Lumiprobe citation list

Here is a list of research publications citing use of Lumiprobe products, sorted by product.

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1-Ethynyl pyrene

  1. Vega, B.; Wondraczek, H.; Bretschneider, L.; Näreoja, T.; Fardim, P.; Heinze, T. Preparation of reactive fibre interfaces using multifunctional cellulose derivatives. Carbohydrate Polymers, 2015, 132, 261–273. doi: 10.1016/j.carbpol.2015.05.048

Alkyne Phosphoramidite, 5'-terminal

  1. Farzan, V.M.; Kvach, M.V.; Aparin, I.O.; Kireev, D.E.; Prikazchikova, T.A.; Ustinov, A.V.; Shmanai, V.V.; Shipulin, G.A.; Korshun, V.A.; Zatsepin, T.S. Novel homo Yin-Yang probes improve sensitivity in RT-qPCR detection of low copy HIV RNA. Talanta, 2019, 194, 226–232. doi: 10.1016/j.talanta.2018.10.043
  2. Taskova, M.; Uhd, J.; Miotke, L.; Kubit, M.; Bell, J.; Ji, H.P.; Astakhova, K. Tandem Oligonucleotide Probe Annealing and Elongation To Discriminate Viral Sequence. Analytical Chemistry, 2017, 89(8), 4363–4366. doi: 10.1021/acs.analchem.7b00646
  3. Aparin, I.O.; Farzan, V.M.; Veselova, O.A.; Chistov, A.A.; Podkolzin, A.T.; Ustinov, A.V.; Shipulin, G.A.; Formanovsky, A.A.; Korshun, V.A.; Zatsepin, T.S. 1-Phenylethynylpyrene (PEPy) as a novel blue-emitting dye for qPCR assay. Analyst, 2016, 141, 1331–1338. doi: 10.1039/c5an01767j
  4. Astakhova, I.K.; Santhosh Kumar, T.; Campbell, M.A.; Ustinov, A.V.; Korshun, V.A.; Wengel, J. Branched DNA nanostructures efficiently stabilised and monitored by novel pyrene-perylene 2'-alpha-L-amino-LNA FRET pairs. Chemical Communications, 2013, 49(5), 511-511. doi: 10.1039/c2cc37547h

Amino-11-ddUTP

  1. Gaspar, I.; Wippich, F.; Ephrussi, A. Enzymatic production of single molecule FISH and RNA capture probes. RNA, 2017, 23(10), 1582–1591. doi: 10.1261/rna.061184.117

Ascorbic acid

  1. Taskova, M.; Uhd, J.; Miotke, L.; Kubit, M.; Bell, J.; Ji, H.P.; Astakhova, K. Tandem Oligonucleotide Probe Annealing and Elongation To Discriminate Viral Sequence. Analytical Chemistry, 2017, 89(8), 4363–4366. doi: 10.1021/acs.analchem.7b00646
  2. Samuelsen, S.V.; Maity, A.; Nybo, M.; Macaubas, C.; Lønstrup, L.; Balboni, I.M.; Mellins, E.D.; Astakhova, K. Novel Phospholipid-Protein Conjugates Allow Improved Detection of Antibodies in Patients with Autoimmune Diseases. PLoS One, 2016, 11(6), e0156125. doi: 10.1371/journal.pone.0156125
  3. Li, Z.; Liu, Z.; Chen, Z.; Ju, E.; Li, W.; Ren, J.; Qu, X. Bioorthogonal chemistry for selective recognition, separation and killing bacteria over mammalian cells. Chemical Communications, 2016, 52(17), 3482–3485. doi: 10.1039/c5cc10625g
  4. Maity, A.; Macaubas, C.; Mellins, E.; Astakhova, K. Synthesis of Phospholipid-Protein Conjugates as New Antigens for Autoimmune Antibodies. Molecules, 2015, 20(6), 10253–10263. doi: 10.3390/molecules200610253

Azidobutyric acid NHS ester

  1. Hou, W.; Li, Y.; Kang, W.; Wang, X.; Wu, X.; Wang, S.; Liu, F. Real-time analysis of quantum dot labeled single porcine epidemic diarrhea virus moving along the microtubules using single particle tracking. Scientific Reports, 2019, 9, 1307. doi: 10.1038/s41598-018-37789-9
  2. Kuznetsov, A.E.; Komarova, N.V.; Kuznetsov, E.V.; Andrianova, M.S.; Grudtsov, V.P.; Rybachek, E.N.; Puchnin, K.V.; Ryazantsev, D.V.; Saurov, A.N. Integration of a field effect transistor-based aptasensor under a hydrophobic membrane for bioelectronic nose applications. Biosensors and Bioelectronics, 2019, 129, 29–35. doi: 10.1016/j.bios.2019.01.013
  3. Kumar, P.; Kuhlmann, F.M.; Chakroborty, S.; Bourgeois, A.L.; Foulke-Abel, J.; Tumala, B.; Vickers, T.J.; Sack, D.A.; DeNearing, B.; Harro, C.D.; Wright, W.S.; Gildersleeve, J.C.; Ciorba, M.A.; Santhanam, S.; Porter, C.K.; Gutierrez, R.L.; Prouty, M.G.; Riddle, M.S.; Polino, A.; Sheikh, A.; Donowitz, M.; Fleckenstein, J.M. Enterotoxigenic Escherichia coli blood group A interactions intensify diarrheal severity. The Journal of Clinical Investigation, 2018, 128(8), 3298–3311. doi: 10.1172/JCI97659
  4. Andrianova, M.; Komarova, N.; Grudtsov, V.; Kuznetsov, E.; Kuznetsov, A. Amplified Detection of the Aptamer-Vanillin Complex with the Use of Bsm DNA Polymerase. Sensors, 2018, 18, 49. doi: 10.3390/s18010049
  5. Kuznetsov, A.; Komarova, N.; Andrianova, M.; Grudtsov, V.; Kuznetsov, E. Aptamer based vanillin sensor using an ion-sensitive field-effect transistor. Microchimica Acta, 2018, 185(1), 3. doi: 10.1007/s00604-017-2586-4
  6. Taskova, M.; Uhd, J.; Miotke, L.; Kubit, M.; Bell, J.; Ji, H.P.; Astakhova, K. Tandem Oligonucleotide Probe Annealing and Elongation To Discriminate Viral Sequence. Analytical Chemistry, 2017, 89(8), 4363–4366. doi: 10.1021/acs.analchem.7b00646
  7. Bu, J.; Pilo, A.L.; McLuckey, S.A. Gas Phase Click Chemistry via Ion/Ion Reactions. International Journal of Mass Spectrometry, 2015, 390, 118–123. doi: 10.1016/j.ijms.2015.05.010
  8. Potapova, I.; Eglin, D.; Laschke, M.W.; Bischoff, M.; Richards, R.G.; Moriarty, T.F. Two-step labeling of Staphylococcus aureus with Lysostaphin-Azide and DIBO-Alexa using click chemistry. Journal of Microbiological Methods, 2013, 92(1), 90-98. doi: 10.1016/j.mimet.2012.11.004

BDP 558/568 NHS ester

  1. Tabe, H.; Sukenobe, K.; Kondo, T.; Sakurai, A.; Maruo, M.; Shimauchi, A.; Hirano, M.; Uno, S.-N.; Kamiya, M.; Urano, Y.; Matsushita, M.; Fujiyoshi, S. Cryogenic Fluorescence Localization Microscopy of Spectrally Selected Individual FRET Pairs in a Water Matrix. The Journal of Physical Chemistry B, 2018, 122(27), 6906–6911. doi: 10.1021/acs.jpcb.8b03977

BDP 581/591 NHS ester

  1. Tabe, H.; Sukenobe, K.; Kondo, T.; Sakurai, A.; Maruo, M.; Shimauchi, A.; Hirano, M.; Uno, S.-N.; Kamiya, M.; Urano, Y.; Matsushita, M.; Fujiyoshi, S. Cryogenic Fluorescence Localization Microscopy of Spectrally Selected Individual FRET Pairs in a Water Matrix. The Journal of Physical Chemistry B, 2018, 122(27), 6906–6911. doi: 10.1021/acs.jpcb.8b03977

