Biomod/2013/Aarhus/Supplementary/Supplementary Data

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(Photosensitizer)
(Supplementary data)
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[[image:origami 3.png|center|frame|Table S1. Details of the different modules of the plate.]]
[[image:origami 3.png|center|frame|Table S1. Details of the different modules of the plate.]]
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[[image:origami 7.png|center|frame|Table S2. Details of the dome structure.]]
[[image:origami 7.png|center|frame|Table S2. Details of the dome structure.]]
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[[image:origami 8.png|center|frame|Table S3.Details of the different dome modules.]]
[[image:origami 8.png|center|frame|Table S3.Details of the different dome modules.]]
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[[Biomod/2013/Aarhus/Supplementary/Supplementary_Informations#Staple_strands_for_the_dome|Figure and staple strand sequences for the dome]] see supplementary information.
[[Biomod/2013/Aarhus/Supplementary/Supplementary_Informations#Staple_strands_for_the_dome|Figure and staple strand sequences for the dome]] see supplementary information.
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[[image:table sisi 1.png|center|frame|Table S4: Yields of RP-HPLC purifications of the 12 modified strands.]]
[[image:table sisi 1.png|center|frame|Table S4: Yields of RP-HPLC purifications of the 12 modified strands.]]
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====Estimated yields of the annealing reactions====
====Estimated yields of the annealing reactions====
[[image:table sisi 2.png|center|frame|Table S5. Estimated yields of the annealing reactions.]]
[[image:table sisi 2.png|center|frame|Table S5. Estimated yields of the annealing reactions.]]
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====Luciferase knockdown with all singly modified duplexes====
====Luciferase knockdown with all singly modified duplexes====
[[image:sisi sup 3.png|thumb|900px|Fig. S1. Cell viability corrected luciferase activities for all singly modified duplexes, transfected with Lipofectamine. Click on the image and choose 'high resolution' for details.]]
[[image:sisi sup 3.png|thumb|900px|Fig. S1. Cell viability corrected luciferase activities for all singly modified duplexes, transfected with Lipofectamine. Click on the image and choose 'high resolution' for details.]]
[[image:sisi supp 4.png|center|frame|Table S6. Best fit IC50 values of all knockdown experiments using singly modified duplexes using Lipofectamine.The IC50 value for W179-PEG1K was calculated with a low R2 value and is not conclusive.]]
[[image:sisi supp 4.png|center|frame|Table S6. Best fit IC50 values of all knockdown experiments using singly modified duplexes using Lipofectamine.The IC50 value for W179-PEG1K was calculated with a low R2 value and is not conclusive.]]
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[[image:sisi supp 5.png|thumb|900px|Fig. S2. Luciferase and MTT measurements of all knockdown experiments with singly modified duplexes using Lipofectamine.]]
[[image:sisi supp 5.png|thumb|900px|Fig. S2. Luciferase and MTT measurements of all knockdown experiments with singly modified duplexes using Lipofectamine.]]
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[[image:sys sisi 1.png|center|frame|Fig. S3. 1) 25 bp DNA ladder, 2) 6 µL labeled W376, 3) 1 pmol W376, 4) 1.5 pmol W376, 5) pmol W376, 6) 2.5 pmol W376,  7) pmol W376.]]
[[image:sys sisi 1.png|center|frame|Fig. S3. 1) 25 bp DNA ladder, 2) 6 µL labeled W376, 3) 1 pmol W376, 4) 1.5 pmol W376, 5) pmol W376, 6) 2.5 pmol W376,  7) pmol W376.]]
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The band containing the labeled sample appears most similar to that in lane 4 which means that the 6 µL that were run on the gel contained  1.5 pmol W376, corresponding to a concentration of 0.25 µM in the purified sample.
