archive:spring_2015_syllabus
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archive:spring_2015_syllabus [2015/05/11 16:35] jolespin |
archive:spring_2015_syllabus [2015/07/18 20:32] ceisenhart ↷ Page moved from spring_2015_syllabus to archive:spring_2015_syllabus |
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| | 3 | 3 Apr | Disection and sequencing libraries | Weber / Green | [[lecture_notes:04-03-2015]] | Richardson | Hussain | {{lecture_notes:slug_presentation.pdf|Banana slug genome project}} | | | 3 | 3 Apr | Disection and sequencing libraries | Weber / Green | [[lecture_notes:04-03-2015]] | Richardson | Hussain | {{lecture_notes:slug_presentation.pdf|Banana slug genome project}} | | ||
| | 4 | 6 Apr | De novo genome assembly I | Prost | [[lecture_notes:04-06-2015]] | Kan | Chaves | {{::genomics_workshop_ucsc.pdf|}} | | | 4 | 6 Apr | De novo genome assembly I | Prost | [[lecture_notes:04-06-2015]] | Kan | Chaves | {{::genomics_workshop_ucsc.pdf|}} | | ||
| - | | 5 | 8 Apr | De novo genome assemlby II | Prost | [[lecture_notes:04-08-2015]] | Hussain |jolespin | {{::genomics_workshop_ucsc.pdf|}} | | + | | 5 | 8 Apr | De novo genome assembly II | Prost | [[lecture_notes:04-08-2015]] | Hussain |jolespin | {{::genomics_workshop_ucsc.pdf|}} | |
| | 6 | 10 Apr | De novo genome assembly III | Prost | [[lecture_notes:04-10-2015]] | Musselman-Brown |jolespin | {{::genomics_workshop_ucsc.pdf|}} | | | 6 | 10 Apr | De novo genome assembly III | Prost | [[lecture_notes:04-10-2015]] | Musselman-Brown |jolespin | {{::genomics_workshop_ucsc.pdf|}} | | ||
| | 7 | 13 Apr | Illumina sequencing technology | Green | [[lecture_notes:04-13-2015]] | Hussain |Eisenhart | {{:illumina-sequencing-v1.pdf|Illumina slides}} | | | 7 | 13 Apr | Illumina sequencing technology | Green | [[lecture_notes:04-13-2015]] | Hussain |Eisenhart | {{:illumina-sequencing-v1.pdf|Illumina slides}} | | ||
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| | 15 | 1 May | Population genetics / [[http://www.nature.com/nature/journal/v475/n7357/full/nature10231.html|PSMC]] | Green | [[lecture_notes:05-01-2015]] | Saremi | Markello | | | 15 | 1 May | Population genetics / [[http://www.nature.com/nature/journal/v475/n7357/full/nature10231.html|PSMC]] | Green | [[lecture_notes:05-01-2015]] | Saremi | Markello | | ||
| | 16 | 4 May | Mate-pair libraries | Weber/O'Connell | [[lecture_notes:05-04-2015]] | Musselman-Brown | Cole |{{:slug_mate_pair_presentation.pdf|Mate Pair Libraries}}| | | 16 | 4 May | Mate-pair libraries | Weber/O'Connell | [[lecture_notes:05-04-2015]] | Musselman-Brown | Cole |{{:slug_mate_pair_presentation.pdf|Mate Pair Libraries}}| | ||
| - | | 17 | 6 May | RNAseq | Katzman | [[lecture_notes:05-06-2015]] | Dudek | Chaves |{{:rnaseq.pdf|RNA-seq}}| | + | | 17 | 6 May | RNAseq | Katzman | [[lecture_notes:05-06-2015]] | Dudek | Chaves |{{:rnaseq.pdf|RNA-seq}}; {{:trapnell_et_al._2010.pdf|Trapnell et al., 2010}}| |