BDP 630/650 amine

  1. Zhang, Y.; Zhu, X.; Chen, X.; Chen, Q.; Zhou, W.; Guo, Q.; Lu, Y.; Li, C.; Zhang, Y.; Liang, D.; Sun, T.; Wei, X.; Jiang, C. Activated Platelets-Targeting Micelles with Controlled Drug Release for Effective Treatment of Primary and Metastatic Triple Negative Breast Cancer. Advanced Functional Materials, in press. doi: 10.1002/adfm.201806620
  2. Zhang, Y.; Guo, Z.; Cao, Z.; Zhou, W.; Zhang, Y.; Chen, Q.; Lu, Y.; Chen, X.; Guo, Q.; Li, C.; Liang, D.; Sun, T.; Jiang, C. Endogenous albumin-mediated delivery of redox-responsive paclitaxel-loaded micelles for targeted cancer therapy. Biomaterials, 2018, 183, 243–257. doi: 10.1016/j.biomaterials.2018.06.002

BDP 630/650 carboxylic acid

  1. Mitronova, G.Y.; Lukinavičius, G.; Butkevich, A.N.; Kohl, T.; Belov, V.N.; Lehnart, S.E.; Hell, S.W. High-Affinity Functional Fluorescent Ligands for Human β-Adrenoceptors. Scientific Reports, 2017, 7, 12319. doi: 10.1038/s41598-017-12468-3

BDP FL NHS ester

  1. Burla, F.; Tauber, J.; Dussi, S.; van der Gucht, J.; Koenderink, G.H. Stress management in composite biopolymer networks. Nature Physics, in press. doi: 10.1038/s41567-019-0443-6
  2. Reichart, F.; Maltsev, O.V.; Kapp, T.G.; Räder, A.F.B.; Weinmüller, M.; Marelli, U.K.; Notni, J.; Wurzer, A.; Beck, R.; Wester, H.-J.; Steiger, K.; Di Maro, S.; Di Leva, F.S.; Marinelli, L.; Nieberler, M.; Reuning, U.; Schwaiger, M.; Kessler, H. Selective Targeting of Integrin αvβ8 by a Highly Active Cyclic Peptide. Journal of Medicinal Chemistry, 2019, 62(4), 2024–2037. doi: 10.1021/acs.jmedchem.8b01588
  3. Alferova, V.A.; Shuvalov, M.V.; Suchkova, T.A.; Proskurin, G.V.; Aparin, I.O.; Rogozhin, E.A.; Novikov, R.A.; Solyev, P.N.; Chistov, A.A.; Ustinov, A.V.; Tyurin, A.P.; Korshun, V.A. 4-Chloro-L-kynurenine as fluorescent amino acid in natural peptides. Amino Acids, 2018, 50(12), 1697–1705. doi: 10.1007/s00726-018-2642-3
  4. Poreba, M.; Rut, W.; Vizovisek, M.; Groborz, K.; Kasperkiewicz, P.; Finlay, D.; Vuori, K.; Turk, D.; Turk, B.; Salvesen, G.; Drag, M. Selective imaging of human cathepsin L in breast cancer by fluorescent activity-based probes. Chemical Science, 2018, 9(8), 2113–2129. doi: 10.1039/C7SC04303A
  5. Grube, L.; Dellen, R.; Kruse, F.; Schwender, H.; Stuehler, K.; Poschmann, G. Mining the secretome of C2C12 muscle cells: Data dependent experimental approach to analyze protein secretion using label-free quantification and peptide based analysis. Journal of Proteome Research, 2018, 17(2), 879–890. doi: 10.1021/acs.jproteome.7b00684
  6. Wang, C.; Niederstrasser, H.; Douglas, P.M.; Lin, R.; Jaramillo, J.; Li, Y.; Olswald, N.W.; Zhou, A.; McMillan, E.A.; Mendiratta, S.; Wang, Z.; Zhao, T.; Lin, Z.; Luo, M.; Huang, G.; Brekken, R.A.; Posner, B.A.; MacMillan, J.B.; Gao, J.; White, M.A. Small-molecule TFEB pathway agonists that ameliorate metabolic syndrome in mice and extend C. elegans lifespan. Nature Communications, 2017, 8, 2270. doi: 10.1038/s41467-017-02332-3
  7. Gaspar, I.; Wippich, F.; Ephrussi, A. Enzymatic production of single molecule FISH and RNA capture probes. RNA, 2017, 23(10), 1582–1591. doi: 10.1261/rna.061184.117
  8. Perez-Anes, A.; Szarpak-Jankowska, A.; Jary, D.; Auzély-Velty, R. β-CD-Functionalized Microdevice for Rapid Capture and Release of Bacteria. ACS Applied Materials & Interfaces, 2017, 9(16), 13928–13938. doi: 10.1021/acsami.7b02194
  9. Löschmann, N.; Michaelis, M.; Rothweiler, F.; Voges, Y.; Balónová, B.; Blight, B.A.; Cinatl, J. ABCB1 as predominant resistance mechanism in cells with acquired SNS-032 resistance. Oncotarget, 2016, 7(36), 58051–58064. doi: 10.18632/oncotarget.11160
  10. Wang, C.; Wang, Y.; Li, Y.; Bodemann, B.; Zhao, T.; Ma, X.; Huang, G.; Hu, Z.; DeBerardinis, R.J.; White, M.A.; Gao, J. A nanobuffer reporter library for fine-scale imaging and perturbation of endocytic organelles. Nature Communications, 2015, 6, 8524. doi: 10.1038/ncomms9524

BDP FL alkyne

  1. Daryaee, F.; Zhang, Z.; Gogarty, K.R.; Li, Y.; Merino, J.; Fisher, S.L.; Tonge, P.J. A quantitative mechanistic PK/PD model directly connects Btk target engagement and in vivo efficacy. Chemical Science, 2017, 8(5), 3434–3443. doi: 10.1039/c6sc03306g
  2. Kubota, T.; Durek, T.; Dang, B.; Finol-Urdaneta, R.K.; Craik, D.J.; Kent, S.B.H.; French, R.J.; Bezanilla, F.; Correa, A.M. Mapping of voltage sensor positions in resting and inactivated mammalian sodium channels by LRET. Proceedings of the National Academy of Sciences of the U.S.A., 2017, 114(10), E1857–1865. doi: 10.1073/pnas.1700453114

BDP FL azide

  1. Nuhn, L.; Boli, E.; Massa, S.; Vandenberghe, I.; Movahedi, K.; Devreese, B.; Van Ginderachter, J.; De Geest, B.G. Targeting protumoral tumor-associated macrophages with nanobody-functionalized nanogels through SPAAC ligation. Bioconjugate Chemistry, 2018, 29(7), 2394–2405. doi: 10.1021/acs.bioconjchem.8b00319

BDP FL maleimide

  1. Doh, J.K.; White, J.D.; Zane, H.K.; Chang, Y.H.; López, C.S.; Enns, C.A.; Beatty, K.E. VIPER is a genetically encoded peptide tag for fluorescence and electron microscopy. Proceedings of the National Academy of Sciences of the United States of America, 2018, 115, 12961–12966. doi: 10.1073/pnas.1808626115
  2. Buecheler, J.W.; Winzer, M.; Tonillo, J.; Weber, C.A.; Gieseler, H. Impact of Payload Hydrophobicity on Stability of Antibody-Drug-Conjugates. Molecular Pharmaceutics, 2018, 15(7), 2656–2664. doi: 10.1021/acs.molpharmaceut.8b00177
  3. Mardirossian, M.; Pérébaskine, N.; Benincasa, M.; Gambato, S.; Hofmann, S.; Huter, P.; Müller, C.; Hilpert, K.; Innis, C.A.; Tossi, A.; Wilson, D.N. The Dolphin Proline-Rich Antimicrobial Peptide Tur1A Inhibits Protein Synthesis by Targeting the Bacterial Ribosome. Cell Chemical Biology, 2018, 25(5), 530–539.e7. doi: 10.1016/j.chembiol.2018.02.004

Biotin PEG3 azide

  1. Shen, Y.; Yang, S.; Hu, X.; Zhang, M.; Ma, X.; Wang, Z.; Hou, Y.; Bai, G. Natural product puerarin activates Akt and ameliorates glucose and lipid metabolism dysfunction in hepatic cells. Journal of Functional Foods, 2019, 55, 296–304. doi: 10.1016/j.jff.2019.02.035
  2. Wang, E.; Hunter, C.P. SID-1 Functions in Multiple Roles To Support Parental RNAi in Caenorhabditis elegans. Genetics, 2017, 207(2), 547–557. doi: 10.1534/genetics.117.300067
  3. Bruckman, M.A.; Czapar, A.E.; VanMeter, A.; Randolph, L.N.; Steinmetz, N.F. Tobacco mosaic virus-based protein nanoparticles and nanorods for chemotherapy delivery targeting breast cancer. Journal of Controlled Release, 2016, 231, 103–113. doi: 10.1016/j.jconrel.2016.02.045