The band containing the labeled sample appears most similar to that in lane 4 which means that the 6 µL that were run on the gel contained  1.5 pmol W376, corresponding to a concentration of 0.25 µM in the purified sample.
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<html><A name="NMR4H"/></html>  
<html><A name="NMR4H"/></html>  
[[Image:Biomod_Aarhus_Chem_NMR_4H.png|900x900px|Center|thumb|<sup>1</sup>H NMR 0f compound 4]]
[[Image:Biomod_Aarhus_Chem_NMR_4H.png|900x900px|Center|thumb|<sup>1</sup>H NMR 0f compound 4]]
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<html><br style="clear:both;"/></html>
<html><A name="NMR4C"/></html>  
<html><A name="NMR4C"/></html>  
[[Image:Biomod_Aarhus_Chem_NMR_4C1.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 4]]
[[Image:Biomod_Aarhus_Chem_NMR_4C1.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 4]]
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[[Image:Biomod_Aarhus_Chem_NMR_4C2.png|900x900px|Center|thumb|Zoom of <sup>13</sup>C NMR of compound 4]]
[[Image:Biomod_Aarhus_Chem_NMR_4C2.png|900x900px|Center|thumb|Zoom of <sup>13</sup>C NMR of compound 4]]
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<html><A name="IR4"/></html>  
<html><A name="IR4"/></html>  
[[Image:Biomod_Aarhus_Chem_IR4.png|900x900px|Center|thumb|IR of compound 4]]
[[Image:Biomod_Aarhus_Chem_IR4.png|900x900px|Center|thumb|IR of compound 4]]
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'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and IR of compound 5.'''
'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and IR of compound 5.'''
<html><A name="NMR5H"/></html>  
<html><A name="NMR5H"/></html>  
[[Image:Biomod_Aarhus_Chem_NMR_5H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 5]]
[[Image:Biomod_Aarhus_Chem_NMR_5H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 5]]
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<html><br style="clear:both;"/></html>
<html><A name="NMR5C"/></html>  
<html><A name="NMR5C"/></html>  
[[Image:Biomod_Aarhus_Chem_NMR_5C1.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 5]]
[[Image:Biomod_Aarhus_Chem_NMR_5C1.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 5]]
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<html><br style="clear:both;"/></html>
[[Image:Biomod_Aarhus_Chem_NMR_5C2.png|900x900px|Center|thumb|Zoom of <sup>13</sup>C NMR of compound 5]]
[[Image:Biomod_Aarhus_Chem_NMR_5C2.png|900x900px|Center|thumb|Zoom of <sup>13</sup>C NMR of compound 5]]
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<html><A name="IR5"/></html>  
<html><A name="IR5"/></html>  
[[Image:Biomod_Aarhus_Chem_IR5.png|900x900px|Center|thumb|IR of compound 5]]
[[Image:Biomod_Aarhus_Chem_IR5.png|900x900px|Center|thumb|IR of compound 5]]
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'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 6.'''
'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 6.'''
<html><A name="NMR6H"/></html>  
<html><A name="NMR6H"/></html>  
[[Image:Biomod_Aarhus_Chem_NMR_6H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 6]]
[[Image:Biomod_Aarhus_Chem_NMR_6H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 6]]
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<html><A name="NMR6C"/></html>  
<html><A name="NMR6C"/></html>  
[[Image:Biomod_Aarhus_Chem_NMR_6C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 6]]
[[Image:Biomod_Aarhus_Chem_NMR_6C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 6]]
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[[Image:Biomod_Aarhus_Chem_NMR_6C2.png|900x900px|Center|thumb|Zoom of <sup>13</sup>C NMR of compound 6]]
[[Image:Biomod_Aarhus_Chem_NMR_6C2.png|900x900px|Center|thumb|Zoom of <sup>13</sup>C NMR of compound 6]]
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===Photosensitizer===
 
