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Publications and Research work

A. Publications with quality assurance (peer review) and book articles

i. Karlsruhe (since 2010)
ii. Regensburg (2006 - 2010)
iii. Munich (2002 - 2005)
iv. Pasadena (2000 - 2001)
v. Novartis (2000)
vi. Basel (1997 - 1998)
vii. Freiburg (1995)

  

B. Other publications

  

A. Research work

i. Karlsruhe (since 2010)

2017

Molecular movement in the Arabidopsis thaliana female gametophyte
R. M. Erdmann, A. Hoffmann, H.-K. Walter, H.-A. Wagenknecht, R. Groß-Hardt, M. Gehring, Plant. Reprod. 2017, accepted.

1,2,4-triazine-modified 2'-deoxyuridine triphosphate for efficient bioorthogonal fluorescent labeling of DNA
K. Peewasan,  H.-A. Wagenknecht, ChemBioChem 2017, accepted.

Synthesis of wavelength-shifting fluorescent DNA and RNA with two photostable cyanine-styryl dyes as base surrogate pair
J. Steinmeyer, F. Rönicke, U. Schepers, H.-A. Wagenknecht, ChemistryOpen 2017, accepted. 

The influence of electron-withdrawing groups at the 2- and 2’-positions of dibenzothienylethenes on molecular switching
R. Hofsäß, D. Rombach, H.-A. Wagenknecht, Synlett 2017, accepted.

“DNA Origami Traffic Lights” with a Split Aptamer Sensor for a Bicolor Fluorescence Readout
H.-K. Walter, J. Bauer, J. Steinmeyer, A. Kuzuya, C.M. Niemeyer, H.-A. Wagenknecht, Nano Lett. 2017, accepted.

A postsynthetically 2’-“clickable” uridine with arabino configuration and its application for fluorescent labeling and imaging of DNA
H.-K. Walter, B. Olshausen, U. Schepers, H.-A. Wagenknecht, Beilstein J. Org. Chem. 2017, 13, 127–137.

Elucidation of the Dexter-type energy transfer in DNA by thymine-thymine dimer formation using photosensitizers as artificial nucleosides
L. Antusch, N. Gaß, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 201756, 1385-1389.

Isosteric and fluorescent DNA base pair consisting of 4-aminophthalimide and 2,4-diaminopyrimidine as C-nucleosides
M. Merkel, L. Dehmel, N. P. Ernsting, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 201756, 384-388.

Photocatalysis of a [2+2]-cycloaddition in aqueous solution using DNA three-way junctions as chiral photoDNAzymes
N. Gaß, J. Gebhard, H.-A. Wagenknecht, ChemPhotoChem 20171, 48-50.

 

2016

Synthesis of N,N-dimethylpyrene-modified short peptides for chemical photocatalysis
S. Hermann, H.-A. Wagenknecht, J. Pept. Sci. 2016accepted.

Scope and limitations of typical copper-free bioorthogonal reactions with DNA: Reactive 2’-deoxyuridine triphosphates for postsynthetic labeling
M. Merkel, S. Arndt, D. Ploschik, G. Cserép, U. Wenge, P. Kele, H.-A. Wagenknecht, J. Org. Chem. 201681, 7527-7538.

Substitution of metallocene with [2.2]-paracyclophane to enable confocal microscopy imaging in living cells
J. Skiba, C. Schmidt, P. Lippmann, P. Ensslen, H.-A. Wagenknecht, R. Czerwieniec, F. Brandl, I. Ott, T. Bernas, B. Krawczyk, D. Szczukocki, K. Kowalski, Eur. J. Inorg. Chem. 2016, 297-305.

Two wavelength-shifting molecular beacons for simultaneous and selective imaging of vesicular miRNA-21 and miRNA-31 in living cancer cells
P. R. Bohländer, M. L. Abba, F. Bestvater, H. Allgayer, H.-A. Wagenknecht, Org. Biomol. Chem. 2016, 14, 4961-5176.

Synthetic Wavelength-Shifting Fluorescent Probes of Nucleic Acids
C. Schwechheimer, M.Merkel, P. R. Bohländer, H.-A. Wagenknecht
in: K. Nakatani, Y. Tor (Eds.)
Modified Nucleic Acids
2016, Springer International Publishing Switzerland.

Synthesis of wavelength-shifting DNA hybridization probes by using photostable cyanine dyes
S. Arndt, H.-K. Walter, H.-A. Wagenknecht, J. Vis. Exp. 2016, 113, e54121.

Polarity sensitive bioorthogonally appilcable far-red emitting labels for postsynthetic nucleic acid labeling by copper-catalyzed and copper-free cycloaddition
Á. Eördögh, J. Steinmeyer, K. Peewasan, U. Schepers, H.-A. Wagenknecht, P. Kele, Bioconjugate Chem. 2016, 27, 457-464.

Isosteric and Fluorescent DNA Base Pair Formed by 4-Amino-phthalimide and 2,4-Diaminopyrimidine: Melting, Structure, and THz Polar Solvation Dynamics
L. Dehmel, F. Berndt, M. Weinberger, M. Sajadi, I. Ioffe, H.-A. Wagenknecht, N. Ernsting, Phys. Chem. Chem. Phys. 2016, 18, 6813-6820.

A DNA-fullerene conjugate as template for supramolecular chromophore assemblies: Towards DNA-based solar cells
P. Ensslen, S. Gärtner, K. Glaser, A. Colsmann, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2016, 55, 1904-1908.

Thiazole Orange Dimers in DNA: Fluorescent Base Substitutions with Hybridization Readout
S. Berndl, S. D. Dimitrov, F. Menacher, T. Fiebig, H.-A. Wagenknecht, Chem. Eur. J. 2016, 22, 2386-2395.