Biotin alkyne

  1. Rink, W.M.; Thomas, F. Decoration of Coiled-Coil Peptides with N-Cysteine Peptide Thioesters As Cyclic Peptide Precursors Using Copper-Catalyzed Azide-Alkyne Cycloaddition (CuAAC) Click Reaction. Organic Letters, 2018, 20(23), 7493–7497. doi: 10.1021/acs.orglett.8b03261
  2. Cui, X.-Y.; Sun, N.-N.; Xie, X.-N.; Sun, W.-C.; Zhao, Q.; Liu, N. Detection of Newly Synthesized Proteins via Metabolic Incorporation of Non-natural Amino Acid. Chinese Journal of Analytical Chemistry, 2018, 46(11), 1808–1813. doi: 10.1016/s1872-2040(18)61125-9
  3. Ullrich, M.; Liang, V.; Chew, Y.L.; Banister, S.; Song, X.; Zaw, T.; Lam, H.; Berber, S.; Kassiou, M.; Nicholas, H.R. et al. Bio-orthogonal labeling as a tool to visualize and identify newly synthesized proteins in Caenorhabditis elegans. Nature Protocols, 2014, 9(9), 2237-2255. doi: 10.1038/nprot.2014.150

Copper(II)-TBTA complex, 10 mM in 55% aq. DMSO

  1. Reyes-Ruiz, J.M.; Osuna-Ramos, J.F.; Bautista-Carbajal, P.; Jaworski, E.; Soto-Acosta, R.; Cervantes-Salazar, M.; Angel-Ambrocio, A.H.; Castillo-Munguía, J.P.; Chávez-Munguía, B.; De Nova-Ocampo, M.; Routh, A.; del Ángel, R.M.; Salas-Benito, J.S. Mosquito cells persistently infected with dengue virus produce viral particles with host-dependent replication. Virology, 2019, 531, 1–18. doi: 10.1016/j.virol.2019.02.018
  2. Elrod, N.R.; Jaworski, E.A.; Ji, P.; Wagner, E.J.; Routh, A. Development of Poly(A)-ClickSeq as a Tool Enabling Simultaneous Genome-wide Poly(A)-site identification and Differential Expression Analysis. Methods, 2019, 155, 20–29. doi: 10.1016/j.ymeth.2019.01.002
  3. Kuznetsov, A.E.; Komarova, N.V.; Kuznetsov, E.V.; Andrianova, M.S.; Grudtsov, V.P.; Rybachek, E.N.; Puchnin, K.V.; Ryazantsev, D.V.; Saurov, A.N. Integration of a field effect transistor-based aptasensor under a hydrophobic membrane for bioelectronic nose applications. Biosensors and Bioelectronics, 2019, 129, 29–35. doi: 10.1016/j.bios.2019.01.013
  4. Domljanovic, I.; Hansen, A.H.; Hansen, L.H.; Klitgaard, J.K.; Taskova, M.; Astakhova, K. Studies of Impending Oligonucleotide Therapeutics in Simulated Biofluids. Nucleic Acid Therapeutics, 2018, 28(6), 348–356. doi: 10.1089/nat.2017.0704
  5. Schrand, B.; Clark, E.; Levay, A.; Capote, A.R.; Martinez, O.; Brenneman, R.; Castro, I.; Gilboa, E. Hapten-mediated recruitment of polyclonal antibodies to tumors engenders antitumor immunity. Nature Communications, 2018, 9, 3348. doi: 10.1038/s41467-018-05566-x
  6. Surya, S.L.; Long, M.J.C.; Urul, D.A.; Zhao, Y.; Mercer, E.J.; EIsaid, I.M.; Evans, T.; Aye, Y. Cardiovascular Small Heat Shock Protein HSPB7 Is a Kinetically Privileged Reactive Electrophilic Species (RES) Sensor. ACS Chemical Biology, 2018, 13(7), 1824–1831. doi: 10.1021/acschembio.7b00925
  7. Yang, J.; Jiang, Q.; He, L.; Zhan, P.; Liu, Q.; Liu, S.; Fu, M.; Liu, J.; Li, C.; Ding, B. Self-Assembled Double-Bundle DNA Tetrahedron for Efficient Antisense Delivery. ACS Applied Materials & Interfaces, 2018, 10(28), 23693–23699. doi: 10.1021/acsami.8b07889
  8. Long, M.J.C.; Urul, D.A.; Chawla, S.; Lin, H.-Y.; Zhao, Y.; Haegele, J.A.; Wang, Y.; Aye, Y. Precision Electrophile Tagging in Caenorhabditis elegans. Biochemistry, 2018, 57(2), 216–220. doi: 10.1021/acs.biochem.7b00642
  9. Andrianova, M.; Komarova, N.; Grudtsov, V.; Kuznetsov, E.; Kuznetsov, A. Amplified Detection of the Aptamer-Vanillin Complex with the Use of Bsm DNA Polymerase. Sensors, 2018, 18, 49. doi: 10.3390/s18010049
  10. Jaworski, E.; Routh, A. ClickSeq: Replacing Fragmentation and Enzymatic Ligation with Click-Chemistry to Prevent Sequence Chimeras. Methods in Molecular Biology, 2018, 1712, 71–85. doi: 10.1007/978-1-4939-7514-3_6
  11. Kuznetsov, A.; Komarova, N.; Andrianova, M.; Grudtsov, V.; Kuznetsov, E. Aptamer based vanillin sensor using an ion-sensitive field-effect transistor. Microchimica Acta, 2018, 185(1), 3. doi: 10.1007/s00604-017-2586-4
  12. Routh, A.; Ji, P.; Jaworski, E.; Xia, Z.; Li, W.; Wagner, E.J. Poly(A)-ClickSeq: click-chemistry for next-generation 3′-end sequencing without RNA enrichment or fragmentation. Nucleic Acids Research, 2017, 45(12), e112. doi: 10.1093/nar/gkx286
  13. Jaworski, E.; Routh, A. Parallel ClickSeq and Nanopore sequencing elucidates the rapid evolution of defective-interfering RNAs in Flock House virus. PLOS Pathogens, 2017, 13(5), e1006365. doi: 10.1371/journal.ppat.1006365
  14. Taskova, M.; Uhd, J.; Miotke, L.; Kubit, M.; Bell, J.; Ji, H.P.; Astakhova, K. Tandem Oligonucleotide Probe Annealing and Elongation To Discriminate Viral Sequence. Analytical Chemistry, 2017, 89(8), 4363–4366. doi: 10.1021/acs.analchem.7b00646
  15. Taskova, M.; Madsen, C.S.; Jensen, K.J.; Hansen, L.H.; Vester, B.; Astakhova, K. Antisense oligonucleotides internally labeled with peptides show improved target recognition and stability to enzymatic degradation. Bioconjugate Chemistry, 2017, 28(3), 768–774. doi: 10.1021/acs.bioconjchem.6b00567
  16. Long, M.J.C.; Parvez, S.; Zhao, Y.; Surya, S.L.; Wang, Y.; Zhang, S.; Aye, Y. Akt3 is a privileged first responder in isozyme-specific electrophile response. Nature Chemical Biology, 2017, 13(3), 333–338. doi: 10.1038/nchembio.2284
  17. Westergaard Mulberg, M.; Taskova, M.; Thomsen, R.P.; Okholm, A.H.; Kjems, J.; Astakhova, K. New Fluorescent Nanoparticles for Ultrasensitive Detection of Nucleic Acids by Optical Methods. Chembiochem, 2017, 18(16), 1599–1603. doi: 10.1002/cbic.201700125
  18. Shi, P.; Ju, E.; Yan, Z.; Gao, N.; Wang, J.; Hou, J.; Zhang, Y.; Ren, J.; Qu, X. Spatiotemporal control of cell-cell reversible interactions using molecular engineering. Nature communications, 2016, 7, 13088. doi: 10.1038/ncomms13088
  19. Samuelsen, S.V.; Maity, A.; Nybo, M.; Macaubas, C.; Lønstrup, L.; Balboni, I.M.; Mellins, E.D.; Astakhova, K. Novel Phospholipid-Protein Conjugates Allow Improved Detection of Antibodies in Patients with Autoimmune Diseases. PLoS One, 2016, 11(6), e0156125. doi: 10.1371/journal.pone.0156125
  20. Seo, K.-H.; Chu, H.-S.; Yoo, T.H.; Lee, S.-G.; Won, J.-I. Separation efficiency of free-solution conjugated electrophoresis with drag-tags incorporating a synthetic amino acid. Electrophoresis, 2016, 37(5–6), 818–825. doi: 10.1002/elps.201500506
  21. Li, Z.; Liu, Z.; Chen, Z.; Ju, E.; Li, W.; Ren, J.; Qu, X. Bioorthogonal chemistry for selective recognition, separation and killing bacteria over mammalian cells. Chemical Communications, 2016, 52(17), 3482–3485. doi: 10.1039/c5cc10625g
  22. Maity, A.; Macaubas, C.; Mellins, E.; Astakhova, K. Synthesis of Phospholipid-Protein Conjugates as New Antigens for Autoimmune Antibodies. Molecules, 2015, 20(6), 10253–10263. doi: 10.3390/molecules200610253
  23. Abel, G.R.; Cao, B.H.; Hein, J.E.; Ye, T. Covalent, sequence-specific attachment of long {DNA} molecules to a surface using DNA-templated click chemistry. Chemical Communications, 2014, 50(60), 8131–8133. doi: 10.1039/c4cc02900c
  24. Stuart, C.H.; Horita, D.A.; Thomas, M.J.; Salsbury, F.R.; Lively, M.O.; Gmeiner, W.H. Site-Specific DNA-Doxorubicin Conjugates Display Enhanced Cytotoxicity to Breast Cancer Cells. Bioconjugate Chemistry, 2014, 25(2), 406-413. doi: 10.1021/bc4005427
  25. Myung, J.-K.; Banuelos, C.A.; Fernandez, J.G.; Mawji, N.R.; Wang, J.; Tien, A.H.; Yang, Y.C.; Tavakoli, I.; Haile, S.; Watt, K.; McEwan, I.J.; Plymate, S.; Andersen, R.J.; Sadar, M.D. An androgen receptor N-terminal domain antagonist for treating prostate cancer. Journal of Clinical Investigation, 2013, 123(7), 2948–2960. doi: 10.1172/jci66398
  26. Astakhova, I.K.; Hansen, L.H.; Vester, B.; Wengel, J. Peptide-LNA oligonucleotide conjugates. Organic & Biomolecular Chemistry, 2013, 11(25), 4240-4240. doi: 10.1039/c3ob40786a
  27. Lu, X.; Song, C.-X.; Szulwach, K.; Wang, Z.; Weidenbacher, P.; Jin, P.; He, C. Chemical Modification-Assisted Bisulfite Sequencing (CAB-Seq) for 5-Carboxylcytosine Detection in DNA. Journal of the American Chemical Society, 2013, 135(25), 9315-9317. doi: 10.1021/ja4044856
  28. Kovacic, S.; Samii, L.; Woolfson, D.N.; Curmi, P.M.G.; Linke, H.; Forde, N.R.; Blab, G.A. Design and Construction of a One-Dimensional DNA Track for an Artificial Molecular Motor. Journal of Nanomaterials, 2012, 2012, ID-ID 109238. doi: 10.1155/2012/109238
  29. Meimetis, L.G.; Williams, D.E.; Mawji, N.R.; Banuelos, C.A.; Lal, A.A.; Park, J.J.; Tien, A.H.; Fernandez, J.G.; de Voogd, N.J.; Sadar, M.D. et al. Niphatenones, Glycerol Ethers from the Sponge Niphates digitalis Block Androgen Receptor Transcriptional Activity in Prostate Cancer Cells: Structure Elucidation, Synthesis, and Biological Activity . Journal of Medicinal Chemistry, 2012, 55(1), 503-514. doi: 10.1021/jm2014056

