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Notes DNA Computing

The document describes several molecular processes: 1) A program that uses input states to control molecular reactions through different pathways. 2) The FokI restriction enzyme cleaving an inactive ssDNA diagnostic molecule, releasing an active ssDNA drug. 3) Two mechanisms of toehold-mediated strand displacement reactions: a) toehold mediated strand displacement and b) toehold exchange.

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Shaheer
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47 views26 pages

Notes DNA Computing

The document describes several molecular processes: 1) A program that uses input states to control molecular reactions through different pathways. 2) The FokI restriction enzyme cleaving an inactive ssDNA diagnostic molecule, releasing an active ssDNA drug. 3) Two mechanisms of toehold-mediated strand displacement reactions: a) toehold mediated strand displacement and b) toehold exchange.

Uploaded by

Shaheer
Copyright
© © All Rights Reserved
We take content rights seriously. If you suspect this is your content, claim it here.
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Download as PDF, TXT or read online on Scribd
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Input Program state’i statei state’j statej

a)
stop
statei
Current
Spacer
state
state=state'
j i statei state’j statej
b)
statej statei
spacer

state’i statei state’j statej


c)
stop stop
statej spacer
Fok I restriction Inactive ssDNA drug
enzyme Diagnostic molecule

+ +
mRNA input

cleave

Output: active ssDNA


cleave drug released
(a) Toehold mediated strand (b) Toehold exchange
displacement

Β Βm Βm
Β Cn Βm Cn
¬Β ¬C
+ ¬B ¬C
+

kf kr(Cn)
kf kr(Cn)

k{0,m} k{m,n} k{n,m}


kb kb
kb kb

kr(Bm) kf
Β C Βm Cn
Β Βm Βm
+ ¬Β ¬C
+ ¬B ¬C
P = “symthom1”
P → Q
FokI + +

cleavage

FokI
cleavage

Aux
+
unfolded loop

output

Q =“diseaseA”

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