 

2015

1D Multichromophor Arrays Based on DNA – From Self-Assembly to Light-Harvesting
P. Ensslen, H.-A. Wagenknecht, Acc. Chem. Res. 2015, 48, 2724-2733.

Dynamic DNA architectures: Spontaneous DNA strand exchange and self-sorting driven by perylene bisimide interactions
M. Weiser, H.-A. Wagenknecht, Chem. Commun. 2015, 51, 16530-16533.

Synthesis of benzophenone nucleosides and their photocatalytic evaluation for [2+2]-cycloaddition in aqueous media
N. Gaß, H.-A. Wagenknecht, Eur. J. Org. Chem. 2015, 6661-6668.

Bright and photostable cyanine-styryl chromophores with green and red fluorescence color for DNA staining
P. R. Bohländer, H.-A. Wagenknecht, Meth. Appl. Fluorescence 2015, 3, 044003.

Strand Displacement and Duplex Invasion into Double-Stranded DNA by Pyrrolidinyl Peptide Nucleic Acids
P. R. Bohländer, T. Vilaivan, H.-A. Wagenknecht, Org. Biomol. Chem. 2015, 13, 9223-9230.

Copper-free postsynthetic labeling of nucleic acids by means of bioorthogonal reactions
M. Merkel, K. Peewasan, S. Arndt, D. Ploschik, H.-A. Wagenknecht, ChemBioChem 2015, 16, 1541-1553.

Sythesis and Evaluation of Nicotinic Acid Derived Tetrazines for Bioorthogonal Labeling
G. Cserép. O. Demeter, E. Bätzner, M. Kállay, H.-A. Wagenknecht, P. Kele, Synthesis 2015, 47, 2738-2744.

DNA-Based Oligochromophores as Light-Harvesting Systems
P. Ensslen, F. Brandl, S. Sezi, R. Varghese, R.-J. Kutta, B. Dick, H.-A. Wagenknecht, Chem. Eur. J. 2015, 21, 9349-9354.

Photocatalytic nucleophilic Addition of alcohols to styrenes in Markovnikov and anti-Markovnikov orientation
M. Weiser, S. Hermann, A. Penner, H.-A. Wagenknecht, Beilstein J. Org. Chem. 2015, 11, 568-575.

Acceleration of Long-Range Photoinduced Electron Transfer through DNA by Hydroxyquinolines as Artificial Base Pairs
E. Bätzner, Y. Liang, C. Schweigert, A.-N. Unterreiner, H.-A. Wagenknecht, ChemPhysChem 2015, 16, 1607-1612.

Mesityl phenanthroline-modified 2'-deoxyuridine for heteroleptic complexes in metal ion-mediated assembly of DNA
P. Ensslen, H.-A. Wagenknecht, Dalton Trans. 2015, 44, 6715-6718.

Development of a Wavelength-Shifting Fluorescent Module for the Adenonosine Aptamer Using Photostable Cyanine Dyes
H.-K. Walter, P. R. Bohländer, H.-A. Wagenknecht, ChemistryOpen 2015, 4, 92-96.

Mixed non-covalent assemblies of ethynyl nile red and ethynyl pyrene along oligonucleotide templates
P. Ensslen, Y. Fritz, H.-A. Wagenknecht, Org. Biomol. Chem. 2015, 13, 487-492.

Metal ion-mediated and perylenebisimide-mediated DNA architectures
C. Wellner, C. Stubinitzky, H.-A. Wagenknecht
in: E. Stulz, G. Clever (Eds.)
DNA in supramolecular chemistry and nanotechnology
2015, John Wiley & Sons Limited.

 

2014

"Photoclick" Postsynthetic Modification of DNA
S. Arndt, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2014, 53, 14580-14582.
S. Arndt, H.-A. Wagenknecht, Angew. Chem. 2014, 126, 14808-14811.

Synthesis of a Photostable Energy-Transfer Pair for “DNA Traffic Lights”
P. R. Bohländer, H.-A. Wagenknecht, Eur. J. Org. Chem. 2014, 7547-7551.

Synthesis and optical properties of pyrrolidinyl peptide nucleic acid carrying a clicked Nile red label
N. Yotapan, C. Charoenpakdee, P. Wathanathavorn, B. Ditmangklo, H.-A. Wagenknecht, T. Vilaivan, Beilstein J. Org. Chem. 2014, 10, 2166–2174.

Bifunctional DNA Architectonics: Three-Way Junctions with Sticky Perylene Bisimide Caps and Central Metal Lock
C. Stubinitzky, A. Bijeljanin, L. Antusch, D. Ebeling, H. Hölscher, H.-A. Wagenknecht, Chem. Eur. J. 2014, 20, 12009–12014.

2′-Deoxyuridine conjugated with a reactive monobenzocyclooctyne as a DNA building block for copper-free click-type postsynthetic modification of DNA
C. Stubinitzky, G. B. Cserép, E. Bätzner, P. Kele, H.-A. Wagenknecht, Chem. Commun. 2014, 50, 11218-11221.

The Role of Duplex Stability for Wavelength-Shifting Fluorescent DNA Probes: Energy Transfer vs. Excition Interactions in DNA "Traffic Lights"
S. Barrois, S. Wörner, H.-A. Wagenknecht, Photochem. Photobiol. Sci. 2014, 13, 1126-1129.

Photochemical Design of Functional Fluorescent Single-Chain Nanoparticles
J. Willenbacher, K. Wüst, J. Müller, M. Kaupp, H.-A. Wagenknecht, C. Barner-Kowollik, ACS Macro Lett. 2014, 3, 574-579.

The base discriminating potential of pyrrolidinyl PNA demonstrated by magnetic FexOy particles
C. Stubinitzky, T. Vilaivan, H.-A. Wagenknecht, Org. Biomol. Chem. 2014, 12, 3586-3589.

