Team:Freiburg Bioware/Filelist

From 2010.igem.org

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</html>
</html>
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<h2>Modeling</h2>
 
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[[Media:Freiburg10_VirusProduction01.png]]
 
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[[Media:Freiburg10_VirusProduction02.png]]
+
Finally we successfully  combined different modifactions of the therapeutic viral vector for optimizing it for tumore therapy application.
 +
These modifications include the knock down of the natural tropism for HSPG receptor, the tumor targeting using the affibody ZEGFR1907 fused to the N-terminus of the viral coat protein VP2 and an encapsidated vectorgenome that was bricked down and reassembled containing the prodrug converting Guanosine Monophosphate Kinase Thymidine Kinase fusion protein (mGMK-TK).
-
[[Media:Freiburg10_VirusProduction03.png]]
 
-
[[Media:Freiburg10_VirusInfection01.png]]
 
-
[[Media:Freiburg10_VirusInfection02.png]]
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<h2>AAAAAH</h2>
 +
[[Media:Freiburg10_Organisation_cap_proteins.png]]
 +
[[Media:Freiburg10 Organisation rep proteins.png]]
-
[[Media:Freiburg10_VirusInfection03.png]]
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[[Media:Freiburg10_Freiburg10_amidosulfated_disacharid.png]]
 +
[[Media:Freiburg10 Organisation rep proteins.png]]
-
[[Media:Freiburg10 VirusInfectionScheme01.png]]
 
-
[[Media:Freiburg10 VirusProductionScheme01.png]]
+
<h2>eGFP</h2>
 +
[[Media:Freiburg10_eGFP.png]]
 +
[[Media:Freiburg10_CD.png]]
 +
[[Media:Freiburg10_pathway_CD.png]]
 +
[[Media:Freiburg10_CFP_spectrum]]
 +
[[Media:Freiburg10_CFP_fluorophor]]
 +
[[Media:Freiburg10_CFP_architecture]]
-
[[Media:Freiburg10_VirusProductionData01.png]]
 
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[[Media:Freiburg10 VirusInfectionScheme01.png]]
 
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[[Image:Freiburg10_VirusProductionTimeLapsemVenus.gif | 600px]]
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[[Media:Freiburg10_Loopover1.jpeg]]
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[[Media:Freiburg10_VirusProductionTimeLapsemVenus.png]]
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[[Media:Freiburg10_Loopover2.jpeg]]
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[[Media:Freiburg10_VirusProductionTimeLapsemCherry.gif]]
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<h2>Time lapse</h2>
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[[Media:Freiburg10_VirusProductionTimeLapsemCherry.png]]
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[[Media:Freiburg10_production_Venus_mCherry_Brightfield.mov]]
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[[Media:Freiburg10_VirusInfectionLogo.png]]
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[[Media:Freiburg10_TimeLapse_HT10180_TK_GMK_400px.gif]]
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[[Media:Freiburg10_VirusProductionLogo.png]]
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[[Media:Freiburg10_TimeLapse_A431_TK_GMK_400px.gif]]
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[[Media:Freiburg10_StructureModelingLogo.png]]
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[[Media:Freiburg10_TimeLapse_AAV-293_mVenus+GOI_mCherry_390px.gif]]
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[[Media:Freiburg10_production_Venus_mCherry_Brightfield.mov]]
+
[[Media:Freiburg10_TimeLapse_AAV-293_mVenus+GOI_mCherry_400px.gif]]
 +
 
 +
 
 +
<h2>Structure Modeling</h2>
[[Media:Freiburg10_rot250trans.gif]]
[[Media:Freiburg10_rot250trans.gif]]
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[[Media:Freiburg10_AAVassem500-100.mov]]
[[Media:Freiburg10_AAVassem500-100.mov]]
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[[Media:Freiburg10_TimeLapse_HT10180_TK_GMK_400px.gif]]
 
-
 
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[[Media:Freiburg10_TimeLapse_A431_TK_GMK_400px.gif]]
 
[[Media:Freiburg10_AAV_complete.jpg]]
[[Media:Freiburg10_AAV_complete.jpg]]
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[[Media:Freiburg10_PleaseWait.gif]]
[[Media:Freiburg10_PleaseWait.gif]]
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[[Media:Freiburg10_TimeLapse_AAV-293_mVenus+GOI_mCherry_390px.gif]]
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[[Media:Freiburg10_AAV_assembly_600px.png]]
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[[Media:Freiburg10_TimeLapse_AAV-293_mVenus+GOI_mCherry_400px.gif]]
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[[Media:Freiburg10_AAV_assembly_400px.png]]
 +
 