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<html><br style="clear:both;"/></html>
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===Photosensitizer===
'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 7.'''
'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 7.'''
<html><A name="NMR7H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_7H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''7''']]
<html><A name="NMR7H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_7H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''7''']]
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<html><br style="clear:both;"/></html>
<html><A name="NMR7C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_7C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''7''']]
<html><A name="NMR7C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_7C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''7''']]
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<html><br style="clear:both;"/></html>
'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 8.'''
'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 8.'''
<html><A name="NMR8H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_8H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''8''']]
<html><A name="NMR8H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_8H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''8''']]
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<html><br style="clear:both;"/></html>
<html><A name="NMR8C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_8C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''8''']]
<html><A name="NMR8C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_8C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''8''']]
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<html><br style="clear:both;"/></html>
'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and UV of compound 9.'''
'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and UV of compound 9.'''
<html><A name="NMR9H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_9H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''9''']]
<html><A name="NMR9H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_9H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''9''']]
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<html><br style="clear:both;"/></html>
<html><A name="NMR9C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_9C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''9''']]
<html><A name="NMR9C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_9C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''9''']]
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<html><br style="clear:both;"/></html>
<html><A name="9UV"/></html> [[Image:Biomod_Aarhus_Chem_10UV.png|900x900px|Center|UV of compound '''9''']]
<html><A name="9UV"/></html> [[Image:Biomod_Aarhus_Chem_10UV.png|900x900px|Center|UV of compound '''9''']]
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<html><br style="clear:both;"/></html>
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<html><A name="NMR10H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_10H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''10''']]
<html><A name="NMR10H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_10H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''10''']]
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<html><br style="clear:both;"/></html>
<html><A name="NMR10C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_10C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''10''']]
<html><A name="NMR10C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_10C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''10''']]
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<html><br style="clear:both;"/></html>
<html><A name="10UV"/></html> [[Image:Biomod_Aarhus_Chem_11UV.png|900x900px|Center|UV of compound '''10''']]
<html><A name="10UV"/></html> [[Image:Biomod_Aarhus_Chem_11UV.png|900x900px|Center|UV of compound '''10''']]
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'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 11.'''
'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 11.'''
<html><A name="NMR11H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_11H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''11''']]
<html><A name="NMR11H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_11H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''11''']]
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<html><br style="clear:both;"/></html>
<html><A name="NMR11C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_11C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''11''']]
<html><A name="NMR11C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_11C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''11''']]
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<html><br style="clear:both;"/></html>
'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 12.'''
'''<sup>1</sup>H NMR and <sup>13</sup>C NMR of compound 12.'''
<html><A name="NMR12H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_12H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''12''']]
<html><A name="NMR12H"/></html> [[Image:Biomod_Aarhus_Chem_NMR_12H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound '''12''']]
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<html><br style="clear:both;"/></html>
<html><A name="NMR12C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_12C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''12''']]
<html><A name="NMR12C"/></html> [[Image:Biomod_Aarhus_Chem_NMR_12C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound '''12''']]
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<html><br style="clear:both;"/></html>
===5-propargylamino-ddUTP===
===5-propargylamino-ddUTP===
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<html><A name="NMR15H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_15H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 15]]
<html><A name="NMR15H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_15H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 15]]
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<html><br style="clear:both;"/></html>
[[Image:Biomod_Aarhus_Chem_NMR_15H2.png|900x900px|Center|thumb|zoom of <sup>1</sup>H NMR of compound 15]]
[[Image:Biomod_Aarhus_Chem_NMR_15H2.png|900x900px|Center|thumb|zoom of <sup>1</sup>H NMR of compound 15]]
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<html><br style="clear:both;"/></html>
<html><A name="NMR15C"/></html>[[Image:Biomod_Aarhus_Chem_NMR_15C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 15]]
<html><A name="NMR15C"/></html>[[Image:Biomod_Aarhus_Chem_NMR_15C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 15]]
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<html><br style="clear:both;"/></html>
<html><A name="IR15"/></html>[[Image:Biomod_Aarhus_Chem_IR15.png|900x900px|Center|thumb|IR of compound 15]]