Synthesis of DNA Conjugates with Metalated Tetracationic Porphyrins by Postsynthetic Cycloadditions
C. Wellner, H.-A. Wagenknecht, Org. Lett. 2014, 16, 1692-1695.

 

2013

Synthesis and evaluation of cyanine-styryl dyes with enhanced photostability for fluorescent DNA staining
P. Bohländer, H.-A. Wagenknecht, Org Biomol. Chem. 2013, 11, 7458-7462.

Conformational control of benzophenone-sensitized charge transfer in dinucleotides
T. Merz, M. Wenninger, M. Weinberger, E. Riedle, H.-A. Wagenknecht, M. Schutz, Phys. Chem. Chem. Phys. 2013, 15, 18607-18619.

Development of a metal ion-mediated base pair for electron transfer in DNA
T. Ehrenschwender, W. Schmucker, C. Wellner, T. Augenstein, P. Carl, J. Harmer, F. Breher, H.-A. Wagenknecht, Chem. Eur. J. 2013, 19, 12547-12552.

DNA-templated formation of fluorescent self-assembly of ethynyl pyrenes
S. Sezi, H.-A. Wagenknecht, Chem. Commun. 2013, 49, 9257-9259.

Unravelling the pathways to UVA-induced DNA photodamages: (6-4) Photoproduct as a Potential "Trojan Horse"
H.-A. Wagenknecht, ChemPhysChem 2013, 14, 3197-3198.

Photochemically Active Fluorophore-DNA/RNA Conjugates for Cellular Imaging of Nucleic Acids by Readout in Electron Microscopy
C. Holzhauser, S. Kracher, M.M. Rubner, W. Schmucker, H.-A. Wagenknecht, R. Witzgall, ChemistryOpen 2013, 2, 136–140.

DNA and RNA "Traffic Lights": Synthetic Wavelength-Shifting Fluorescent Probes Based on Nuleic Acid Base Substitutes for Molecular Imaging
C. Holzhauser, H.-A. Wagenknecht, J. Org. Chem. 2013, 78, 7373–7379.

Photocatalysis with Nucleic Acids and Peptides
M. Weinberger, A. Penner, H.-A. Wagenknecht
in: B. König (Ed.)
Chemical Photocatalysis
2013, De Gruyter, 91-107.

Fluorescence Quenching over Short Range in a Donor-DNA-Acceptor System
T. Ehrenschwender, Y. Liang, A.-N. Unterreiner, H.-A. Wagenknecht, T. J. A. Wolf, ChemPhysChem 2013, 14, 1197–1204.

In-stem labelling allows visualization of DNA strand displacements by distinct fluorescent colour change
S. Barrois, H.-A. Wagenknecht, Org. Biomol. Chem. 2013, 11, 3085-3088.

Synthesis and Redox and Photophysical Properties of Benzodifuran-Spiropyran Ensembles
H. Li, J. Ding, S. Chen, C. Beyer, S.-X. Liu, H.-A. Wagenknecht, A. Hauser, S. Decurtins, Chem. Eur. J. 2013, 19, 6459-6466.

A simple pyrene "click"-type modification of DNA affects solubilisation and photoluminescence of single-walled carbon nanotubes
W. Schmucker, S. Klumpp, F. Hennrich, M. Kappes, H.-A. Wagenknecht, RSC Adv. 2013, 3, 6331-6333.

Synthesis of 2'-O-propargyl nucleoside triphosphates for enzymatic oligonucleotide preparation and "click" modification of DNA with nile red as fluorescent probe
U. Wenge, T. Ehrenschwender, H.-A. Wagenknecht, Bioconjugate Chem. 2013, 24, 301-304.

RNA "Traffic Lights": An Analytical Tool to Monitor siRNA Integrity
C. Holzhauser, R. Liebl, A. Goepferich, H.-A. Wagenknecht, M. Breunig, ACS Chem. Biol. 2013, 8, 890–894.

Synthesis of 4-Aminophthalimide and 2,4-Diaminopyrimidine C-Nucleosides as Isosteric Fluorescent DNA Base Substitutes
M. Weinberger, F. Berndt, R. Mahrwald, N. P. Ernsting, H.-A. Wagenknecht, J. Org. Chem. 2013, 78, 2589-2599.

Energy-transfer-based wavelength-shifting DNA probes with "clickable" cyanine dyes
C. Holzhauser, M. M. Rubner, H.-A. Wagenknecht, Photochem. Photobiol. Sci. 2013, 12, 722-724.

 

2012

Chemical Photocatalysis with 1-(N,N-Dimethylamino)pyrene
A. Penner, E. Bätzner, H.-A. Wagenknecht, Synlett 2012, 23, 2803-2807.

Organic Chemistry of DNA Functionalization; Chromophores as DNA Base Substitutes versus DNA Base/2'-Modifications
W. Schmucker, H.-A. Wagenknecht, Synlett 2012, 23, 2435-2448.

Photoinduced Reductive Electron Transfer in LNA:DNA Hybrids: A Compromise between Conformation and Base Stacking
U. Wenge, J. Wengel, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2012, 51, 10026-10029.
U. Wenge, J. Wengel, H.-A. Wagenknecht, Angew. Chem. 2012, 124, 10168-10172.

Conformational Control of Dual Emission by Pyrrolidinyl PNA-DNA Hybrids
S. Sezi, R. Varghese, T. Vilaivan, H.-A. Wagenknecht, ChemistryOpen 2012, 1, 173-176.

Diarylethene-Modified Nucleotides for Switching Optical Properties in DNA
S. Barrois, H.-A. Wagenknecht, Beilstein J. Org. Chem. 2012, 8, 905-914.