Coumarin 343 X NHS ester

  1. Zheng, L.; Zhao, H.; Han, Y.; Qian, H.; Vukovic, L.; Mecinović, J.; Král, P.; Huck, W.T.S. Catalytic transport of molecular cargo using diffusive binding along a polymer track. Nature Chemistry, in press. doi: 10.1038/s41557-018-0204-7

Coumarin 343 azide

  1. Musiol-Kroll, E.M.; Zubeil, F.; Schafhauser, T.; Härtner, T.; Kulik, A.; McArthur, J.B.; Koryakina, I.; Wohlleben, W.; Grond, S.; Williams, G.J.; Lee, S.Y.; Weber, T. Polyketide bio-derivatization using the promiscuous acyltransferase KirCII. ACS Synthetic Biology, 2017, 6(3), 421–427. doi: 10.1021/acssynbio.6b00341
  2. Teske, N.S.; Voigt, J.; Shastri, V.P. Clickable Degradable Aliphatic Polyesters via Copolymerization with Alkyne Epoxy Esters: Synthesis and Postfunctionalization with Organic Dyes. Journal of the American Chemical Society, 2014, 136(29), 10527-10533. doi: 10.1021/ja505629w

Cyanine2 NHS ester minimal dye

  1. Laberge, A.; Ayoub, A.; Arif, S.; Larochelle, S.; Garnier, A.; Moulin, V.J. α-2-Macroglobulin induces the shedding of microvesicles from cutaneous wound myofibroblasts. Journal of Cellular Physiology, 2019, 234(7), 11369–11379. doi: 10.1002/jcp.27794
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Cyanine3 NHS ester

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Cyanine3 NHS ester minimal dye

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Cyanine3 alkyne

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Cyanine3 amine

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Cyanine3 azide

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Cyanine3 carboxylic acid

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Cyanine3 hydrazide

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Cyanine3 maleimide

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Cyanine3.5 NHS ester

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Cyanine3.5 azide

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Cyanine3.5 carboxylic acid

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Cyanine5 NHS ester

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Cyanine5 NHS ester minimal dye

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Cyanine5 alkyne

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Cyanine5 amine

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Cyanine5 azide

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Cyanine5 hydrazide

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Cyanine5.5 alkyne

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Cyanine5.5 amine

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Cyanine5.5 azide

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Cyanine5.5 carboxylic acid

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Cyanine5.5 hydrazide

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Cyanine5.5 maleimide

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Cyanine7 NHS ester

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Cyanine7 alkyne

  1. Tang, H.; Zhang, J.; Tang, J.; Shen, Y.; Guo, W.; Zhou, M.; Wang, R.; Jiang, N.; Gan, Z.; Yu, Q. Tumor specific and renal excretable star-like tri-block polymer-doxorubicin conjugates for safe and efficient anticancer therapy. Biomacromolecules, 2018, 19(7), 2849–2862. doi: 10.1021/acs.biomac.8b00425
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  3. Zhang, L.; Thurber, G.M. Quantitative Impact of Plasma Clearance and Down-regulation on GLP-1 Receptor Molecular Imaging. Molecular Imaging and Biology, 2016, 18(1), 79–89. doi: 10.1007/s11307-015-0880-2

Cyanine7 amine

  1. Nuhn, L.; De Koker, S.; Van Lint, S.; Zhong, Z.; Catani, J.P.; Combes, F.; Deswarte, K.; Li, Y.; Lambrecht, B.N.; Lienenklaus, S.; Sanders, N.N.; David, S.A.; Tavernier, J.; De Geest, B.G. Nanoparticle-Conjugate TLR7/8 Agonist Localized Immunotherapy Provokes Safe Antitumoral Responses. Advanced Materials, 2018, 30(45), e1803397. doi: 10.1002/adma.201803397
  2. Joo, J.; Poon, C.; Yoo, S.P.; Chung, E.J. Shape Effects of Peptide Amphiphile Micelles for Targeting Monocytes. Molecules, 2018, 23(11), 2786. doi: 10.3390/molecules23112786
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  4. Segura-Ibarra, V.; Cara, F.E.; Wu, S.; Iruegas-Nunez, D.A.; Wang, S.; Ferrari, M.; Ziemys, A.; Valderrabano, M.; Blanco, E. Nanoparticles administered intrapericardially enhance payload myocardial distribution and retention. Journal of Controlled Release, 2017, 262, 18–27. doi: 10.1016/j.jconrel.2017.07.012
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Cyanine7 azide