 +
[[Media:Freiburg10_AAV_assembly_scheme_400px.png]]
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[[Media:Freiburg10_Microscopy_phasecontrast_2_GOI.png]]
[[Media:Freiburg10_Microscopy_phasecontrast_2_GOI.png]]
-
 
-
[[Media:Freiburg10 VirusInfectionScheme01.png]]
 
-
 
-
[[Media:Freiburg10_VirusProduction01.png]]
 
-
 
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[[Media:Freiburg10_VirusProduction02.png]]
 
-
 
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[[Media:Freiburg10_VirusProduction03.png]]
 
-
 
-
[[Media:Freiburg10_VirusInfection01.png]]
 
[[Media:Freiburg10_FACS_woHGH.png]]
[[Media:Freiburg10_FACS_woHGH.png]]
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[[Media:Freiburg10_FACS_FULL_pAAV_mVenus.png]]
[[Media:Freiburg10_FACS_FULL_pAAV_mVenus.png]]
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[[Media:Freiburg10_Diagram_FULL_GOI.png]]
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[[Media:Freiburg10_Diagram_FULL_GOI.png]] **neues Bild hochladen!**
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[[Media:Freiburg10_Flourocytosine_pathway.png]]
[[Media:Freiburg10_Flourocytosine_pathway.png]]
 +
 +
[[Media:Freiburg10_CD.jpg]]
 +
 +
[[Media:Freiburg10_TK.jpg]]
<h2> Loop insertions </h2>
<h2> Loop insertions </h2>
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[[Media:Freiburg10_cloning_viral_bricks.png]]
[[Media:Freiburg10_cloning_viral_bricks.png]]
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 +
[[Media:Freiburg10_ELISA.jpg]]
 +
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[[Media:Freiburg10_ELISA_plate.jpg]]
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[[Media:Freiburg10_akta.jpg]]
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[[Media:Freiburg10_his_column.jpg]]
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[[Media:Freiburg10_His-tag.png]]
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[[Media:Freiburg10_His-experiment.png]]
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[[Media:Freiburg10_His-data.png]]
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[[Media:Freiburg10_BAP-tag.png]]
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[[Media:Freiburg10_BAP-experiment.png]]
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[[Media:Freiburg10_BAP-data.png]]
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[[Media:Freiburg10_Z34C-tag.png]]
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[[Media:Freiburg10_Z34C-history.png]]
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[[Media:Freiburg10_Z34C affinity data.png]]
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[[Media:Freiburg10_Z34C titration data.png]]
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[[Media:Freiburg10_loop insertion sites.png]]
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<h2> N-terminal fusion </h2>
<h2> N-terminal fusion </h2>
===Results===
===Results===
 +
[[Media:Freiburg10 mVenusDrop.PNG]]
 +
 +
[[Media:Freiburg10 qPCR DARPin.PNG]]
 +
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[[Media:Freiburg10 FACS1.PNG]]
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[[Media:Freiburg10 FACS2.PNG]]
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[[Media:Freiburg10 FACS3.PNG]]
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[[Media:Freiburg10 Cloning VP2Fusion2.PNG]]
[[Media:Freiburg10 Cloning VP2Fusion2.PNG]]
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[[Media:Freiburg10 Cloning VP2FusionH.PNG]]
[[Media:Freiburg10 Cloning VP2FusionH.PNG]]
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[[Media:Freiburg10 CloningGel DARPin.png]]
[[Media:Freiburg10 CloningGel DARPin.png]]
 +
[[Media:Freiburg10 CMCSchema.png]]
[[Media:Freiburg10 CMCSchema.png]]
 +
[[Media:Freiburg10 ColonyPCR.png]]
[[Media:Freiburg10 ColonyPCR.png]]
 +
[[Media:Freiburg10 FACS VP1Ins A431.png]]
[[Media:Freiburg10 FACS VP1Ins A431.png]]
 +
[[Media:Freiburg10 FACS VP1Ins HT1080.png]]
[[Media:Freiburg10 FACS VP1Ins HT1080.png]]
 +
[[Media:Freiburg10 FACS VP2 A431.png]]
[[Media:Freiburg10 FACS VP2 A431.png]]
 +
[[Media:Freiburg10 FACS VP2Fusion HT1080 Diagramm.png]]
[[Media:Freiburg10 FACS VP2Fusion HT1080 Diagramm.png]]
 +
[[Media:Freiburg10 Gel VP1ins.png]]
[[Media:Freiburg10 Gel VP1ins.png]]
 +
[[Media:Freiburg10 GelVP2Fusion2tog.PNG]]
[[Media:Freiburg10 GelVP2Fusion2tog.PNG]]
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[[Media:Freiburg10 GelVP2Fusion2tog2.PNG]]
[[Media:Freiburg10 GelVP2Fusion2tog2.PNG]]
 +
[[Media:Freiburg10 LinkerSchema.png]]
[[Media:Freiburg10 LinkerSchema.png]]
 +
[[Media:Freiburg10 NLS mVenus mCherry.png]]
[[Media:Freiburg10 NLS mVenus mCherry.png]]
 +
[[Media:Freiburg10 NLSSchema.png]]
[[Media:Freiburg10 NLSSchema.png]]
 +
[[Media:Freiburg10 Overview VP1Insertion.png]]
[[Media:Freiburg10 Overview VP1Insertion.png]]
 +
[[Media:Freiburg10 Overview VP2Fusion.png]]
[[Media:Freiburg10 Overview VP2Fusion.png]]
 +
[[Media:Freiburg10 Primer ColonyPCR.png]]
[[Media:Freiburg10 Primer ColonyPCR.png]]
-
[[Media:Freiburg10 qPCR VP1Ins.png]]
+
 