"DNA Traffic Lights": Concept of Wavelength-Shifting DNA Probes and Application in an Aptasensor
C. Holzhauser, H.-A. Wagenknecht, ChemBioChem 2012, 13, 1136-1138.

Covalent Modification of 2'-Deoxyuridine with Two Different Molecular Switches
S. Barrois, C. Beyer, H.-A. Wagenknecht, Synlett 2012, 23, 711-716.

Metal-Mediated DNA Assembly Using the Ethynyl Linked Terpyridine Ligand
T. Ehrenschwender, A. Barth, H. Puchta, H.-A. Wagenknecht, Org. Biomol. Chem. 2012, 10, 46-48.

Synthesis of a Benzophenone C-Nucleoside as Potential Triplet Energy and Charge Donor in Nucleic Acids
M. Weinberger, H.-A. Wagenknecht, Synthesis 2012, 44, 648-652.

DNA "Nanolamps": "Clicked" DNA Conjugates with Photon Upconverting Nanoparticles as Highly Emissive Biomaterial
M. M. Rubner, D. E. Achatz, H. S. Mader, J. A. Stolwijk, J. Wegener, G. S. Harms, O. S. Wolfbeis, H.-A. Wagenknecht, ChemPlusChem 2012, 77, 129-134.

A "Clickable" Styryl Dye for Fluorescent DNA Labeling by Excitonic and Energy Transfer Interactions
M. M. Rubner, C. Holzhauser, P. R. Bohländer, H.-A. Wagenknecht, Chem. Eur. J. 2012, 18, 1299-1302.

 

2011

Polar Solvation Dynamics in Water and Methanol: Search for Molecularity
M. Sajadi, M. Weinberger, H.-A. Wagenknecht, N. P. Ernsting, Phys. Chem. Chem. Phys. 2011, 13, 17768-17774.

5-(Pyren-1-yl)uracil as a Base-Discriminating Fluorescent Nucleobase in Pyrrolidinyl Peptide Nucleic Acids
C. Boonlua, C. Vilaivan, H.-A. Wagenknecht, T. Vilaivan, Chem. Asian J. 2011, 6, 3251-3259.

Synthesis of DNA with Green Perylene Bisimides as DNA Base Substitution
F. Menacher, H.-A. Wagenknecht, Eur. J. Org. Chem. 2011, 4564-4570.

In-Stem-Labeled Molecular Beacons for Distinct Fluorescent Color Readout
C. Holzhauser, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2011, 50, 7268-7272.
C. Holzhauser, H.-A. Wagenknecht, Angew. Chem. 2011, 123, 7406-7410.

Ratiometric Molecular Beacons Based on the Perylene Bisimide Chromophore as a Dimeric Internal DNA Base Substitution
F. Menacher, H.-A. Wagenknecht, Photochem. Photobiol. Sci. 2011, 10, 1275-1278.

Assembly of DNA Triangles Mediated by Perylene Bisimide Caps
F. Menacher, V. Stepanenko, F. Würthner, H.-A. Wagenknecht, Chem. Eur. J. 2011, 17, 6683-6688.

4,4-Difluoro-4-bora-3a,4a-diaza-s-indacene as a Bright Fluorescent Label for DNA
T. Ehrenschwender, H.-A. Wagenknecht, J. Org. Chem. 2011, 76, 2301-2304.

Synthetic GFP Chromophore and Control of Excited-State Proton Transfer in DNA: An Alternative Concept for Fluorescent DNA Labels with Large Apparent Stokes' Shifts
U. Wenge, H.-A. Wagenknecht, Synthesis 2011, 3, 502-508.

 

 

ii. Regensburg (2006 - 2010)

 

2010

New Far-red and Near-infrared Fluorescent Probes with Large Stokes Shifts for Dual Covalent Labeling of DNA
T. Ehrenschwender, B. R. Varga, P. Kele, H.-A. Wagenknecht, Chem. Asian J. 2010, 5, 1761-1764.

Non-covalent versus Covalent Control of Self-assembly and Chirality of Nile Red-modified Nucleoside and DNA
R. Varghese, H.-A. Wagenknecht, Chem. Eur. J. 2010, 16, 9040-9046.

Synthesis of DNA with Spirobenzopyrans as an Internal Covalent Modification
C. Beyer, H.-A. Wagenknecht, Synlett 2010, 1371-1376.

Synthesis of Spiropyrans as Building Blocks for Molecular Switches and Dyads
C. Beyer, H.-A. Wagenknecht, J. Org. Chem. 2010, 75, 2752-2755.

Synthetic Incorporation of Nile Blue into DNA using 2-Deoxyriboside Substitutes: Representative Comparison of (R)- and (S)-Aminopropanediole as an Acyclic Linker
D. Lachmann, S. Berndl, O. S. Wolfbeis, H.-A. Wagenknecht, Beilstein J. Org. Chem. 2010, 6, No. 13.

Synthesis and Optical Properties of Cyanine Dyes as Fluorescent DNA Base Substitutions for Live Cell Imaging
C. Holzhauser, S. Berndl, F. Menacher, M. Breunig, A. Göpferich, H.-A. Wagenknecht, Eur. J. Org. Chem. 2010, 1239-1248.

In Situ Azide Formation and "Click" Reaction of Nile Red with DNA as an Alternative Postsynthetic Route
C. Beyer, H.-A. Wagenknecht, Chem. Commun. 2010, 46, 2230-2231.

Imaging of RNA Delivery to Cells by Thiazole Orange as a Fluorescent RNA Base Substitution
S. Berndl, M. Breunig, A. Göpferich, H.-A. Wagenknecht, Org. Biomol. Chem. 2010, 8, 997-999.

