Difference between revisions of "Part:BBa K1431403:Design"

Latest revision as of 03:47, 18 October 2014

gRNA2 for HBV

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

Designing the Sequence

We used a method derived from the method described in the paper by Feng Zhang^{[http://www.nature.com/nbt/journal/v31/n9/abs/nbt.2647.html ZhangFgRNA]}.

The whole process can be divided into the following steps:

Conserved Sequence Analysis

We first extracted all conserved regions from the NIH HIV-1 Reference Genome. In this step, we found around 10 alternatives for the next process. Here all screening processes are done in a per-strain basis because of the high mutability of the HIV-1 virus.

@@ Line 1: / Line 1: @@
 __NOTOC__
 <partinfo>BBa_K1431403 short</partinfo>
 <partinfo>BBa_K1431403 SequenceAndFeatures</partinfo>
+=== Designing the Sequence ===
+We used a method derived from the method described in the paper by Feng Zhang<sup>[http://www.nature.com/nbt/journal/v31/n9/abs/nbt.2647.html ZhangFgRNA]</sup>.
+The whole process can be divided into the following steps:
+==== Conserved Sequence Analysis ====
+We first extracted all conserved regions from the NIH HIV-1 Reference Genome. In this step, we found around 10 alternatives for the next process. Here all screening processes are done in a per-strain basis because of the high mutability of the HIV-1 virus.
+==== Strip out sequences without PAM ====
+====Select gRNA sequences with the best theoretical quality====
-===Design Notes===
-we will complete this part later
@@ Line 13: / Line 26: @@
 ===Source===
-we will complete this part later
+AB010289-AB078031 in HBV_aligned Database
 ===References===