 +
[[Media:Freiburg10 qPCR VP1Insnew.PNG]]
 +
 
 +
[[Media:Freiburg10 qPCR VP2Fus.PNG]]
 +
 
[[Media:Freiburg10 SchemaVP2Fusion.PNG]]
[[Media:Freiburg10 SchemaVP2Fusion.PNG]]
 +
[[Media:Freiburg10 TargetingMotifSchema.png]]
[[Media:Freiburg10 TargetingMotifSchema.png]]
 +
[[Media:Freiburg10 test supernatant pellet.png]]
[[Media:Freiburg10 test supernatant pellet.png]]
 +
[[Media:Freiburg10 TestDARPin.png]]
[[Media:Freiburg10 TestDARPin.png]]
 +
[[Media:Freiburg10 TimeLapseA431.png]]
[[Media:Freiburg10 TimeLapseA431.png]]
 +
[[Media:Freiburg10 TimeLapseHT1080.png]]
[[Media:Freiburg10 TimeLapseHT1080.png]]
 +
[[Media:Freiburg10 VP1InsertionSchema.PNG]]
[[Media:Freiburg10 VP1InsertionSchema.PNG]]
 +
[[Media:Freiburg10 VP1KO.PNG]]
[[Media:Freiburg10 VP1KO.PNG]]
 +
[[Media:Freiburg10 VP1upSchema.png]]
[[Media:Freiburg10 VP1upSchema.png]]
 +
[[Media:Freiburg10 VP2KO.PNG]]
[[Media:Freiburg10 VP2KO.PNG]]
 +
[[Media:Freiburg10 VP23Schema.png]]
[[Media:Freiburg10 VP23Schema.png]]
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[[Media:Freiburg10 heparansulfate.PNG]]
[[Media:Freiburg10 heparansulfate.PNG]]
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 +
<h2>ITR Diary </h2>
 +
 +
 +
<h2> Targeting: Flow Cytometry: DARPin, Affi (HSPGKO) </h2>
 +
 +
 +
[[Media:Freiburg10 FACS DARPin Affi HSPGKO A431.png]]
 +
 +
[[Media:Freiburg10_FACS DARPin Affi HSPGKO HT1080.png]]
 +
 +
[[Media:Freiburg10_FlowCytometry Diagramm DARPin Affi.png]]

Latest revision as of 03:49, 28 October 2010

File list


Finally we successfully combined different modifactions of the therapeutic viral vector for optimizing it for tumore therapy application. These modifications include the knock down of the natural tropism for HSPG receptor, the tumor targeting using the affibody ZEGFR1907 fused to the N-terminus of the viral coat protein VP2 and an encapsidated vectorgenome that was bricked down and reassembled containing the prodrug converting Guanosine Monophosphate Kinase Thymidine Kinase fusion protein (mGMK-TK).