Photoinduced Short-Range Electron Transfer in DNA with Fluorescent DNA Bases: Lessons from Ethidium and Thiazole Orange as Charge Donors
C. Prunkl, S. Berndl, C. Wanninger-Weiß, J. Barbaric, H.-A. Wagenknecht, Phys. Chem. Chem. Phys. 2010, 12, 32-43.

Red-White-Blue Emission Switching Molecular Beacons: Ratiometric Multicolour DNA Hybridization Probes
R. Varghese, H.-A. Wagenknecht, Org. Biomol. Chem. 2010, 8, 526-528.

Optical, Redox, and DNA Binding Properties of Phenanthridinium Chromophores: Elucidating the Role of the Phenyl Substituent for Fluorescence Enhancement of Ethidium in the Presence of DNA
C. Prunkl, M. Pichlmaier, R. Winter, V. Kharlanov, W. Rettig, H.-A. Wagenknecht, Chem. Eur. J. 2010, 16, 3392-3402

 

 

2009

Synthesis and Optical Properties of Nile Red Modified 2'-Deoxyuridine and 7-Deaza-2'-deoxyadenosine: Higly Emissive Solvatochromic Nucleosides
R. Varghese, P. K. Gajula, T. K. Chakraborty, H.-A. Wagenknecht, Synlett 2009, 3252-3257.

Radical Intermediates during Reductive Electron Transfer in DNA
R. Varghese, H.-A. Wagenknecht
in: M. Greenberg (Eds.)
Radical and Radical Ion Reactivity in Nucleic Acid Chemistry
2009
, Wiley, 211-237.

White-Light-Emitting DNA (WED)
R. Varghese, H.-A. Wagenknecht, Chem. Eur. J. 2009, 15, 9307-9310.

Helical Arrangement of Porphyrins along DNA: Towards Photoactive DNA-Based Nanoarchitectures
H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2009, 48, 2838-2841.
H.-A. Wagenknecht, Angew. Chem. 2009, 121, 2878-2881.

DNA as a Supramolecular Framework for the Helical Arrangements of Chromophores: Towards Photoactive DNA-Based Nanomaterials
R. Varghese, H.-A. Wagenknecht, Chem. Commun. 2009, 2615-2624.

Fluorescent Color Readout of DNA Hybridization with Thiazole Orange as an Artificial DNA Base
S. Berndl, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2009, 48, 2418-2421.
S. Berndl, H.-A. Wagenknecht, Angew. Chem. 2009, 121, 2454-2457.

Comparison of a Nucleosidic vs. a Non-Nucleosidic Postsynthetic "Click" Modification of DNA with Base-Labile Fluorescent Probes
S. Berndl, N. Herzig, P. Kele, D. Lachmann, X. Li, O. S. Wolfbeis, H.-A. Wagenknecht, Bioconjugate Chem. 2009, 20, 558-564.

Indole in DNA: Comparison of a Nucleosidic with a Non-Nucleosidic DNA Base Substitution
J. Barbaric, C. Wanninger-Weiß, H.-A. Wagenknecht, Eur. J. Org. Chem. 2009, 364-370.

 

 

2008

Fluorescent DNA Base Modifications and Substitutes: Multiple Fluorophore Labeling and DETEQ Concept
H.-A. Wagenknecht, Ann. New York Acad. Sci. 2008, 1130, 122-130.

Synthesis and Spectroscopic Characterization of BODIPY-Modified Uridines as Potential Fluorescent Probes for Nucleic Acids
T. Ehrenschwender, H.-A. Wagenknecht, Synthesis 2008, 3657-3662.

Fluorescent Hydrophobic Zippers inside Duplex DNA: Interstrand Stacking of Perylene-3,4:9,10-tetracarboxylic Acid Bisimides as Artificial DNA Base Dyes
D. Baumstark, H.-A. Wagenknecht, Chem. Eur. J. 2008, 14, 6640-6645.

Thiazole Orange and Cy3: Improvement of Fluorecent DNA Probes with Use of Short Range Electron Transfer
F. Menacher, M. Rubner, S. Berndl, H.-A. Wagenknecht, J. Org. Chem. 2008, 73, 4263-4266.

Nucleotide Insertion and Bypass Synthesis of Pyrene- and BODIPY-Modified Oligonucleotides by DNA Polymerases
C. Wanninger-Weiß, F. Di Pasquale, T. Ehrenschwender, A. Marx, H.-A. Wagenknecht, Chem. Commun. 2008, 48-50.

Perylene Bisimide Dimers as Fluorescent "Glue" for DNA and for Base-Mismatch Detection
D. Baumstark, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2008, 47, 2612-2614.
D. Baumstark, H.-A. Wagenknecht, Angew. Chem. 2008, 120, 2652-2654.

Phenothiazine as a Redox-Active DNA Base Substitute: Comparison with Phenothiazine-Modified Uridine
C. Wagner, H.-A. Wagenknecht, Org. Biomol. Chem. 2008, 6, 48-50.

Pyrene-Modified Guanosine as Fluorescent Probe for DNA Modulated by Charge Transfer
C. Wanninger-Weiß, L. Valis, H.-A. Wagenknecht, Bioorg. Med. Chem. 2008, 16, 100-106.

Synthesis of 5-(2-Pyrenyl)-2'-deoxyuridine as a DNA Modification for Electron-Transfer Studies: The Critical Role of the Position of the Chromophore Attachment
C. Wanninger-Weiß, H.-A. Wagenknecht, Eur. J. Org. Chem. 2008, 64-71.

 

 

2007

Charge Transfer in DNA: Towards New Nanodevices
H.-A. Wagenknecht
in: O. Shoseyov, I. Levy (Eds.)
NanoBioTechnology: Bioinspired Devices and Materials of the Future
2007
, Humana Press, Totowa (New Jersey).

DNA Photonics - Photoinduced Electron Transfer in Synthetic DNA-Donor-Acceptor Systems
Torsten Fiebig, H.-A. Wagenknecht, Chimia 2007, 61, 133-139.

