Difference between revisions of "Lecture 19"
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__NOTOC__ | __NOTOC__ | ||
| − | <small>[[ | + | <small>[[Lecture_20|(Previous lecture)]] ... [[Lecture_22|(Next lecture)]]</small> |
==Microarray Analysis== | ==Microarray Analysis== | ||
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| − | [[Image: | + | [[Image:L21_s002.jpg|frame|none|Lecture 21, Slide 002<br> |
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| − | [[Image: | + | [[Image:L21_s004.jpg|frame|none|Lecture 21, Slide 004<br> |
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| − | [[Image: | + | [[Image:L21_s007.jpg|frame|none|Lecture 21, Slide 007<br> |
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| − | [[Image: | + | [[Image:L21_s008.jpg|frame|none|Lecture 21, Slide 008<br> |
Rogojina ''et al.'' (2003) Use of Affymetrix to spotted oligonucleotide microarrays using two retinal epithelial cell lines. Molecular Vision 9:482-96 | Rogojina ''et al.'' (2003) Use of Affymetrix to spotted oligonucleotide microarrays using two retinal epithelial cell lines. Molecular Vision 9:482-96 | ||
]] | ]] | ||
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| − | [[Image: | + | [[Image:L21_s009.jpg|frame|none|Lecture 21, Slide 009<br> |
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| − | [[Image: | + | [[Image:L21_s010.jpg|frame|none|Lecture 21, Slide 010<br> |
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| − | [[Image: | + | [[Image:L21_s011.jpg|frame|none|Lecture 21, Slide 011<br> |
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| − | [[Image: | + | [[Image:L21_s012.jpg|frame|none|Lecture 21, Slide 012<br> |
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| − | [[Image: | + | [[Image:L21_s013.jpg|frame|none|Lecture 21, Slide 013<br> |
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| − | [[Image: | + | [[Image:L21_s014.jpg|frame|none|Lecture 21, Slide 014<br> |
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| − | [[Image: | + | [[Image:L21_s015.jpg|frame|none|Lecture 21, Slide 015<br> |
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| − | [[Image: | + | [[Image:L21_s016.jpg|frame|none|Lecture 21, Slide 016<br> |
Writeup in [http://bioinformatics.oxfordjournals.org/cgi/reprint/19/5/651 Pertea ''et al.'' (2003) Bioinformatics '''19''':651-652] | Writeup in [http://bioinformatics.oxfordjournals.org/cgi/reprint/19/5/651 Pertea ''et al.'' (2003) Bioinformatics '''19''':651-652] | ||
]] | ]] | ||
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| − | [[Image: | + | [[Image:L21_s017.jpg|frame|none|Lecture 21, Slide 017<br> |
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| − | [[Image: | + | [[Image:L21_s018.jpg|frame|none|Lecture 21, Slide 018<br> |
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| − | [[Image: | + | [[Image:L21_s019.jpg|frame|none|Lecture 21, Slide 019<br> |
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| − | [[Image: | + | [[Image:L21_s021.jpg|frame|none|Lecture 21, Slide 021<br> |
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| − | [[Image: | + | [[Image:L21_s022.jpg|frame|none|Lecture 21, Slide 022<br> |
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| − | [[Image: | + | [[Image:L21_s023.jpg|frame|none|Lecture 21, Slide 023<br> |
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| − | [[Image: | + | [[Image:L21_s024.jpg|frame|none|Lecture 21, Slide 024<br> |
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| − | [[Image: | + | [[Image:L21_s025.jpg|frame|none|Lecture 21, Slide 025<br> |
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| − | [[Image: | + | [[Image:L21_s026.jpg|frame|none|Lecture 21, Slide 026<br> |
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| − | [[Image: | + | [[Image:L21_s027.jpg|frame|none|Lecture 21, Slide 027<br> |
(From J. Quackenbush) Bulk of genes lie on zero-line but there is evidence of differential expression | (From J. Quackenbush) Bulk of genes lie on zero-line but there is evidence of differential expression | ||
]] | ]] | ||
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| − | [[Image: | + | [[Image:L21_s028.jpg|frame|none|Lecture 21, Slide 028<br> |
]] | ]] | ||
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| − | [[Image: | + | [[Image:L21_s029.jpg|frame|none|Lecture 21, Slide 029<br> |
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| − | [[Image: | + | [[Image:L21_s030.jpg|frame|none|Lecture 21, Slide 030<br> |
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| − | [[Image: | + | [[Image:L21_s031.jpg|frame|none|Lecture 21, Slide 031<br> |
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| − | [[Image: | + | [[Image:L21_s032.jpg|frame|none|Lecture 21, Slide 032<br> |
Variance stabilization is available e.g. within the MIDAS package. | Variance stabilization is available e.g. within the MIDAS package. | ||
