fungi by Fungal Essential Genes Through Core Genes Prediction. poster session presented at Annual Meeting of Taiwan Agronomy Society, Chiayi, Taiwan
2020 - Oct : FunCore: A Database for Fungal Core Genes. poster and short talk session presented at Annual Meeting of Taiwan Mycological Society, Taipei, Taiwan
2020 - Jul : FunCore: A Database for Fungal Core Genes. poster session presented at Annual Meeting of Mycological Society of America, online
2018 - Mar : Olfactory Cues to Elicit Aggressive Response of Two Gall-forming Aphids in Hormaphidinae. poster session presented at Seventh International Symposium on Cecidology, Nantou, Taiwan
2017 - Jan : Behavioural Enrichment Strategies of Sun Bear (Helarctos malayanus) in Taipei Zoo. poster session presented at 2017 Congress of Animal Behavior and Ecology, Kaohsiung, Taiwan
2022 - Jul : Estimating Genome-wide DNA Methylation Heterogeneity with Methylation Patterns. oral session presented at The 31th South Taiwan Statistic Conference, Taichung, Taiwan
2021 - Dec : 500 Fungal Genomes: Predicting Essential Genes through Core Genes by Network Statistics. poster session presented at Academic Advisory Committee Meeting, online
2021 - Nov : A network-based method for predicting fungal essential genes through identification of core genes. oral presented at Annual Meeting of Taiwan Mycological Society, online
2021 - Oct : A network-based method for predicting fungal essential genes through identification of core genes. oral presented at The 30th South Taiwan Statistic Conference, Kaohsiung, Taiwan
2021 - Jul : 500 Fungal Genomes: Finding Essential Genes based on Core Genes Prediction. poster session presented at Botany 2021 Virtual, online
2021 - Apr : Finding Potential Drug Targets of Pathogenic Fungi by Fungal Essential Genes Through Core Genes Prediction. poster session presented at Annual Meeting of Taiwan Agronomy Society, Chiayi, Taiwan
2020 - Oct : FunCore: A Database for Fungal Core Genes. poster and short talk session presented at Annual Meeting of Taiwan Mycological Society, Taipei, Taiwan
2020 - Jul : FunCore: A Database for Fungal Core Genes. poster session presented at Annual Meeting of Mycological Society of America, online
2018 - Mar : Olfactory Cues to Elicit Aggressive Response of Two Gall-forming Aphids in Hormaphidinae. poster session presented at Seventh International Symposium on Cecidology, Nantou, Taiwan
2017 - Jan : Behavioural Enrichment Strategies of Sun Bear (Helarctos malayanus) in Taipei Zoo. poster session presented at 2017 Congress of Animal Behavior and Ecology, Kaohsiung, Taiwan