  1. Meka, R.R.; Venkatesha, S.H.; Moudgil, K.D. Peptide-directed liposomal delivery improves the therapeutic index of an immunomodulatory cytokine in controlling autoimmune arthritis. Journal of Controlled Release, 2018, 286, 279–288. doi: 10.1016/j.jconrel.2018.08.007
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Cyanine7 carboxylic acid

  1. Yang, C.; Liu, D.; Renny, A.; Kuttipillai, P.S.; Lunt, R.R. Integration of near-infrared harvesting transparent luminescent solar concentrators onto arbitrary surfaces. Journal of Luminescence, 2019, 210, 239–246. doi: 10.1016/j.jlumin.2019.02.042
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Cyanine7 maleimide

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Cyanine7.5 NHS ester

  1. Näkki, S.; Wang, J.T.-W.; Wu, J.; Fan, L.; Rantanen, J.; Nissinen, T.; Kettunen, M.I.; Backholm, M.; Ras, R.H.A.; Al-Jamal, K.T.; Lehto, V.-P.; Xu, W. Designed inorganic porous nanovector with controlled release and MRI features for safe administration of doxorubicin. International Journal of Pharmaceutics, 2019, 554, 327–336. doi: 10.1016/j.ijpharm.2018.10.074
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Cyanine7.5 amine

  1. Hauser-Kawaguchi, A.; Milne, M.; Li, F.; Lee, T.Y.; Luyt, L.G. The development of a near infrared inulin optical probe for measuring glomerular filtration rate. International Journal of Biological Macromolecules, 2019, 123, 255–260. doi: 10.1016/j.ijbiomac.2018.11.034
  2. Li, Y.; Xiao, Y.; Lin, H.-P.; Reichel, D.; Bae, Y.; Lee, E.Y.; Jiang, Y.; Huang, X.; Yang, C.; Wang, Z. In vivo β-catenin attenuation by the integrin α5-targeting nano-delivery strategy suppresses triple negative breast cancer stemness and metastasis. Biomaterials, 2019, 188, 160–172. doi: 10.1016/j.biomaterials.2018.10.019
  3. Gurnani, Pratik and Sanchez-Cano, C.; Abraham, K.; Xandri-Monje, H.; Cook, A.B.; Hartlieb, M.; Lévi, F.; Dallmann, R.; Perrier, S. RAFT Emulsion Polymerization as a Platform to Generate Well-Defined Biocompatible Latex Nanoparticles. Macromolecular Bioscience, 2018, 18(10), e1800213. doi: 10.1002/mabi.201800213
  4. Tabe, H.; Sukenobe, K.; Kondo, T.; Sakurai, A.; Maruo, M.; Shimauchi, A.; Hirano, M.; Uno, S.-N.; Kamiya, M.; Urano, Y.; Matsushita, M.; Fujiyoshi, S. Cryogenic Fluorescence Localization Microscopy of Spectrally Selected Individual FRET Pairs in a Water Matrix. The Journal of Physical Chemistry B, 2018, 122(27), 6906–6911. doi: 10.1021/acs.jpcb.8b03977
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Cyanine7.5 azide

  1. Kong, J.-N.; Zhu, Z.; Itokazu, Y.; Wang, G.; Dinkins, M.B.; Zhong, L.; Lin, H.-P.; Elsherbini, A.; Leanhart, S.; Jiang, X.; Qin, H.; Zhi, W.; Spassieva, S.D.; Bieberich, E. Novel function of ceramide for regulation of mitochondrial ATP release in astrocytes. Journal of Lipid Research, 2018, 59(3), 488–506. doi: 10.1194/jlr.M081877
  2. van der Steen, S.C.H.A.; Raavé, R.; Langerak, S.; van Houdt, L.; van Duijnhoven, S.M.J.; van Lith, S.A.M.; Massuger, L.F.A.G.; Daamen, W.F.; Leenders, W.P.; van Kuppevelt, T.H. Targeting the extracellular matrix of ovarian cancer using functionalized, drug loaded lyophilisomes. European Journal of Pharmaceutics and Biopharmaceutics, 2017, 113, 229–239. doi: 10.1016/j.ejpb.2016.12.010
  3. Junker, M.; Rapoport, T.A. Involvement of VAT-1 in phosphatidylserine transfer from the endoplasmic reticulum to mitochondria. Traffic, 2015, 16(12), 1306–1317. doi: 10.1111/tra.12336

Cyanine7.5 carboxylic acid

  1. Howard, G.P.; Verma, G.; Ke, X.; Thayer, W.M.; Hamerly, T.; Baxter, V.K.; Lee, J.E.; Dinglasan, R.R.; Mao, H.-Q. Critical size limit of biodegradable nanoparticles for enhanced lymph node trafficking and paracortex penetration. Nano Research, in press. doi: 10.1007/s12274-019-2301-3
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  3. Nunes, R.; Araújo, F.; Tavares, J.; Sarmento, B.; das Neves, J. Surface modification with polyethylene glycol enhances colorectal distribution and retention of nanoparticles. European Journal of Pharmaceutics and Biopharmaceutics, 2018, 130, 200–206. doi: 10.1016/j.ejpb.2018.06.029
  4. Roberts, S.; Andreou, C.; Choi, C.; Donabedian, P.; Jayaraman, M.; Pratt, E.C.; Tang, J.; Pérez-Medina, C.; de la Cruz, M.J.; Mulder, W.J.M.; Grimm, J.; Kircher, M.; Reiner, T. Sonophore-enhanced nanoemulsions for optoacoustic imaging of cancer. Chemical Science, 2018, 9(25), 5646–5657. doi: 10.1039/C8SC01706A
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  7. Ravar, F.; Saadat, E.; Gholami, M.; Dehghankelishady, P.; Mahdavi, M.; Azami, S.; Dorkoosh, F.A. Hyaluronic acid-coated liposomes for targeted delivery of paclitaxel, in-vitro characterization and in-vivo evaluation. Journal of Controlled Release, 2016, 229, 10–22. doi: 10.1016/j.jconrel.2016.03.012
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  9. Rodell, C.B.; Rai, R.; Faubel, S.; Burdick, J.A.; Soranno, D.E. Local Immunotherapy via Delivery of Interleukin-10 and Transforming Growth Factor β Antagonist for Treatment of Chronic Kidney Disease. Journal of Controlled Release, 2015, 206, 131–139. doi: 10.1016/j.jconrel.2015.03.025
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Cyanine7.5 hydrazide

  1. Liu, S.; Dozois, M.D.; Chang, C.N.; Ahmad, A.; Ng, D.L.T.; Hileeto, D.; Liang, H.; Reyad, M.-M.; Boyd, S.; Jones, L.W.; Gu, F.X. Prolonged Ocular Retention of Mucoadhesive Nanoparticle Eye Drop Formulation Enables Treatment of Eye Diseases Using Significantly Reduced Dosage. Molecular Pharmaceutics, 2016, 13(9), 2897–2905. doi: 10.1021/acs.molpharmaceut.6b00445

Cyanine7.5 maleimide

  1. Men, Y.; Peng, S.; Yang, P.; Jiang, Q.; Zhang, Y.; Shen, B.; Dong, P.; Pang, Z.; Yang, W. Biodegradable Zwitterionic Nanogels with Long Circulation for Antitumor Drug Delivery. ACS Applied Materials & Interfaces, 2018, 10(28), 23509–23521. doi: 10.1021/acsami.8b03943

DMF (dimethylformamide), labeling grade

  1. Gu, R.; Oweida, T.; Yingling, Y.G.; Chilkoti, A.; Zauscher, S. Enzymatic synthesis of nucleobase-modified single-stranded DNA offers tunable resistance to nuclease degradation. Biomacromolecules, 2018, 19(8), 3525–3535. doi: 10.1021/acs.biomac.8b00816

DMS(O)MT aminolink C6

  1. Aparin, I.O.; Farzan, V.M.; Veselova, O.A.; Chistov, A.A.; Podkolzin, A.T.; Ustinov, A.V.; Shipulin, G.A.; Formanovsky, A.A.; Korshun, V.A.; Zatsepin, T.S. 1-Phenylethynylpyrene (PEPy) as a novel blue-emitting dye for qPCR assay. Analyst, 2016, 141, 1331–1338. doi: 10.1039/c5an01767j

