{"id":298,"date":"2022-12-20T10:52:19","date_gmt":"2022-12-20T01:52:19","guid":{"rendered":"http:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/?page_id=298"},"modified":"2023-09-22T16:10:34","modified_gmt":"2023-09-22T07:10:34","slug":"course-2013-2","status":"publish","type":"page","link":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/course-2013-2\/","title":{"rendered":"Course 2013"},"content":{"rendered":"\n

Kyoto Course on Bioinformatics for Next Generation Sequencing with Applications in Human Genetics \u2013 January 15 \u2013 18, 2013<\/strong><\/big><\/p>\n\n\n\n

Day 1 EXOME AND WHOLE GENOME SEQUENCING USING MASSIVELY-PARALLEL SEQUENCERS<\/mark><\/strong><\/p>\n\n\n\n

10:00 \u2013 10:15 Opening remarks <\/strong> F. Matsuda
10:15 \u2013 11:00 Lecture Introduction to next generation sequencing technologies and applications <\/strong> M. Lathrop
11:00 \u2013 11:30 Coffee Break<\/em>
11:30 \u2013 12:30 Lecture Understanding the high-throughput sequencing data analysis workflow <\/strong>G. Bourque
12:30 \u2013 13:30 Lunch<\/em>
13:30 \u2013 14:30 Lecture Quality assessment and filtering, mapping strategies for sequence reads <\/strong>G. Bourque
14:30 \u2013 15:00 Coffee Break<\/em>
15:00 \u2013 16:30 Lecture and Practical Rare variants association analyses <\/strong>D. Weeks
16:30 \u2013 17:30 Practical Basic Linux Staff<\/strong><\/p>\n\n\n\n


Day 2 APPLICATIONS TO RNA ANALYSIS AND DATA SUBMISSION<\/mark><\/strong><\/p>\n\n\n\n

9:00 \u2013 10:00 Lecture Introduction to RNA-seq: expression estimation and normalisation <\/strong>M. Gonzalez-Porta
10:00 \u2013 11:00 Lecture Differential expression and differential exon usage <\/strong>M. Gonzalez-Porta
11:00 \u2013 11:15 Coffee Break<\/em>
11:15 \u2013 12:30 Practical Dealing with raw RNA-seq data: quality assessment, filtering and mapping <\/strong>M. Gonzalez-Porta
12:30 \u2013 13:30 Lunch<\/em>
13:30 \u2013 14:00 Lecture ENA introduction <\/strong>R. Radhakrishnan
14:00 \u2013 14:30 Lecture SRA introduction <\/strong>R. Radhakrishnan
14:30 \u2013 15:30 Lecture SRA submission, browsing, and data retrieval <\/strong>R. Radhakrishnan
15:30 \u2013 16:00 Coffee Break<\/em>
16:00 \u2013 16:25 Lecture Data compression <\/strong>R. Radhakrishnan
16:25 \u2013 17:55 Practical ENA submission <\/strong>R. Radhakrishnan<\/p>\n\n\n\n


Day 3 PRACTICALS FOR EXOME AND RNA-SEQ<\/mark><\/strong><\/p>\n\n\n\n

9:00 \u2013 12:30 Practical Exome sequencing data analysis (~10:30 Coffee Break) <\/strong>G. Bourque
12:30 \u2013 13:30 Lunch<\/em>
13:30 \u2013 17:00 Practical Dealing with aligned data (including differential expression analysis) (~15:00 Coffee Break) <\/strong>M. Gonzalez-Porta<\/p>\n\n\n\n


Day 4 HUMAN GENETICS<\/mark><\/strong><\/p>\n\n\n\n

9:00 \u2013 10:00 Lecture Introduction to disease gene mapping <\/strong>J. Ott
10:00 \u2013 11:00 Practical Disease gene mapping <\/strong>J. Ott
11:00 \u2013 11:30 Coffee Break<\/em>
11:30 \u2013 12:30 Lecture Imputation and testing imputed SNPs <\/strong>M. Devoto
12:30 \u2013 13:30 Lunch<\/em>
13:30 \u2013 14:30 Practical Imputation and testing imputed SNPs <\/strong>M. Devoto
14:30 \u2013 15:30 Lecture Statistical tests for NGS data and heterogeneity statistics for association analysis <\/strong>D. Gordon
15:30 \u2013 16:00 Coffee Break<\/em>
16:00 \u2013 17:00 Practical Statistical tests for NGS data and heterogeneitystatistics for association analysis <\/strong>D. Gordon
17:00 \u2013 17:30 Lecture Cancer genetics and genomics: Of Mice and Men M. <\/strong>M. Taketo<\/p>\n","protected":false},"excerpt":{"rendered":"

Kyoto Course on Bioinformatics for Next Generation Sequencing with Applications in Human Genetics \u2013 January 15 \u2013 18, 2013 Day 1 EXOME AND WHOLE GENOME SEQUENCING USING MASSIVELY-PARALLEL SEQUENCERS 10:00 \u2013 10:15 Opening remarks F. Matsuda10:15 \u2013 11:00 Lecture Introduction to next generation sequencing technologies and applications M. Lathrop11:00 \u2013 11:30 Coffee Break11:30 \u2013 12:30…<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"tags":[],"class_list":["post-298","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/pages\/298","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/comments?post=298"}],"version-history":[{"count":7,"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/pages\/298\/revisions"}],"predecessor-version":[{"id":772,"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/pages\/298\/revisions\/772"}],"wp:attachment":[{"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/media?parent=298"}],"wp:term":[{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/w3.genome.med.kyoto-u.ac.jp\/en\/wp-json\/wp\/v2\/tags?post=298"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}