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lecture_notes:03-30-2011 [2011/03/30 23:31] eyliaw |
lecture_notes:03-30-2011 [2011/04/01 03:45] svohr [Pac Bio] |
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* Pyrosequencing | * Pyrosequencing | ||
* Q ~20 | * Q ~20 | ||
- | * $5000/run/~1m reads, no downscaling (numbers approximate). | + | * $5000/run/1M reads, no downscaling (numbers approximate). |
==== SoLiD ==== | ==== SoLiD ==== | ||
* 2x25bp or 1x50bp reads | * 2x25bp or 1x50bp reads | ||
* Paired end reads: ligation with adapter, cleaves 25bp from adapter using restriction enzyme. | * Paired end reads: ligation with adapter, cleaves 25bp from adapter using restriction enzyme. | ||
* Potential for double ligation: two unrelated sequences ligating. | * Potential for double ligation: two unrelated sequences ligating. | ||
- | * $2000/run/100m reads (numbers approximate). | + | * $2000/run/100M reads (numbers approximate). |
==== Illumina ==== | ==== Illumina ==== | ||
+ | * 2x50, 2x100bps ? | ||
+ | * Paired end reads | ||
+ | * Potential errors: innies (ligated region not between sequenced regions) or chimeric (sequence passes ligated region) | ||
+ | * Cheaper than SoLiD, 10K Genomes project uses it. | ||
==== Ion Torrent ==== | ==== Ion Torrent ==== | ||
==== Pac Bio ==== | ==== Pac Bio ==== | ||
+ | * Very long, single molecule reads (~10K) | ||
+ | * High error rates (~5%) | ||
+ | * Useful when mapping to a reference. | ||
===== References ===== | ===== References ===== | ||
<refnotes>notes-separator: none</refnotes> | <refnotes>notes-separator: none</refnotes> | ||
~~REFNOTES cite~~ | ~~REFNOTES cite~~ |