EdU (5-ethynyl-2'-deoxyuridine)

  1. Hernandez-Segura, A.; Brandenburg, S.; Demaria, M. Induction and Validation of Cellular Senescence in Primary Human Cells. Journal of Visualized Experiments, 2018, 136, e57782. doi: 10.3791/57782

FAM NHS ester, 6-isomer

  1. Evans, L.E.; Jones, K.; Cheeseman, M.D. Targeting secondary protein complexes in drug discovery: studying the druggability and chemical biology of the HSP70/BAG1 complex. Chemical Communications, 2017, 53(37), 5167–5170. doi: 10.1039/c7cc01376k
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  3. Horning, D.P.; Joyce, G.F. Amplification of RNA by an RNA polymerase ribozyme. Proceedings of the National Academy of Sciences of the United States of America, 2016, 113(35), 9786–9791. doi: 10.1073/pnas.1610103113

FAM Phosphoramidite, 6-Isomer

  1. Zhou, Z.; Liu, S.; Zhang, Y.; Yang, X.; Ma, Y.; Guan, Z.; Wu, Y.; Zhang, L.; Yang, Z. Reductive nanocomplex encapsulation of cRGD-siRNA conjugates for enhanced targeting to cancer cells. International Journal of Nanomedicine, 2017, 12, 7255–7272. doi: 10.2147/ijn.S136726

FAM alkyne, 5-isomer

  1. Rojas-Sánchez, L.; Sokolova, V.; Riebe, S.; Voskuhl, J.; Epple, M. Covalent Surface Functionalization of Calcium Phosphate Nanoparticles with Fluorescent Dyes by Copper-Catalysed and by Strain-Promoted Azide-Alkyne Click Chemistry. ChemNanoMat, in press. doi: 10.1002/cnma.201800509
  2. Ganapathy, U.S.; Bai, L.; Wei, L.; Eckartt, K.A.; Lett, C.M.; Previti, M.L.; Carrico, I.S.; Seeliger, J.C. Compartment-Specific Labeling of Bacterial Periplasmic Proteins by Peroxidase-Mediated Biotinylation. ACS Infectious Diseases, 2018, 4(6), 918–925. doi: 10.1021/acsinfecdis.8b00044
  3. Stadler, D.; Siribbal, S.M.; Gessner, I.; Öz, S.; Ilyas, S.; Mathur, S. Asymmetric attachment and functionalization of plasmonic nanoparticles on ceramic interfaces. Journal of Nanostructure in Chemistry, 2018, 8(1), 33–44. doi: 10.1007/s40097-018-0252-y
  4. Shi, P.; Ju, E.; Yan, Z.; Gao, N.; Wang, J.; Hou, J.; Zhang, Y.; Ren, J.; Qu, X. Spatiotemporal control of cell-cell reversible interactions using molecular engineering. Nature communications, 2016, 7, 13088. doi: 10.1038/ncomms13088
  5. Lu, X.; Jia, F.; Tan, X.; Wang, D.; Cao, X.; Zheng, J.; Zhang, K. Effective Antisense Gene Regulation via Noncationic, Polyethylene Glycol Brushes. Journal of the American Chemical Society, 2016, 138(29), 9097–9100. doi: 10.1021/jacs.6b05787
  6. Ilnitskaya, E.V.; Kononevich, Y.N.; Muzafarov, A.M.; Rzhevskiy, S.A.; Shadrin, I.A.; Babaev, E.V.; Martynov, V.I.; Pakhomov, A.A. Preparation and application of a BODIPY-labeled probe for a real-time polymerase chain reaction. Russian Journal of Bioorganic Chemistry, 2015, 41(4), 451–453. doi: 10.1134/S1068162015040068

FAM alkyne, 6-isomer

  1. Machado, Y.; Duinkerken, S.; Hoepflinger, V.; Mayr, M.; Korotchenko, E.; Kurtaj, A.; Pablos, I.; Steiner, M.; Stoecklinger, A.; Lübbers, J.; Schmid, M.; Ritter, U.; Scheiblhofer, S.; Ablinger, M.; Wally, V.; Hochmann, S.; Raninger, A.M.; Strunk, D.; van Kooyk, Y.; Thalhamer, J.; Weiss, R. Synergistic effects of dendritic cell targeting and laser-microporation on enhancing epicutaneous skin vaccination efficacy. Journal of Controlled Release, 2017, 266, 87–99. doi: 10.1016/j.jconrel.2017.09.020
  2. Shi, P.; Ju, E.; Yan, Z.; Gao, N.; Wang, J.; Hou, J.; Zhang, Y.; Ren, J.; Qu, X. Spatiotemporal control of cell-cell reversible interactions using molecular engineering. Nature communications, 2016, 7, 13088. doi: 10.1038/ncomms13088

FAM azide, 5-isomer

  1. Haider, N.; Dutt, P.; van de Kooij, B.; Yaffe, M.B.; Stambolic, V. NEK10 tyrosine phosphorylates p53 and controls its transcriptional activity. bioRxiv, preprint. doi: 10.1101/516971
  2. Feltes, M.; Moores, S.; Gale, S.E.; Krishnan, K.; Mydock-McGrane, L.; Covey, D.F.; Ory, D.S.; Schaffer, J.E. Synthesis and characterization of diazirine alkyne probes for the study of intracellular cholesterol trafficking. Journal of Lipid Research, 2019, 60(3), 707–716. doi: 10.1194/jlr.D091470
  3. Delasoie, J.; Rossier, J.; Haeni, L.; Rothen-Rutishauser, B.; Zobi, F. Slow-targeted release of a ruthenium anticancer agent from vitamin B12 functionalized marine diatom microalgae. Dalton Transactions, 2018, 47(48), 17221–17232. doi: 10.1039/c8dt02914h
  4. Ta, D.T.; Vanella, R.; Nash, M.A. Bioorthogonal Elastin-like Polypeptide Scaffolds for Immunoassay Enhancement. ACS Applied Materials & Interfaces, 2018, 10(36), 30147–30154. doi: 10.1021/acsami.8b10092
  5. Dutta, D.; Lai, K.-Y.; Reyes-Ordoñez, A.; Chen, J.; van der Donk, W.A. Lanthionine synthetase C-like protein 2 (LanCL2) is Important for Adipogenic Differentiation. Journal of Lipid Research, 2018, 59(8), 1433–1445. doi: 10.1194/jlr.M085274
  6. Ganapathy, U.S.; Bai, L.; Wei, L.; Eckartt, K.A.; Lett, C.M.; Previti, M.L.; Carrico, I.S.; Seeliger, J.C. Compartment-Specific Labeling of Bacterial Periplasmic Proteins by Peroxidase-Mediated Biotinylation. ACS Infectious Diseases, 2018, 4(6), 918–925. doi: 10.1021/acsinfecdis.8b00044
  7. Su, H.; Liu, Z.; Liu, Y.; Ma, V.P.-Y.; Blanchard, A.; Zhao, J.; Galior, K.; Dyer, R.B.; Salaita, K. Light-Responsive Polymer Particles as Force Clamps for the Mechanical Unfolding of Target Molecules. Nano Letters, 2018, 18(4), 2630–2636. doi: 10.1021/acs.nanolett.8b00459
  8. Long, M.J.C.; Urul, D.A.; Chawla, S.; Lin, H.-Y.; Zhao, Y.; Haegele, J.A.; Wang, Y.; Aye, Y. Precision Electrophile Tagging in Caenorhabditis elegans. Biochemistry, 2018, 57(2), 216–220. doi: 10.1021/acs.biochem.7b00642
  9. Penn, C.; Yang, K.; Zong, H.; Lim, J.-Y.; Cole, A.; Yang, D.; Baker, J.; Goonewardena, S.N.; Buckanovich, R.J. Therapeutic Impact of Nanoparticle Therapy Targeting Tumor Associated Macrophages. Molecular Cancer Therapeutics, 2018, 17(1), 96–106. doi: 10.1158/1535-7163.MCT-17-0688
  10. Fatona, A.; Berry, R.M.; Brook, M.A.; Moran-Mirabal, J.M. Versatile Surface Modification of Cellulose Fibres and Cellulose Nanocrystals through Modular Triazinyl Chemistry. Chemistry of Materials, 2018, 30(7), 2424–2435. doi: 10.1021/acs.chemmater.8b00511
  11. Pink, M.; Verma, N.; Zerries, A.; Schmitz-Spanke, S. Dose-dependent response to 3-nitrobenzanthrone exposure in human urothelial cancer cells. Chemical Research in Toxicology, 2017, 30(10), 1855–1864. doi: 10.1021/acs.chemrestox.7b00174
  12. Guttenplan, A.P.M.; Young, L.J.; Matak-Vinkovic, D.; Kaminski, C.F.; Knowles, T.P.J.; Itzhaki, L.S. Nanoscale click-reactive scaffolds from peptide self-assembly. Journal of Nanobiotechnology, 2017, 15, 70. doi: 10.1186/s12951-017-0300-7
  13. Ruhl, K.E; Rovis, T. Visible Light-Gated Cobalt Catalysis for a Spatially and Temporally Resolved [2+2+2] Cycloaddition. Journal of the American Chemical Society, 2016, 138(48), 15527–15530. doi: 10.1021/jacs.6b08792
  14. Berte, N.; Piee-Staffa, A.; Piecha, N.; Wang, M.; Borgmann, K.; Kaina, B.; Nikolova, T. Targeting homologous recombination by pharmacological inhibitors enhances the killing response of glioblastoma cells treated with alkylating drugs. Molecular Cancer Therapeutics, 2016, 15(11), 2665–2678. doi: 10.1158/1535-7163.mct-16-0176
  15. Ngo, J.T.; Adams, S.R.; Deerinck, T.J.; Boassa, D.; Rodriguez-Rivera, F.; Palida, S.F.; Bertozzi, C.R.; Ellisman, M.H.; Tsien, R.Y. Click-EM for imaging metabolically tagged nonprotein biomolecules. Nature Chemical Biology, 2016, 12(6), 459–465. doi: 10.1038/nchembio.2076
  16. Li, Z.; Liu, Z.; Chen, Z.; Ju, E.; Li, W.; Ren, J.; Qu, X. Bioorthogonal chemistry for selective recognition, separation and killing bacteria over mammalian cells. Chemical Communications, 2016, 52(17), 3482–3485. doi: 10.1039/c5cc10625g

