NGS-based genome assembly and annotation

日前實驗室剛完成一個draft of a plant genome (including annotation)
所謂的draft，就是距離complete還很遙遠的意思!

決定務實一點，先將該pipeline應用於較小的genome sequencing projects (e.g. fungal genomes)
以下分享c4Lab為達此一目的所累積的線上學習資源(如需上課錄音檔的密碼，歡迎來信索取)：

1. 結構生物資訊學 week 1 (Sep. 9, 2013) Introduction to NGS
2. Monya Baker, De novo genome assembly: what every biologist should know, Nature methods, vol. 9, no. 4, 333-337, 2012.
3. 結構生物資訊學 week 2 (Sep. 16, 2013) NGS-based genome assembly
4. Mark Yandell and Daniel Ence, A beginner's guide to eukaryotic genome annotation, Nature Reviews: Genetics, vol. 13, 329-342, 2012.
5. 結構生物資訊學 week 3 (Sep. 23, 2013) Gene prediction
6. JGI Fungal Annotation Pipeline
7. PASA in the Context of a Complete Eukaryotic Annotation Pipeline (Broad Institute)
8. 結構生物資訊學 week 4 (Sep. 30, 2013) Gene annotation

結束四週的課程後，緊接著，植微系舉辦了一系列的相關演講，歡迎大家踴躍參加：

地點：植微系一號館308教室

10/5 (Sat) 15:00-16:00
Diversity of a gene family encoding putative effectors in the rice blast fungus 
(Dr. Daniel Ebbole)

10/5 (Sat) 16:00-17:00
Basic bioinformatics: how to use PERL for BLAST search and SNP detection 
(Dr. Daniel Ebbole)

10/6 (Sun) 09:30-10:45
Genomic analysis of conidiation in the Ascomycete fungi 
(Dr. Daniel Ebbole)

10/6 (Sun) 10:45-12:00
Fusarium pathogenomics: understanding fungal pathogenicity through genomics 
(Dr. Li-Jun Ma)

10/7 (Mon) 09:30-10:30
High performance computing for life science (Bioinformatics pipeline at Univ. of Massachusetts) 
(Dr. Li-Jun Ma)