Contents

AAAAAH

Media:Freiburg10_Organisation_cap_proteins.png Media:Freiburg10 Organisation rep proteins.png

Media:Freiburg10_Freiburg10_amidosulfated_disacharid.png Media:Freiburg10 Organisation rep proteins.png


eGFP

Media:Freiburg10_eGFP.png Media:Freiburg10_CD.png Media:Freiburg10_pathway_CD.png Media:Freiburg10_CFP_spectrum Media:Freiburg10_CFP_fluorophor Media:Freiburg10_CFP_architecture


Media:Freiburg10_Loopover1.jpeg

Media:Freiburg10_Loopover2.jpeg

Time lapse

Media:Freiburg10_production_Venus_mCherry_Brightfield.mov

Media:Freiburg10_TimeLapse_HT10180_TK_GMK_400px.gif

Media:Freiburg10_TimeLapse_A431_TK_GMK_400px.gif

Media:Freiburg10_TimeLapse_AAV-293_mVenus+GOI_mCherry_390px.gif

Media:Freiburg10_TimeLapse_AAV-293_mVenus+GOI_mCherry_400px.gif


Structure Modeling

Media:Freiburg10_rot250trans.gif

Media:Freiburg10_AAVassem500-60.gif

Media:Freiburg10_AAVassem500-100.gif

Media:Freiburg10_AAVassem500-100.mov

Media:Freiburg10_AAV_complete.jpg

Media:Freiburg10_AAV_singleVP3.jpg

Media:Freiburg10_AAV_singleVP3surface.jpg

Media:Freiburg10_AAV_VP3star.jpg

Media:Freiburg10_AAV_slice.gif

Media:Freiburg10_AAV_sliceSur.gif

Media:Freiburg10_PleaseWait.gif

Media:Freiburg10_AAV_assembly_600px.png

Media:Freiburg10_AAV_assembly_400px.png

Media:Freiburg10_AAV_assembly_scheme_400px.png


Modularaization of GOI - Results

Media:Freiburg10_Overview_BBa_Vectorplasmid.png

Media:Freiburg10_Overview_Assembly_GOI.png

Media:Freiburg10_TheoreticalCloning_ITR_CMV_beta.png

Media:Freiburg10_Cloning_Intermediate_GOI.png

Media:Freiburg10_Cloning_Full_GOI.png

Media:Freiburg10_Microscopy_Overlay_mVenus_1_GOI.png

Media:Freiburg10_Microscopy_Overlay_grey_1_GOI.png

Media:Freiburg10_Microscopy_Overlay_mVenus_2_GOI.png

Media:Freiburg10_Microscopy_phasecontrast_2_GOI.png

Media:Freiburg10_FACS_woHGH.png

Media:Freiburg10_FACS_withHGH.png

Media:Freiburg10_Diagram_hGH.png

Media:Freiburg10_FACS_betaglobin.png

Media:Freiburg10_FACS_withbetaglobin.png

Media:Freiburg10 VirusInfectionScheme01.png

Media:Freiburg10_Diagram_betaglobin.png.png

Media:Freiburg10_FACS_FULL_pSB1c3_mVenus.png

Media:Freiburg10_FACS_FULL_pAAV_mVenus.png

Media:Freiburg10_Diagram_FULL_GOI.png **neues Bild hochladen!**


Introduction to Adeno-Associated Virus Serotype 2

Media:Freiburg10_genomic_organisation_wt.png

Media:Freiburg10_organization_ITRs.png

Media:Freiburg10_Overview_AAV-2_replication.png

Media:Freiburg10_regulation_viral_promotors.png

Media:Freiburg10_p5_promoter_wtAAV2.png

Media:Freiburg10_p5_TATA_less.png

Media:Freiburg10_DNA_Loop_P5_to_sp1.png

Media:Freiburg10_Rep_proteins_organization.png

Media:Freiburg10_Crystal_structure_SF3helicase.png

Media:Freiburg10_PLA2-mechanism.PNG

Media:Freiburg10_PLA2-recognition_site.jpg‎

Media:Freiburg10_VP1-3_overview.jpg

Media:Freiburg10_Rep40.jpg

Trafficking

Media:Freiburg10_viral_trafficking.png

Media:Freiburg10_cellular_surface_HSPG.png

Media:Freiburg10_Clathrin_triskelions.png

Helper genes

Media:Freiburg10_Helper_free_system.png

Media:Freiburg10_pHelper.png

Gene therapy

Media:Freiburg10_overview_GDEPT.png

Media:Freiburg10_Bystander_effect.png


Cytosine deaminase

Media:Freiburg10_Flourocytosine_pathway.png

Media:Freiburg10_CD.jpg

Media:Freiburg10_TK.jpg