DNA Labelling Topologies for Monitoring DNA-Protein Complex Formation by Fluorescence Anisotropy
M. Bahr, L. Valis, H.-A. Wagenknecht, E. Weinhold, Nucleosides, Nucleotides Nucl. Acids 2007, 26, 1581-1584.

Phenanthridinium as an Artificial DNA Base: Comparison of Two Alternative Acyclic 2'-Deoxyribose Substitutes
L. Valis, H.-A. Wagenknecht, Synlett 2007, 2111-2115.

Helical Self-Assembled Chromophore Clusters Based on DNA-like Architecture
E. Mayer-Enthart, C. Wagner, J. Barbaric, H.-A. Wagenknecht, Tetrahedron 2007, 63, 3434-3439.

 

 

2006

DNA as Functional π-System: Electron Transfer in Synthetically Modified Oligonucleotides
H.-A. Wagenknecht
in: U. F. Bunz, T. T. J. Müller (Eds.)
Functional Organic Materials - Synthesis , Strategies and Applications
2006
, Wiley-VCH, Weinheim (Germany), 441-464.

Electron Transfer Processes in DNA: Mechanisms, Biological Relevance and Applications in DNA Analytics
H.-A. Wagenknecht, Nat. Prod. Rep. 2006, 23, 973-1006.

The Search for Single DNA Damage Among Millions of Base Pairs: DNA Glycosylases Trapped at Work
H.-A. Wagenknecht, Angew. Chem. 2006, 118, 5709-5711.
H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2006, 45, 5583-5585.

Base Pair Motions Control the Rates and Efficiencies of Reductive and Oxidative DNA Charge Transfer
L. Valis, Q. Wang, M. Raytchev, I. Buchvarov, H.-A. Wagenknecht, T. Fiebig, Proc. Natl. Acad. Sci. 2006, 103, 10192-10195.

Perylene-3,4:9,10-tetracarboxylic Acid Bisimide Dye as an Artificial DNA Base Surrogate
C. Wagner, H.-A. Wagenknecht, Org. Lett. 2006, 8, 4191-4194.

Indole as an Artificial DNA Base Incorporated via an Acyclic 2'-Deoxyribose Substitute
C. Wanninger, H.-A. Wagenknecht, Synlett 2006, 2051-2054.

DNA as a Supramolecular Scaffold for the Helical Arrangement of a Stack of 1-Ethynylpyrene Chromophores
J. Barbaric, H.-A. Wagenknecht, Org. Biomol. Chem. 2006, 4, 2088-2090.

Structure-Sensitive and Self-Assembled Helical Pyrene-Array Based on DNA Architecture
E. Mayer-Enthart, H.-A. Wagenknecht, Angew. Chem. 2006, 118, 3451-3453.
E. Mayer-Enthart, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2006, 45, 3372-3375.

8-(Pyren-1-yl)-2'-deoxyguanosine as an optical probe for DNA hybridization and for Charge Transfer with Small Peptides
L. Valis, E. Mayer-Enthart, H.-A. Wagenknecht, Bioorg. Med. Chem. Lett. 2006, 16, 3184-3187.

 

 

iii. Munich (2002 - 2005)

 

2005

Principles and Mechanisms of Photoinduced Charge Injection, Transport and Trapping in DNA
H.-A. Wagenknecht
in: H.-A. Wagenknecht (Ed.)
Charge Transfer in DNA - From Mechanism to Application
2005
, Wiley-VCH, Weinheim (Germany),1-26.

Electron Transfer and Structural Dynamics in DNA
H.-A. Wagenknecht, T. Fiebig
in: H.-A. Wagenknecht (Ed.)
Charge Transfer in DNA - From Mechanism to Application
2005
, Wiley-VCH, Weinheim (Germany), 197-223.

Ultrafast Energy Transfer and Structural Dynamics in DNA
A. Trifonov, M. Raytchev, I. Buchvarov, M. Rist, J. Barbaric, H.-A. Wagenknecht, T. Fiebig, J. Phys. Chem. B 2005, 109, 19490-19495.

Electron Transfer Chemistry between DNA and DNA-Binding Tripeptides
E. Mayer-Enthart, P. Kaden, H.-A. Wagenknecht, Biochemistry 2005, 44, 11749-11757.

Synthesis and Optical Properties of the C-8 Adduct of Benzo[a]pyrene and 2'-Deoxyguanosine
L. Valis, H.-A. Wagenknecht, Synlett 2005, 2281-2284.

Real-Time Observation of Hydrogen-Bond-Assisted Electron Transfer to a DNA Base
A. Trifonov, I. Buchvarov, H.-A. Wagenknecht, T. Fiebig, Chem. Phys. Lett. 2005, 409, 277-280.

1-Ethynylpyrene-Modified Guanine and Cytosine as Optical Labels for DNA Hybridization
C. Wagner, M. Rist, E. Mayer-Enthart, H.-A. Wagenknecht, Org. Biomol. Chem. 2005, 3, 2062-2063.

Real-Time Spectroscopic and Chemical Probing of Reductive Electron Transfer in DNA
P. Kaden, E. Mayer-Enthart, A. Trifonov, T. Fiebig, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2005, 44, 1636-1639.
P. Kaden, E. Mayer-Enthart, A. Trifonov, T. Fiebig, H.-A. Wagenknecht, Angew. Chem. 2005, 117, 1662-1666.

Reductive Electron Transfer in Phenothiazine-Modified DNA is Dependent on the Base Sequence
C. Wagner, H.-A. Wagenknecht, Chem. Eur. J. 2005, 11, 1871-1876.

