呂美曄 研究副技師

實驗室主持人

Dr.呂美曄

研究副技師

Ph.D. University of Illinois, Urbana-Champaign, USA

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辦公室: 跨領域 A603

電話:+886-2-2787-2218

研究領域
  • 功能基因組學
  • 光合作用轉錄體
  • 細菌比較基因組學

研究方向

  • 次世代高通量定序技術為近年來在基因組研究的一個重大突破。它利用大量的DNA片段平行測序,將所需的時間和成本大大降低。目前的機型可在一天之內產生30 Giga 的鹼基,相當於10倍的人類基因組資料量,而人類基因組歷時10年的研究才完成了第一組序。
  • 近幾年來有很多NGS平台陸續的開發出來。自我們的定序核心設施自2008年成立以來,已陸續建置了二定序平台 - 羅氏454 和 Illumina公司,已及三代的PacBio定序儀,並逐年升級到最新的讀取長度與產能。
  • 羅氏的 454 XLR+能夠讀取1KB測序,為全新組裝的一大利器。Illumina HiSeq2500的高通量(每次運行產出600 GB)和快速模式(90GB在60小時),其高產值提供了定量分析所需的深度和廣度;小型Illumina MiSeq 定序儀則提供更靈活的長度和通量選擇,最長雙端PE2*300nt的定序為metagenomics amplicon-sequencing (例如16S 和ITS)的利器。隨著定序技術的快速發展和多樣性,我們於2017年建置了第三代的PacBio Sequel System,利用及時螢光偵測進行單分子的定序,可長達20-40kb的讀長,有利解決repeat sequencing 在基因體組裝上的困擾,也能提供16S 全長amplicon的定序和metagenome中物種分類的精細度。
  • 為因應大量定序數據的計算分析,許多相關的生物資訊算法快度發展,以滿足數據處理的需求,及幫助解決各種高通量定序相關的研究課題,包括基因組解序,轉錄組表現分析,染色質修飾和基因表達調控。許多計算流程皆已提供開放源碼。
  • 藉由進行各種研發,我們在NGS研究的不同方面都獲得了很多的經驗。我們提供高品質的樣品庫備製和定序資料,並適應中央研究院以及對外合作計畫對NGS研究的不同需求。我們將繼續利用現有的技術和能力,發掘和擴展到新的高通量定序研究領域。

 

最新發表

期刊論文 ( 2015 - 2018 )