<html><A name="IR15"/></html>[[Image:Biomod_Aarhus_Chem_IR15.png|900x900px|Center|thumb|IR of compound 15]]
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<html><br style="clear:both;"/></html>
'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and IR of compound 16.'''
'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and IR of compound 16.'''
<html><A name="NMR16H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_16H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 16]]
<html><A name="NMR16H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_16H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 16]]
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<html><br style="clear:both;"/></html>
[[Image:Biomod_Aarhus_Chem_NMR_16H2.png|900x900px|Center|thumb|zoom of <sup>1</sup>H NMR of compound 16]]
[[Image:Biomod_Aarhus_Chem_NMR_16H2.png|900x900px|Center|thumb|zoom of <sup>1</sup>H NMR of compound 16]]
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<html><br style="clear:both;"/></html>
<html><A name="NMR16C"/></html>[[Image:Biomod_Aarhus_Chem_NMR_16C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 16]]
<html><A name="NMR16C"/></html>[[Image:Biomod_Aarhus_Chem_NMR_16C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 16]]
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<html><br style="clear:both;"/></html>
<html><A name="IR16"/></html>[[Image:Biomod_Aarhus_Chem_IR16.png|900x900px|Center|thumb|IR of compound 16]]
<html><A name="IR16"/></html>[[Image:Biomod_Aarhus_Chem_IR16.png|900x900px|Center|thumb|IR of compound 16]]
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'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and IR of compound 17.'''
'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and IR of compound 17.'''
<html><A name="NMR17H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_17H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 17]]
<html><A name="NMR17H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_17H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 17]]
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<html><br style="clear:both;"/></html>
[[Image:Biomod_Aarhus_Chem_NMR_17H2.png|900x900px|Center|thumb|zoom of <sup>1</sup>H NMR of compound 17]]
[[Image:Biomod_Aarhus_Chem_NMR_17H2.png|900x900px|Center|thumb|zoom of <sup>1</sup>H NMR of compound 17]]
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<html><br style="clear:both;"/></html>
<html><A name="NMR17C"/></html>[[Image:Biomod_Aarhus_Chem_NMR_17C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 17]]
<html><A name="NMR17C"/></html>[[Image:Biomod_Aarhus_Chem_NMR_17C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 17]]
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<html><br style="clear:both;"/></html>
<html><A name="IR17"/></html>[[Image:Biomod_Aarhus_Chem_IR17.png|900x900px|Center|thumb|IR of compound 17]]
<html><A name="IR17"/></html>[[Image:Biomod_Aarhus_Chem_IR17.png|900x900px|Center|thumb|IR of compound 17]]
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<html><br style="clear:both;"/></html>
'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and IR of compound 18.'''
'''<sup>1</sup>H NMR, <sup>13</sup>C NMR and IR of compound 18.'''
<html><A name="NMR18H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_18H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 18]]
<html><A name="NMR18H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_18H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 18]]
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<html><br style="clear:both;"/></html>
[[Image:Biomod_Aarhus_Chem_NMR_18H2.png|900x900px|Center|thumb|zoom of <sup>1</sup>H NMR of compound 18]]
[[Image:Biomod_Aarhus_Chem_NMR_18H2.png|900x900px|Center|thumb|zoom of <sup>1</sup>H NMR of compound 18]]
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<html><br style="clear:both;"/></html>
<html><A name="NMR18C"/></html>[[Image:Biomod_Aarhus_Chem_NMR_18C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 18]]
<html><A name="NMR18C"/></html>[[Image:Biomod_Aarhus_Chem_NMR_18C.png|900x900px|Center|thumb|<sup>13</sup>C NMR of compound 18]]
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<html><br style="clear:both;"/></html>
<html><A name="IR18"/></html>[[Image:Biomod_Aarhus_Chem_IR18.png|900x900px|Center|thumb|IR of compound 18]]
<html><A name="IR18"/></html>[[Image:Biomod_Aarhus_Chem_IR18.png|900x900px|Center|thumb|IR of compound 18]]
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<html><br style="clear:both;"/></html>
'''<sup>1</sup>H NMR and <sup>19</sup>F NMR of compound 19.'''
'''<sup>1</sup>H NMR and <sup>19</sup>F NMR of compound 19.'''
<html><A name="NMR19H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_19H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 19]]
<html><A name="NMR19H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_19H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 19]]
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<html><br style="clear:both;"/></html>
<html><A name="NMR19F"/></html>[[Image:Biomod_Aarhus_Chem_NMR_19F.png|900x900px|Center|thumb|<sup>19</sup>F NMR of compound 19]]
<html><A name="NMR19F"/></html>[[Image:Biomod_Aarhus_Chem_NMR_19F.png|900x900px|Center|thumb|<sup>19</sup>F NMR of compound 19]]
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<html><br style="clear:both;"/></html>
'''<sup>1</sup>H NMR and <sup>19</sup>F NMR of compound 21.'''
'''<sup>1</sup>H NMR and <sup>19</sup>F NMR of compound 21.'''
<html><A name="NMR21H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_21H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 21]]
<html><A name="NMR21H"/></html>[[Image:Biomod_Aarhus_Chem_NMR_21H.png|900x900px|Center|thumb|<sup>1</sup>H NMR of compound 21]]
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<html><br style="clear:both;"/></html>
<html><A name="NMR21F"/></html>[[Image:Biomod_Aarhus_Chem_NMR_21F.png|900x900px|Center|thumb|<sup>19</sup>F NMR of compound 21]]
<html><A name="NMR21F"/></html>[[Image:Biomod_Aarhus_Chem_NMR_21F.png|900x900px|Center|thumb|<sup>19</sup>F NMR of compound 21]]
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<html><br style="clear:both;"/></html>
===Peptide lock===
===Peptide lock===
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<sup>1</sup>H NMR
<sup>1</sup>H NMR
[[Image:Exp4HNMRfinishedforrealz.png|center|thumb|900x900px|<sup>1</sup>H NMR of (S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid]]
[[Image:Exp4HNMRfinishedforrealz.png|center|thumb|900x900px|<sup>1</sup>H NMR of (S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid]]
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<html><br style="clear:both;"/></html>
<sup>13</sup>C NMR
<sup>13</sup>C NMR
[[Image:Exp4CNMRfinishedforrealz.png|center|thumb|900x900px|<sup>13</sup>C NMR of (S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid]]
[[Image:Exp4CNMRfinishedforrealz.png|center|thumb|900x900px|<sup>13</sup>C NMR of (S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid]]
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<html><br style="clear:both;"/></html>