Detection of Single Base Mismatches and Abasic Sites Using Phenanthridinium as an Artificial DNA Base and Charge Donor
L. Valis, N. Amann, H.-A. Wagenknecht, Org. Biomol. Chem. 2005, 3, 36-38.

 

 

2004

Charge Transfer in DNA
H.-A. Wagenknecht
in: C. Schmuck, H. Wennemers (Eds.)
Bioorganic Chemistry Highlights II: From Chemistry to Biology
2004
, Wiley-VCH, Weinheim (Germany), 369-385.

Synthetic Oligonucleotide Modifications for the Investigation of Charge Transfer and Migration Processes in DNA
H.-A. Wagenknecht, Curr. Org. Chem. 2004, 8, 251-266.

Ultrafast Proton-Coupled Electron Transfer Dynamics in Pyrene-Modified Pyrimidine Nucleosides: Model Studies towards an Understanding of Reductive Electron Transfer in DNA
M. Raytchev, E. Mayer, N. Amann, H.-A. Wagenknecht, T. Fiebig, ChemPhysChem 2004, 5, 706-712.

Phenanthridinium as an Artificial DNA Base and Charge Donor in DNA
N. Amann, R. Huber, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2004, 43, 1845-1847.
N. Amann, R. Huber, H.-A. Wagenknecht, Angew. Chem. 2004, 116, 1881-1883.

Synthesis of DNA with Phenanthridinium as an Artificial DNA Base
R. Huber, N. Amann, H.-A. Wagenknecht, J. Org. Chem. 2004, 69, 744-751.

1-Ethynylpyrene as a Tunable and Versatile Molecular Beacon for DNA
E. Mayer, L. Valis, C. Wagner, M. Rist, N. Amann, H.-A. Wagenknecht, ChemBioChem 2004, 5, 865-868.

 

 

2003

Metal-Mediated Base Pairing and Metal Arrays in Artificial DNA: Towards New Nanodevices
H.-A. Wagenknecht, Angew. Chem. 2003, 115, 3322-3324.
H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2003, 42, 3204-3206.

Reductive Electron Transfer and Transport of Excess Electron in DNA
H.-A. Wagenknecht, Angew. Chem. 2003, 115, 2558-2565.
H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2003, 42, 2454-2460.

Preparation of Pyrene-Modified Purine and Pyrimidine Nucleosides via Suzuki-Miyaura Cross-Couplings and Characterization of their Fluorescent Properties
E. Mayer, L. Valis, R. Huber, N. Amann, H.-A. Wagenknecht, Synthesis 2003, 15, 2335-2340.

Pyrene as a Fluorescent Probe for DNA Base Radicals
R. Huber, T. Fiebig, H.-A. Wagenknecht, Chem. Commun. 2003, 15, 1878-1879.

Preparation of 1-Ethynylpyrene-Modified DNA via Sonogashira-Type Couplings Solid Phase and Characterization of the Fluorescence Properties for Electron-Transfer Studies
M. Rist, N. Amann, H.-A. Wagenknecht, Eur. J. Org. Chem. 2003, 13, 2498-2504.

Synthesis of an Ethidium Nucleoside and Its Acyclic Analog
N. Amann, H.-A. Wagenknecht, Tetrahedron Lett. 2003, 44, 1685-1690.

 

 

2002

Ladungstransferprozesse durch die DNA: Vom Mechanismus zur Anwendung
H.-A. Wagenknecht, Chem. in unserer Zeit 2002, 36, 318-330.

Electron Injection into DNA: Synthesis and Spectroscopic Properties of Pyrenyl-Modified Oligonucleotides
N. Amann, E. Pandurski, T. Fiebig, H.-A. Wagenknecht, Chem. Eur. J. 2002, 8, 4877-4883.

A Model Nucleoside for Electron Injection into DNA: 5-Pyrenyl-2’-deoxyribose
N. Amann, E. Pandurski, T. Fiebig, H.-A. Wagenknecht, Angew. Chem. 2002, 114, 3084-3087.
N. Amann, E. Pandurski, T. Fiebig, H.-A. Wagenknecht, Angew. Chem. Int. Ed. 2002, 41, 2978-2980.

Exciton and Excimer Formation in DNA at Room Temperature
M. Rist, H.-A. Wagenknecht, T. Fiebig, ChemPhysChem 2002, 3, 704-707.

Preparation of Pyrenyl-Modified Nucleosides via Suzuki-Miyaura Cross-Coupling Reactions
N. Amann, H.-A. Wagenknecht, Synlett 2002, 5, 687-691.

 

 

iv. Pasadena (2000 - 2001)

  

2001

Synthetic Active Site Analogues of Heme-Thiolate Proteins: Characterization and Identification of Intermediates of the Catalytic Cycles of Cytochrome P450cam and Chloroperoxidase
W.-D. Woggon, H.-A. Wagenknecht, C. Claude, J. Inorg. Biochem. 2001, 83, 289-300.

Direct Observation of Radical Intermediates in Protein-Dependent DNA Charge Transport
H.-A. Wagenknecht, S. R. Rajski, M. Pascaly, E. D. A. Stemp, J. K. Barton, J. Am. Chem. Soc. 2001, 123, 4400-4407.

 

 

2000

DNA-Bound Peptide Radicals Generated through DNA-Mediated Electron Transport
H.-A. Wagenknecht, E. D. A. Stemp, J. K. Barton, Biochemistry 2000, 39, 5483-5491.

Evidence of Electron Transfer from Peptides to DNA: Oxidation of DNA-Bound Tryptophan Using the Flash-Quench Technique
H.-A. Wagenknecht, E. D. A. Stemp, J. K. Barton, J. Am. Chem. Soc. 2000, 122, 1-7.

