嗨！我是腫瘤惡化卓越研究中心的博士後研究員 徐志欣，參與基因體研究多年，特別是在單細胞基因表現/空間定序資料分析方面，歡迎您來跟我討論。 [研究領域] Genomics, Bioinformatics, NGS [學歷]博士 國立陽明大學微生物及免疫學研究所碩士 中山醫學大學免疫所學士 中山醫學院醫學檢驗暨生物技術學系 [證照/證書]醫事檢驗師執照。游離輻射設備(１５０keV以下)操作結訓證書TAF醫學實驗室認證規範ISO15189訓練合格證書TAF醫學實驗室主管訓練合格證書MiniSeq、NextSeq550機台訓練結業證書 [經歷]陽明大學 腫瘤惡化卓越研究中心 博士後研究員三軍總醫院精準醫學暨基因體中心 研究員中央研究院原子與分子科學研究所 博士後研究員 [專長]動物相關實驗小鼠相關實驗操作小鼠活體冷光影像操作組織切片及染色哺乳類動物細胞培養與相關實驗操作生化分析相關實驗分子生物相關實驗流式細胞儀分析相關實驗軟體應用Windows、MacOS及Linux系統安裝與操作生物資訊分析生物晶片資料分析(Microarray)全基因組資料分析(NGS, WGS)外顯子資料分析(NGS, WES)細菌基因體組裝(NGS, Bacterial Genome De novo assembly)RNA資料分析(NGS, RNA-Seq)單細胞定序資料分析(NGS, Single cell-Seq)RNA序列再組裝(NGS, RNA De novo assembly) [著作] Jian MJ, Cheng YH, Chung HY, Cheng YH, Yang HY, Hsu CS, Perng CL, Shang HS. (2019, Jun) Fluoroquinolone resistance in carbapenem-resistant Elizabethkingia anophelis: phenotypic and genotypic characteristics of clinical isolates with topoisomerase mutations and comparative genomic analysis. J Antimicrob Chemother. 74(6):1503-1510. Hsu JT, Hsu CS, Le PH, Chen TC, Chou WC, Lin CY, Yeh TS (2017, May).Immunochemotherapy benefits in gastric cancer patients stratified by programmed death-1 ligand-1. […]
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GASystemChannel －GA11 QIIME2 Beta多樣性分析 (coming soon) Environment requirement Hardware : CPU : 10 cores RAM : 45 Gb Software :The pipeline is developed based on GA System. All software used in the pipeline are included in pre-defined software environments (GA application collection ). Please install suitable environment before start the pipeline(How to do it!) . The diagram of workflow Reference Microbiome Path Source Silva138NBscikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/ QIIME2_Data_resources Greengenes138NBscikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/ QIIME2_Data_resources RDPtraset18scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/RDPclassifier/ RDP Classifier NCBIBioProj33175scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33175/ QIIME2_forum NCBIBioProj33317scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33317/ QIIME2_forum
GA11 QIIME2 Beta多樣性分析
GASystemChannel －GA13 微生物基因註解分析 (coming soon) Environment requirement Hardware : CPU : 10 cores RAM : 45 Gb Software :The pipeline is developed based on GA System. All software used in the pipeline are included in pre-defined software environments (GA application collection ). Please install suitable environment before start the pipeline(How to do it!) . The diagram of workflow Reference Microbiome Path Source Silva138NBscikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/ QIIME2_Data_resources Greengenes138NBscikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/ QIIME2_Data_resources RDPtraset18scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/RDPclassifier/ RDP Classifier NCBIBioProj33175scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33175/ QIIME2_forum NCBIBioProj33317scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33317/ QIIME2_forum
GA13 微生物基因註解分析
GASystemChannel －GA10 QIIME2 Alpha多樣性分析 (coming soon) Environment requirement Hardware : CPU : 10 cores RAM : 45 Gb Software :The pipeline is developed based on GA System. All software used in the pipeline are included in pre-defined software environments (GA application collection ). Please install suitable environment before start the pipeline(How to do it!) . The diagram of workflow Reference Microbiome Path Source Silva138NBscikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/ QIIME2_Data_resources Greengenes138NBscikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/ QIIME2_Data_resources RDPtraset18scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/RDPclassifier/ RDP Classifier NCBIBioProj33175scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33175/ QIIME2_forum NCBIBioProj33317scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33317/ QIIME2_forum
GA10 QIIME2 Alpha多樣性分析
GASystemChannel －GA12 QIIME2 微生物種系分析 (coming soon) Environment requirement Hardware : CPU : 10 cores RAM : 45 Gb Software :The pipeline is developed based on GA System. All software used in the pipeline are included in pre-defined software environments (GA application collection ). Please install suitable environment before start the pipeline(How to do it!) . The diagram of workflow Reference Microbiome Path Source Silva138NBscikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/ QIIME2_Data_resources Greengenes138NBscikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/ QIIME2_Data_resources RDPtraset18scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/RDPclassifier/ RDP Classifier NCBIBioProj33175scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33175/ QIIME2_forum NCBIBioProj33317scikit0.24.1 /staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33317/ QIIME2_forum