Revision as of 11:02, 25 October 2013

[edit menu

Contents

Supplementary data

Origami design

Table S1. Details of the different modules of the plate.
Table S1. Details of the different modules of the plate.



Staple strand sequences for the plate see supplementary information.


Table S2. Details of the dome structure.
Table S2. Details of the dome structure.


Table S3.Details of the different dome modules.
Table S3.Details of the different dome modules.


Figure and staple strand sequences for the dome see supplementary information.

sisiRNA

Yields of RP-HPLC purifications of the modified strands

Table S4: Yields of RP-HPLC purifications of the 12 modified strands.
Table S4: Yields of RP-HPLC purifications of the 12 modified strands.


Estimated yields of the annealing reactions

Table S5. Estimated yields of the annealing reactions.
Table S5. Estimated yields of the annealing reactions.


Luciferase knockdown with all singly modified duplexes

Fig. S1. Cell viability corrected luciferase activities for all singly modified duplexes, transfected with Lipofectamine. Click on the image and choose 'high resolution' for details.
Fig. S1. Cell viability corrected luciferase activities for all singly modified duplexes, transfected with Lipofectamine. Click on the image and choose 'high resolution' for details.
Table S6. Best fit IC50 values of all knockdown experiments using singly modified duplexes using Lipofectamine.The IC50 value for W179-PEG1K was calculated with a low R2 value and is not conclusive.
Table S6. Best fit IC50 values of all knockdown experiments using singly modified duplexes using Lipofectamine.The IC50 value for W179-PEG1K was calculated with a low R2 value and is not conclusive.


Fig. S2. Luciferase and MTT measurements of all knockdown experiments with singly modified duplexes using Lipofectamine.
Fig. S2. Luciferase and MTT measurements of all knockdown experiments with singly modified duplexes using Lipofectamine.

System in action

Radioactive labeling of W376

Fig. S3. 1) 25 bp DNA ladder, 2) 6 µL labeled W376, 3) 1 pmol W376, 4) 1.5 pmol W376, 5) pmol W376, 6) 2.5 pmol W376,  7) pmol W376.
Fig. S3. 1) 25 bp DNA ladder, 2) 6 µL labeled W376, 3) 1 pmol W376, 4) 1.5 pmol W376, 5) pmol W376, 6) 2.5 pmol W376, 7) pmol W376.