 

 

v. Novartis (2001)

  

2001

7-Pyrrolidinyl- and 7-Piperidinyl-5-aryl-pyrrolo[2,3-d]-pyrimidines as Potent Inhibitors of the Tyrosine Kinase c-Src
E. Altmann, M. Missbach, J. Green, M. Šuša, H.-A. Wagenknecht, L. Widler, Bioorg. Med. Chem. Lett. 2001, 11, 853-856.

 

 

vi. Basel (1997 - 1998)

 

 

1998

New Enzyme Models of Chloroperoxidase: Improved Stability and Catalytic Effiency of Iron Porphyrinates Containing a Thiolato Ligand
H.-A. Wagenknecht, C. Claude, W.-D. Woggon, Helv. Chim. Acta 1998, 81, 1506-1520.

 

 

1997

Identification of Intermediates of the Catalytic Cycle of Chloroperoxidase
H.-A. Wagenknecht, W.-D. Woggon, Chem. Biol. 1997, 4, 367-372.

Active Site Analogues of Chloroperoxidase - Syntheses, Catalytic Reactions and Significance to the Reaction Mechanism of CPO
W.-D. Woggon, H.-A. Wagenknecht, J. Inorg. Biochem. 1997, 67, 232.

New Active-Site Analogues of Chloroperoxidase - Syntheses and Catalytic Reactions
H.-A. Wagenknecht, W.-D. Woggon, Angew. Chem. 1997, 109, 404-407.
H.-A. Wagenknecht, W.-D. Woggon, Angew. Chem. Int. Ed. 1997, 36, 390-392.

 

 

vii. Freiburg (1995)

  

1995

Analogues of Disaccharides and Glycosides Containing a Cyclic Guanidinium Structure Show Varying Inhibitory Effects on Glycoside Hydrolases
J. Lehmann, B. Rob, H.-A. Wagenknecht, Carbohydr. Res. 1995, 278, 167-180.

Support of a Cyclic versus Acyclic Intermediate in Enzymatic Glycoside Cleavage: 1,3-(R)-O-Benzylidene-D-threitol is a Competitive Inhibitor but not a Substrate of ß-D-Galactosidase
J. Lehmann, H.-A. Wagenknecht, Carbohydr. Res. 1995, 276, 215-218.

 

 

B. Commentaries, book reviews and conference reports

Aus DNA wird Solarzelle
R. Hofsäß, Y. Fritz, H.-A. Wagenknecht, Nachr. Chem. 2016, 64, 1148-1151.

Functionalized DNA Architechtures: Fluorophore Assemblies and Nanostructures
H.-A. Wagenknecht, Coll. Symp. Ser. 2011, 12, 95-100.

Synthetic GFP Chromophore in DNA with Large Apparent Stokes Shift
U. Wenge, H.-A. Wagenknecht, Coll. Symp. Ser. 2011, 12, 491-493.

Benzophenone Modifired DNA for Photocatalysis
M. J. Weinberger, H.-A. Wagenknecht, Coll. Symp. Ser. 2011, 12, 489-490.

Functional Nucleic Acids
H.-A. Wagenknecht, Nachrichten Chem. 2010, 58, 305-309.

Oligonucleotide 2009
H.-A. Wagenknecht, Nachrichten Chem. 2009, 57, 272-273.

Vielbert-Symposium on Functional Nucleic Acids
H.-A. Wagenknecht, Nachrichten Chem. 2009, 57, 1237.

BODIPY-Modified Uridines as Potentional Fluorescent Probes for Nucleic Acids that are Recognized by DNA Polymerases
T. Ehrenschwender, C. Wanninger-Weiß, H.-A. Wagenknecht, Nucl. Acids Symp. Ser. 2008, 52, 349-350.

Fluorescent and Self-Assembled Helical Chromophore Arrays Based on DNA Architecture
D. Baumstark, S. Berndl, C. Wagner, E. Mayer-Enthart, J. Barbaric, H.-A. Wagenknecht, Coll. Symp. Ser. 2008, 10, 286-290.

Oligonucleotide 2007
H.-A. Wagenknecht
für den Jahresrückblick "Organische Chemie 2007", S. Bräse (Hrsg.)
Nachrichten Chem. 2008, 56, 293.

Oligonucleotide 2006
H.-A. Wagenknecht
für den Jahresrückblick "Organische Chemie 2006", S. Bräse (Hrsg.)
Nachrichten Chem. 2007, 55, 274-275.

Nucleoside, Nucleotide, Oligonucleotide 2005
H.-A. Wagenknecht
für den Jahresrückblick "Organische Chemie 2005", S. Bräse (Hrsg.)
Nachrichten Chem. 2006, 54, 245-246.

Electron Transfer Chemistry in Synthetically Modified DNA
H.-A. Wagenknecht, Coll. Symp. Ser. 2005, 7, 47-55.

Book review about : J. E. Khudyakov, H. A. Fields, Artificial DNA
H.-A. Wagenknecht, Prot. Sci. 2004, 13, 3331-3332.

Aus Fehlern lernen. Book review about: M. Alley, The Craft of Scientific Presentations
H.-A. Wagenknecht, Nachrichten Chem. 2004, 52, 358-359.

Bürgenstock 2003
B. Straub, H.-A. Wagenknecht, Nachrichten Chem. 2003, 51, 918-921.

Positionsbestimmung: Die Sicht des Chemikers auf die Biologie
H.-A. Wagenknecht, Nachrichten Chem. 2003, 51, 809.

11. Nachwuchswissenschaftler-Symposium Bioorganische Chemie
H.-A. Wagenknecht, Nachrichten Chem. 2003, 51, 61-64.

Die Protein-Abhängigkeit des DNA-übertragenen Ladungstransfers: Ein neues Werkzeug zur Untersuchung von DNA-Protein-Wechselwirkungen?
H.-A. Wagenknecht, BioForum 2001, 24, 843-846.