]] | ]] | ||
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| − | [[Image: | + | [[Image:L21_s033.jpg|frame|none|Lecture 21, Slide 033<br> |
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| − | [[Image: | + | [[Image:L21_s034.jpg|frame|none|Lecture 21, Slide 034<br> |
Synonymous: Expression profile | Synonymous: Expression profile | ||
]] | ]] | ||
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| − | [[Image: | + | [[Image:L21_s035.jpg|frame|none|Lecture 21, Slide 035<br> |
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| − | [[Image: | + | [[Image:L21_s036.jpg|frame|none|Lecture 21, Slide 036<br> |
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| − | [[Image: | + | [[Image:L21_s038.jpg|frame|none|Lecture 21, Slide 038<br> |
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| − | [[Image: | + | [[Image:L21_s039.jpg|frame|none|Lecture 21, Slide 039<br> |
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| − | [[Image: | + | [[Image:L21_s041.jpg|frame|none|Lecture 21, Slide 041<br> |
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| − | [[Image: | + | [[Image:L21_s043.jpg|frame|none|Lecture 21, Slide 043<br> |
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| − | [[Image: | + | [[Image:L21_s044.jpg|frame|none|Lecture 21, Slide 044<br> |
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| − | [[Image: | + | [[Image:L21_s045.jpg|frame|none|Lecture 21, Slide 045<br> |
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| − | [[Image: | + | [[Image:L21_s047.jpg|frame|none|Lecture 21, Slide 047<br> |
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| − | [[Image: | + | [[Image:L21_s048.jpg|frame|none|Lecture 21, Slide 048<br> |
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| − | [[Image: | + | [[Image:L21_s049.jpg|frame|none|Lecture 21, Slide 049<br> |
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| − | [[Image: | + | [[Image:L21_s050.jpg|frame|none|Lecture 21, Slide 050<br> |
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| − | [[Image: | + | [[Image:L21_s051.jpg|frame|none|Lecture 21, Slide 051<br> |
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Revision as of 19:59, 6 December 2006
(Previous lecture) ... (Next lecture)
Microarray Analysis
...
Add:
- Summary points
- Exercises
- Further reading
(Some of the slides in this lecture are based on material delivered by John Quackenbush at the February 2006 CBW workshop in Toronto.)
Lecture Slides
Slide 001
Lecture 21, Slide 001
Slide 002
Lecture 21, Slide 002
Slide 003
Lecture 21, Slide 003
Slide 004
Lecture 21, Slide 004
Slide 005
Lecture 21, Slide 005
Slide 006
Lecture 21, Slide 006
Slide 007
Lecture 21, Slide 007
Slide 008
Lecture 21, Slide 008
Rogojina et al. (2003) Use of Affymetrix to spotted oligonucleotide microarrays using two retinal epithelial cell lines. Molecular Vision 9:482-96
Rogojina et al. (2003) Use of Affymetrix to spotted oligonucleotide microarrays using two retinal epithelial cell lines. Molecular Vision 9:482-96
Slide 009
Lecture 21, Slide 009
Slide 010
Lecture 21, Slide 010
Slide 011
Lecture 21, Slide 011
Slide 012
Lecture 21, Slide 012
Slide 013
Lecture 21, Slide 013
Slide 014
Lecture 21, Slide 014
Slide 015
Lecture 21, Slide 015
Slide 016
Lecture 21, Slide 016
Writeup in Pertea et al. (2003) Bioinformatics 19:651-652
Writeup in Pertea et al. (2003) Bioinformatics 19:651-652
Slide 017
Lecture 21, Slide 017
Slide 018
Lecture 21, Slide 018
Slide 019
Lecture 21, Slide 019
Slide 020
Lecture 21, Slide 020
Slide 021
Lecture 21, Slide 021
Slide 022
Lecture 21, Slide 022
Slide 023
Lecture 21, Slide 023
Slide 024
Lecture 21, Slide 024
Slide 025
Lecture 21, Slide 025
Slide 026
Lecture 21, Slide 026
Slide 027
Lecture 21, Slide 027
(From J. Quackenbush) Bulk of genes lie on zero-line but there is evidence of differential expression
(From J. Quackenbush) Bulk of genes lie on zero-line but there is evidence of differential expression
Slide 028
Lecture 21, Slide 028
Slide 029
Lecture 21, Slide 029
Slide 030
Lecture 21, Slide 030
Slide 031
Lecture 21, Slide 031
Slide 032
Lecture 21, Slide 032
Variance stabilization is available e.g. within the MIDAS package.
Variance stabilization is available e.g. within the MIDAS package.
Slide 033
Lecture 21, Slide 033
Slide 034
Lecture 21, Slide 034
Synonymous: Expression profile
Synonymous: Expression profile
Slide 035
Lecture 21, Slide 035
Slide 036
Lecture 21, Slide 036
Slide 037
Lecture 21, Slide 037
Slide 038
Lecture 21, Slide 038
Slide 039
Lecture 21, Slide 039
Slide 040
Lecture 21, Slide 040
Slide 041
Lecture 21, Slide 041
Slide 042
Lecture 21, Slide 042
Slide 043
Lecture 21, Slide 043
Slide 044
Lecture 21, Slide 044
Slide 045
Lecture 21, Slide 045
Slide 046
Lecture 21, Slide 046
Slide 047
Lecture 21, Slide 047
Slide 048
Lecture 21, Slide 048
Slide 049
Lecture 21, Slide 049
Slide 050
Lecture 21, Slide 050
Slide 051
Lecture 21, Slide 051