Loop insertions

Media:Freiburg10_3D_AC_of_453_587_loops.png

Media:Freiburg10_cloning_viral_bricks.png

Media:Freiburg10_ELISA.jpg

Media:Freiburg10_ELISA_plate.jpg

Media:Freiburg10_akta.jpg

Media:Freiburg10_his_column.jpg

Media:Freiburg10_His-tag.png

Media:Freiburg10_His-experiment.png

Media:Freiburg10_His-data.png

Media:Freiburg10_BAP-tag.png

Media:Freiburg10_BAP-experiment.png

Media:Freiburg10_BAP-data.png

Media:Freiburg10_Z34C-tag.png

Media:Freiburg10_Z34C-history.png

Media:Freiburg10_Z34C affinity data.png

Media:Freiburg10_Z34C titration data.png

Media:Freiburg10_loop insertion sites.png



Tagging

Media:Freiburg10_BAP.png

Media:Freiburg10_His.png


Targeting

Media:Freiburg10_RGD_motif.png

Media:Freiburg10_Z34C_motif.png

Media:Freiburg10_Z34C_Z38_ZDomain_helix.png

Media:Freiburg10_HSPG.png

Media:Freiburg10_HSPG_chemical_structure.png

N-terminal fusion

Results

Media:Freiburg10 mVenusDrop.PNG

Media:Freiburg10 qPCR DARPin.PNG

Media:Freiburg10 FACS1.PNG

Media:Freiburg10 FACS2.PNG

Media:Freiburg10 FACS3.PNG

Media:Freiburg10 Cloning VP2Fusion2.PNG

Media:Freiburg10 Cloning VP2FusionH.PNG

Media:Freiburg10 CloningGel DARPin.png

Media:Freiburg10 CMCSchema.png

Media:Freiburg10 ColonyPCR.png

Media:Freiburg10 FACS VP1Ins A431.png

Media:Freiburg10 FACS VP1Ins HT1080.png

Media:Freiburg10 FACS VP2 A431.png

Media:Freiburg10 FACS VP2Fusion HT1080 Diagramm.png

Media:Freiburg10 Gel VP1ins.png

Media:Freiburg10 GelVP2Fusion2tog.PNG

Media:Freiburg10 GelVP2Fusion2tog2.PNG

Media:Freiburg10 LinkerSchema.png

Media:Freiburg10 NLS mVenus mCherry.png

Media:Freiburg10 NLSSchema.png

Media:Freiburg10 Overview VP1Insertion.png

Media:Freiburg10 Overview VP2Fusion.png

Media:Freiburg10 Primer ColonyPCR.png

Media:Freiburg10 qPCR VP1Insnew.PNG

Media:Freiburg10 qPCR VP2Fus.PNG

Media:Freiburg10 SchemaVP2Fusion.PNG

Media:Freiburg10 TargetingMotifSchema.png

Media:Freiburg10 test supernatant pellet.png

Media:Freiburg10 TestDARPin.png

Media:Freiburg10 TimeLapseA431.png

Media:Freiburg10 TimeLapseHT1080.png

Media:Freiburg10 VP1InsertionSchema.PNG

Media:Freiburg10 VP1KO.PNG

Media:Freiburg10 VP1upSchema.png

Media:Freiburg10 VP2KO.PNG

Media:Freiburg10 VP23Schema.png


Media:Freiburg10_N_terminal_fusion_approach.png

Media:Freiburg10_Cotransfected_plasmids.png


VP1 insertion

Media:Freiburg10_pSB1C3_VP1up_NLS_Fig27.png

Media:Freiburg10_VP1_insertion.png


Targeting molecules

Media:Freiburg10_Nucleotide_sequence_ZEGFR.png

Media:Freiburg10_Darpin.png

Media:Freiburg10_Darpin_internal_repeat_modules.png

Media:Freiburg10_Darpin_conserved_motifs.png

Media:Freiburg10_Darpin_capping_modules.png


Favorite parts

Media:Freiburg10_IMAC.png

Media:Freiburg10_effect_GCV.png

Media:Freiburg10_viral_brick_587_KO_His.png

Media:Freiburg10_psB1C3_ZEGFR_Linker_VP23.png

Media:Freiburg10_Darpin_internal_repeat_modules.png

Media:Freiburg10_Darpin_conserved_motifs.png

Media:Freiburg10_Darpin_capping_modules.png

HSPG KO

Media:Freiburg10 HSPG binding motif.png

Media:Freiburg10 heparansulfate.PNG

ITR Diary


Targeting: Flow Cytometry: DARPin, Affi (HSPGKO)


Media:Freiburg10 FACS DARPin Affi HSPGKO A431.png

Media:Freiburg10_FACS DARPin Affi HSPGKO HT1080.png

Media:Freiburg10_FlowCytometry Diagramm DARPin Affi.png