  1. Huang Chih-Jen, Lu Mei-Yeh, Chang Ya-Wen, Li Wen-Hsiung, 2018, “Experimental Evolution of Yeast for High-Temperature Tolerance”, Molecular Biology and Evolution, 35(8), 1823-1839. (SCI) (IF: 6.202; SCI ranking: 12.8%,9%,10.4%) Link
  2. Chuang TJ, Chen YJ, Chen CY, Mai TL, Wang YD, Yeh CS, Yang MY, Hsiao YT, Chang TH, Kuo TC, Cho HH, Shen CN, Kuo HC, Lu MY, Chen YH, Hsieh SC, Chiang TW, 2018, “Integrative transcriptome sequencing reveals extensive alternative trans-splicing and cis-backsplicing in human cells.”, Nucleic acids research, 46(7), 3671-3691.. (SCI) (IF: 10.162; SCI ranking: 4.8%) Link
  3. Chung CL, Lee TJ, Akiba M, Lee HH, Kuo TH, Liu D, Ke HM, Yokoi T, Roa MB, Lu MJ, Chang YY, Ann PJ, Tsai JN, Chen CY, Tzean SS, Ota Y, Hattori T, Sahashi N, Liou RF, Kikuchi T, Tsai IJ, 2017, “Comparative and population genomic landscape of Phellinus noxius: A hypervariable fungus causing root rot in trees.”, Molecular ecology, 26(22), 6301-6316. (SCI) (IF: 6.086; SCI ranking: 13.4%,12.5%,5.9%) Link
  4. Ke Huei-Mien, Prachumwat Anuphap, Yu Chun-Ping, Yang Yi-Ting, Promsri Sutitcha, Liu Kuan-Fu, Lo Chu-Fang, Lu Mei-Yeh Jade, Lai Mei-Chin, Tsai Isheng J., Li Wen-Hsiung, 2017, “Comparative genomics of Vibrio campbellii strains and core species of the Vibrio Harveyi clade”, Scientific Reports, 7, 41394. (SCI) (IF: 4.259; SCI ranking: 15.6%) Link
  5. Huang CF, Yu CP, Wu YH, Lu MJ, Tu SL, Wu SH, Shiu SH, Ku MSB, Li WH, 2017, “Elevated auxin biosynthesis and transport underlie high vein density in C4 leaves.”, Proceedings of the National Academy of Sciences of the United States of America, 114(33), E6884-E6891. (SCI) (IF: 9.661; SCI ranking: 6.3%) Link
  6. Chen CK, Yu CP, Li SC, Wu SM, Lu MJ, Chen YH, Chen DR, Ng CS, Ting CT, Li WH, 2017, “Identification and evolutionary analysis of long non-coding RNAs in zebra finch.”, BMC genomics, 18(1), 117. (SCI) (IF: 3.729; SCI ranking: 21.9%,29.9%) Link
  7. Kevin J. Tsai, Mei-Yeh Jade Lu, Kai-Jung Yang, Mengyun Li, Yuchuan Teng, Shihmay Chen, Maurice S. B. Ku & Wen-Hsiung Li, 2016, “Assembling the Setaria italica L. Beauv. genome into nine chromosomes and insights into regions affecting growth and drought tolerance”, Scientific Reports, 6, 35076. (SCI) (IF: 4.259; SCI ranking: 15.6%) Link
  8. Chih-Kuan Chen, Chen Siang Ng, Siao-Man Wu, Jiun-Jie Chen, Po-liang Cheng, Ping Wu, Mei-Yeh Jade Lu, Di-Rong Chen, Cheng-Ming Chuong, Hsu-Chen Cheng*, Chau-Ti Ting* & Wen-Hsiung Li*, 2016, “Regulatory Differences in Natal Down Development between Altricial Zebra Finch and Precocial Chicken”, MOLECULAR BIOLOGY AND EVOLUTION, 33(8), 2030-2043. (SCI) (IF: 6.202; SCI ranking: 12.8%,9%,10.4%) Link
  9. Shiao MS, Chang JM, Fan WL, Lu MJ, Notredame C, Fang S, Kondo R, Li WH, 2015, “Expression divergence of chemosensory genes between Drosophila sechellia and its sibling species and its implications for host shift.”, Genome biology and evolution, 7(10), 2843-2858. (SCI) (IF: 3.979; SCI ranking: 25.1%,29.2%) Link
  10. Yu CP, Chen SC, Chang YM, Liu WY, Lin HH, Lin JJ, Chen HJ, Lu YJ, Wu YH, Lu MY, Lu CH, Shih AC, Ku MS, Shiu SH, Wu SH, Li WH, 2015, “Transcriptome dynamics of developing maize leaves and genomewide prediction of cis elements and their cognate transcription factors.”, Proceedings of the National Academy of Sciences of the United States of America, 112(19), E2477-E2486. (SCI) (IF: 9.661; SCI ranking: 6.3%) Link
  11. Ng CS, Chen CK, Fan WL, Wu P, Wu SM, Chen JJ, Lai YT, Mao CT, Lu MY, Chen DR, Lin ZS, Yang KJ, Sha YA, Tu TC, Chen CF, Chuong CM, Li WH, 2015, “Transcriptomic analyses of regenerating adult feathers in chicken.”, BMC genomics, 16(1), 756. (SCI) (IF: 3.729; SCI ranking: 21.9%,29.9%) Link

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