| | 18 | 8 May | Strategy session | Karplus/class | [[lecture_notes:05-08-2015]] | Saremi | Markello | | | 18 | 8 May | Strategy session | Karplus/class | [[lecture_notes:05-08-2015]] | Saremi | Markello | | ||
| - | | 19 | 11 May | Team 1 report | Team 1 | [[lecture_notes:05-11-2015]] | Eisenhart | Matthew | | + | | 19 | 11 May | Team 1 report | Team 1 | [[lecture_notes:05-11-2015]] | Eisenhart | Matthew |{{:bme235_meraculous_report_2.pdf|}}| |
| - | | 20 | 13 May | Team 2 report | Team 2 | [[lecture_notes:05-13-2015]] |Feal | Calef | | + | | 20 | 13 May | Team 2 report | Team 2 | [[lecture_notes:05-13-2015]] |Feal | Calef | {{:soapassembly2_update.pptx.pdf| Team 2 SOAPdenovo2 update}}| |
| | 21 | 15 May | Team 3 report | Team 3 | [[lecture_notes:05-15-2015]] | Chaves| Calef | | | 21 | 15 May | Team 3 report | Team 3 | [[lecture_notes:05-15-2015]] | Chaves| Calef | | ||
| | 22 | 18 May | Team 4 report | Team 4 | [[lecture_notes:05-18-2015]] | Musselman-Brown | McGovern| | | 22 | 18 May | Team 4 report | Team 4 | [[lecture_notes:05-18-2015]] | Musselman-Brown | McGovern| | ||
| - | | 23 | 20 May | Team 5 report | Team 5 | [[lecture_notes:05-20-2015]] | jolespin | Saremi | | + | | 23 | 20 May | Team 5 report | Team 5 | [[lecture_notes:05-20-2015]] | jolespin | Saremi |{{:discovar_team_presentation_2.pdf|}} | |
| - | | 24 | 22 May | | | [[lecture_notes:05-22-2015]] | JaredC | Saremi | | + | | 24 | 22 May | Assembly of Repeat regions | | [[lecture_notes:05-22-2015]] | JaredC | Saremi | |
| | - | 25 May | Holiday | N/A | N/A | N/A | N/A | | | - | 25 May | Holiday | N/A | N/A | N/A | N/A | | ||
| - | | 25 | 27 May | | | [[lecture_notes:05-27-2015]] | Kan| Feal| | + | | 25 | 27 May | Genome Annotation {{lecture_notes:eukgeneannotation.pdf|Annotation Review paper}} | Prost | [[lecture_notes:05-27-2015]] | Kan| Feal| {{::annotation_workshop_ucsc.pdf}}| |
| | 26 | 29 May |Jellyfish internals for kmer counting | Karplus | [[lecture_notes:05-29-2015]] | Kan| JaredC | | | 26 | 29 May |Jellyfish internals for kmer counting | Karplus | [[lecture_notes:05-29-2015]] | Kan| JaredC | | ||
| | 27 | 1 Jun | Burrows-Wheeler transform (guts of most mappers) | Karplus | [[lecture_notes:06-01-2015]] | JaredC | Markello | | | 27 | 1 Jun | Burrows-Wheeler transform (guts of most mappers) | Karplus | [[lecture_notes:06-01-2015]] | JaredC | Markello | | ||
| - | | 28 | 3 Jun | | | [[lecture_notes:06-03-2015]] |Feal | Calef| | + | | 28 | 3 Jun | Presentation for donor & final analysis I | | [[lecture_notes:06-03-2015]] |Feal | Calef| |
| - | | 29 | 5 Jun | Final analysis II | Green | [[lecture_notes:06-05-2015]] | JaredC | Dudek | | + | | 29 | 5 Jun | Presentation for donors & final analysis II | Green | [[lecture_notes:06-05-2015]] | JaredC | Dudek | {{::finalpresentation_bme235.pdf|}}| |
archive/spring_2015_syllabus.txt · Last modified: 2015/10/21 18:46 by karplus
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