FAM azide, 6-isomer

  1. Haider, N.; Dutt, P.; van de Kooij, B.; Yaffe, M.B.; Stambolic, V. NEK10 tyrosine phosphorylates p53 and controls its transcriptional activity. bioRxiv, preprint. doi: 10.1101/516971
  2. Feltes, M.; Moores, S.; Gale, S.E.; Krishnan, K.; Mydock-McGrane, L.; Covey, D.F.; Ory, D.S.; Schaffer, J.E. Synthesis and characterization of diazirine alkyne probes for the study of intracellular cholesterol trafficking. Journal of Lipid Research, 2019, 60(3), 707–716. doi: 10.1194/jlr.D091470
  3. Ruhl, K.E; Rovis, T. Visible Light-Gated Cobalt Catalysis for a Spatially and Temporally Resolved [2+2+2] Cycloaddition. Journal of the American Chemical Society, 2016, 138(48), 15527–15530. doi: 10.1021/jacs.6b08792
  4. Berte, N.; Piee-Staffa, A.; Piecha, N.; Wang, M.; Borgmann, K.; Kaina, B.; Nikolova, T. Targeting homologous recombination by pharmacological inhibitors enhances the killing response of glioblastoma cells treated with alkylating drugs. Molecular Cancer Therapeutics, 2016, 15(11), 2665–2678. doi: 10.1158/1535-7163.mct-16-0176
  5. Ngo, J.T.; Adams, S.R.; Deerinck, T.J.; Boassa, D.; Rodriguez-Rivera, F.; Palida, S.F.; Bertozzi, C.R.; Ellisman, M.H.; Tsien, R.Y. Click-EM for imaging metabolically tagged nonprotein biomolecules. Nature Chemical Biology, 2016, 12(6), 459–465. doi: 10.1038/nchembio.2076
  6. Kryvalap, Y.; Lo, C.-W.; Manuylova, E.; Baldzizhar, R.; Jospe, N.; Czyzyk, J. Antibody Response to Serpin B13 Induces Adaptive Changes in Mouse Pancreatic Islets and Slows Down the Decline in the Residual Beta Cell Function in Children with Recent Onset of Type 1 Diabetes Mellitus. Journal of Biological Chemistry, 2016, 291(1), 266–278. doi: 10.1074/jbc.M115.687848

FAM maleimide, 6-isomer

  1. Yu, C.; Tang, J.; Loredo, A.; Chen, Y.; Jung, S.Y.; Jain, A.; Gordon, A.; Xiao, H. Proximity-Induced Site-Specific Antibody Conjugation. Bioconjugate Chemistry, 2018, 29(11), 3522–3526. doi: 10.1021/acs.bioconjchem.8b00680

JOE azide, 5- isomer

  1. Nåbo, L.J.; Madsen, C.S.; Jensen, K.J.; Kongsted, J.; Astakhova, K. Ultramild Protein-Mediated Click Chemistry Creates Efficient Oligonucleotide Probes for Targeting and Detecting Nucleic Acids. ChemBioChem, 2015, 16(8), 1163–1167. doi: 10.1002/cbic.201500145

Pentynoic acid STP ester

  1. Samuelsen, S.V.; Maity, A.; Nybo, M.; Macaubas, C.; Lønstrup, L.; Balboni, I.M.; Mellins, E.D.; Astakhova, K. Novel Phospholipid-Protein Conjugates Allow Improved Detection of Antibodies in Patients with Autoimmune Diseases. PLoS One, 2016, 11(6), e0156125. doi: 10.1371/journal.pone.0156125
  2. Maity, A.; Macaubas, C.; Mellins, E.; Astakhova, K. Synthesis of Phospholipid-Protein Conjugates as New Antigens for Autoimmune Antibodies. Molecules, 2015, 20(6), 10253–10263. doi: 10.3390/molecules200610253

Perylene azide

  1. Westergaard Mulberg, M.; Taskova, M.; Thomsen, R.P.; Okholm, A.H.; Kjems, J.; Astakhova, K. New Fluorescent Nanoparticles for Ultrasensitive Detection of Nucleic Acids by Optical Methods. Chembiochem, 2017, 18(16), 1599–1603. doi: 10.1002/cbic.201700125
  2. Okholm, A.; Kjems, J.; Astakhova, K. Fluorescence detection of natural RNA using rationally designed "clickable" oligonucleotide probes. RSC Advances, 2014, 4(86), 45653–45656. doi: 10.1039/c4ra07165d

Pico488 dsDNA quantification reagent, 200x solution in DMSO

  1. Norred, S.E.; Dabbs, R.M.; Chauhan, G.; Caveney, P.M.; Collier, C.P.; Abel, S.M.; Simpson, M.L. Synergistic interactions between confinement and macromolecular crowding spatially order transcription and translation in cell-free expression. bioRxiv, preprint. doi: 10.1101/445544

Pyrene azide 2

  1. Wanat, P.; Walczak, S.; Wojtczak, B.A.; Nowakowska, M.; Jemielity, J.; Kowalska, J. Ethynyl, 2-Propynyl, and 3-Butynyl C-Phosphonate Analogues of Nucleoside Di- and Triphosphates: Synthesis and Reactivity in CuAAC. Organic Letters, 2015, 17(12), 3062–3065. doi: 10.1021/acs.orglett.5b01346

R110 azide, 5- isomer

  1. Nåbo, L.J.; Madsen, C.S.; Jensen, K.J.; Kongsted, J.; Astakhova, K. Ultramild Protein-Mediated Click Chemistry Creates Efficient Oligonucleotide Probes for Targeting and Detecting Nucleic Acids. ChemBioChem, 2015, 16(8), 1163–1167. doi: 10.1002/cbic.201500145
  2. Shieh, P.; Siegrist, M.S.; Cullen, A.J.; Bertozzi, C.R. Imaging bacterial peptidoglycan with near-infrared fluorogenic azide probes. Proceedings of the National Academy of Sciences of the U.S.A., 2014, 111(15), 5456–5461. doi: 10.1073/pnas.1322727111
  3. Okholm, A.; Kjems, J.; Astakhova, K. Fluorescence detection of natural RNA using rationally designed "clickable" oligonucleotide probes. RSC Advances, 2014, 4(86), 45653–45656. doi: 10.1039/c4ra07165d