The band containing the labeled sample appears most similar to that in lane 4 which means that the 6 µL that were run on the gel contained 1.5 pmol W376, corresponding to a concentration of 0.25 µM in the purified sample.

Cholesterol

1H NMR, 13C NMR and IR of compound 4.

1H NMR 0f compound 4
1H NMR 0f compound 4


13C NMR of compound 4
13C NMR of compound 4


Zoom of 13C NMR of compound 4
Zoom of 13C NMR of compound 4


IR of compound 4
IR of compound 4


1H NMR, 13C NMR and IR of compound 5.

1H NMR of compound 5
1H NMR of compound 5


13C NMR of compound 5
13C NMR of compound 5


Zoom of 13C NMR of compound 5
Zoom of 13C NMR of compound 5


IR of compound 5
IR of compound 5


1H NMR and 13C NMR of compound 6.

1H NMR of compound 6
1H NMR of compound 6


13C NMR of compound 6
13C NMR of compound 6


Zoom of 13C NMR of compound 6
Zoom of 13C NMR of compound 6


Photosensitizer

1H NMR and 13C NMR of compound 7.

1H NMR of compound 7
1H NMR of compound 7


13C NMR of compound 7
13C NMR of compound 7


1H NMR and 13C NMR of compound 8.

1H NMR of compound 8
1H NMR of compound 8


13C NMR of compound 8
13C NMR of compound 8


1H NMR, 13C NMR and UV of compound 9.

1H NMR of compound 9
1H NMR of compound 9


13C NMR of compound 9
13C NMR of compound 9


UV of compound 9


1H NMR, 13C NMR and UV of compound 10.

1H NMR of compound 10
1H NMR of compound 10


13C NMR of compound 10
13C NMR of compound 10


UV of compound 10

1H NMR and 13C NMR of compound 11.

1H NMR of compound 11
1H NMR of compound 11


13C NMR of compound 11
13C NMR of compound 11


1H NMR and 13C NMR of compound 12.

1H NMR of compound 12
1H NMR of compound 12


13C NMR of compound 12
13C NMR of compound 12


5-propargylamino-ddUTP

1H NMR, 13C NMR and IR of compound 15.

1H NMR of compound 15
1H NMR of compound 15


zoom of 1H NMR of compound 15
zoom of 1H NMR of compound 15


13C NMR of compound 15
13C NMR of compound 15


IR of compound 15
IR of compound 15


1H NMR, 13C NMR and IR of compound 16.

1H NMR of compound 16
1H NMR of compound 16


zoom of 1H NMR of compound 16
zoom of 1H NMR of compound 16


13C NMR of compound 16
13C NMR of compound 16


IR of compound 16
IR of compound 16


1H NMR, 13C NMR and IR of compound 17.

1H NMR of compound 17
1H NMR of compound 17


zoom of 1H NMR of compound 17
zoom of 1H NMR of compound 17


13C NMR of compound 17
13C NMR of compound 17


IR of compound 17
IR of compound 17


1H NMR, 13C NMR and IR of compound 18.

1H NMR of compound 18
1H NMR of compound 18


zoom of 1H NMR of compound 18
zoom of 1H NMR of compound 18


13C NMR of compound 18
13C NMR of compound 18


IR of compound 18
IR of compound 18


1H NMR and 19F NMR of compound 19.

1H NMR of compound 19
1H NMR of compound 19


19F NMR of compound 19
19F NMR of compound 19


1H NMR and 19F NMR of compound 21.

1H NMR of compound 21
1H NMR of compound 21


19F NMR of compound 21
19F NMR of compound 21


Peptide lock

Spectra

(S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid

1H NMR

1H NMR of (S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid
1H NMR of (S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid


13C NMR

13C NMR of (S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid
13C NMR of (S)-2-((tert-butoxycarbonyl)amino)-5-methoxy-5-oxopentanoic acid





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