R110 azide, 6- isomer

  1. Shieh, P.; Siegrist, M.S.; Cullen, A.J.; Bertozzi, C.R. Imaging bacterial peptidoglycan with near-infrared fluorogenic azide probes. Proceedings of the National Academy of Sciences of the U.S.A., 2014, 111(15), 5456–5461. doi: 10.1073/pnas.1322727111

ROX NHS ester, 5-isomer

  1. Konopka, C.J.; Wozniak, M.; Hedhli, J.; Ploska, A.; Schwartz-Duval, A.; Siekierzycka, A.; Pan, D.; Munirathinam, G.; Dobrucki, I.T.; Kalinowski, L.; Dobrucki, L.W. Multimodal imaging of the receptor for advanced glycation end-products with molecularly targeted nanoparticles. Theranostics, 2018, 8(18), 5012–5024. doi: 10.7150/thno.24791

ROX NHS ester, 6- isomer

  1. Konopka, C.J.; Wozniak, M.; Hedhli, J.; Ploska, A.; Schwartz-Duval, A.; Siekierzycka, A.; Pan, D.; Munirathinam, G.; Dobrucki, I.T.; Kalinowski, L.; Dobrucki, L.W. Multimodal imaging of the receptor for advanced glycation end-products with molecularly targeted nanoparticles. Theranostics, 2018, 8(18), 5012–5024. doi: 10.7150/thno.24791

ROX azide, 5- isomer

  1. Feltes, M.; Moores, S.; Gale, S.E.; Krishnan, K.; Mydock-McGrane, L.; Covey, D.F.; Ory, D.S.; Schaffer, J.E. Synthesis and characterization of diazirine alkyne probes for the study of intracellular cholesterol trafficking. Journal of Lipid Research, 2019, 60(3), 707–716. doi: 10.1194/jlr.D091470
  2. Verardi, R.; Kim, J.-S.; Ghirlando, R.; Banerjee, A. Structural Basis for Substrate Recognition by the Ankyrin Repeat Domain of Human DHHC17 Palmitoyltransferase. Structure, 2017, 25(9), 1337–1347. doi: 10.1016/j.str.2017.06.018
  3. Bak, D.W.; Pizzagalli, M.D.; Weerapana, E. Identifying Functional Cysteine Residues in the Mitochondria. ACS Chemical Biology, 2017, 12(4), 947–957. doi: 10.1021/acschembio.6b01074
  4. Nåbo, L.J.; Madsen, C.S.; Jensen, K.J.; Kongsted, J.; Astakhova, K. Ultramild Protein-Mediated Click Chemistry Creates Efficient Oligonucleotide Probes for Targeting and Detecting Nucleic Acids. ChemBioChem, 2015, 16(8), 1163–1167. doi: 10.1002/cbic.201500145
  5. Astakhova, I.K.; Wengel, J. Interfacing Click Chemistry with Automated Oligonucleotide Synthesis for the Preparation of Fluorescent DNA Probes Containing Internal Xanthene and Cyanine Dyes. Chemistry - a European Journal, 2013, 19(3), 1112-1122. doi: 10.1002/chem.201202621
  6. Liboska, R.; Ligasová, A.; Strunin, D.; Rosenberg, I.; Koberna, K. Most Anti-BrdU Antibodies React with 2'-Deoxy-5-Ethynyluridine ‒ The Method for the Effective Suppression of This Cross-Reactivity. PLoS ONE, 2012, 7(12), e51679. doi: 10.1371/journal.pone.0051679

ROX reference dye for qPCR

  1. Schmidt, N.; Kollewe, A.; Constantin, C.E.; Henrich, S.; Ritzau-Jost, A.; Bildl, W.; Saalbach, A.; Hallermann, S.; Kulik, A.; Fakler, B.; Schulte, U. Neuroplastin and Basigin Are Essential Auxiliary Subunits of Plasma Membrane Ca2+-ATPases and Key Regulators of Ca2+ Clearance. Neuron, 2017, 96(4), 827–838.e9. doi: 10.1016/j.neuron.2017.09.038

Sulfo-Cyanine3 NHS ester

  1. Kam, A.; Loo, S.; Dutta, B.; Sze, S.K.; Tam, J.P. Plant-derived mitochondria-targeting cysteine-rich peptide modulates cellular bioenergetics. Journal of Biological Chemistry, 2019, 294(11), 4000–4011. doi: 10.1074/jbc.RA118.006693
  2. Cao, P.; Wei, X.; Awal, R.P.; Müller, R.; Wall, D. A Highly Polymorphic Receptor Governs Many Distinct Self-Recognition Types within the Myxococcales Order. mBio, 2019, 10, e02751-18. doi: 10.1128/mBio.02751-18
  3. Meena, G.G.; Jain, A.; Parks, J.; Stambaugh, A.; Patterson, J.; Hawkins, A.; Schmidt, H. Integration of sample preparation and analysis on an optofluidic chip for multi-target disease detection. Lab on a Chip, 2018, 18(23), 3678–3686. doi: 10.1039/c8lc00966j
  4. Zadeh, P.S.N.; do Valle Gomes, M.Z.; Abrahamsson, M.; Palmqvist, A.; Åkerman, B. Measuring Viscosity inside Mesoporous Silica Using Protein-Bound Molecular Rotor Probe. Physical Chemistry Chemical Physics, 2018, 20(36), 23202–23213. doi: 10.1039/C8CP01063C
  5. Gu, R.; Oweida, T.; Yingling, Y.G.; Chilkoti, A.; Zauscher, S. Enzymatic synthesis of nucleobase-modified single-stranded DNA offers tunable resistance to nuclease degradation. Biomacromolecules, 2018, 19(8), 3525–3535. doi: 10.1021/acs.biomac.8b00816
  6. Zadeh, P.S.N.; do Valle Gomes, M.Z.; Åkerman, B.; Palmqvist, A.E.C. Förster resonance energy transfer study of the improved biocatalytic conversion of CO2 to formaldehyde by co-immobilization of enzymes in siliceous mesostructured cellular foams. ACS Catalysis, 2018, 8(8), 7251–7260. doi: 10.1021/acscatal.8b01806
  7. Stambaugh, A.; Parks, J.W.; Stott, M.A.; Meena, G.G.; Hawkins, A.R.; Schmidt, H. Optofluidic detection of Zika nucleic acid and protein biomarkers using multimode interference multiplexing. Biomedical Optics Express, 2018, 9(8), 3725–3730. doi: 10.1364/BOE.9.003725
  8. Selnihhin, D.; Sparvath, S.M.; Preus, S.; Birkedal, V.; Andersen, E.S. Multi-Fluorophore DNA Origami Beacon as a Biosensing Platform. ACS Nano, 2018, 12(6), 5699–5708. doi: 10.1021/acsnano.8b01510
  9. Sallada, N.D.; Dunn, K.J.; Berger, B.W. A structural and functional role for disulfide bonds in a class II hydrophobin. Biochemistry, 2018, 57(5), 645–653. doi: 10.1021/acs.biochem.7b01166
  10. Zabara, A.; Meikle, T.G.; Trenker, R.; Yao, S.; Newman, J.; Peat, T.S.; Separovic, F.; Conn, C.E.; Call, M.J.; Call, M.E.; Landau, E.M.; Drummond, C.J. Lipidic Cubic Phase-Induced Membrane Protein Crystallization: Interplay Between Lipid Structure, Mesophase Properties, and Crystallogenesis. Crystal Growth and Design, 2017, 17(11), 5667–5674. doi: 10.1021/acs.cgd.7b00519
  11. Ozcelik, D.; Jain, A.; Stambaugh, A.; Stott, M.A.; Parks, J.W.; Hawkins, A.; Schmidt, H. Scalable Spatial-Spectral Multiplexing of Single-Virus Detection Using Multimode Interference Waveguides. Scientific Reports, 2017, 7, 12199. doi: 10.1038/s41598-017-12487-0
  12. Shi, X.; Yu, C.Y.Y.; Su, H.; Kwok, R.T.K.; Jiang, M.; He, Z.; Lam, J.W.Y.; Tang, B.Z. A Red-emissive antibody–AIEgen conjugate for turn-on and wash-free imaging of specific cancer cells. Chemical Science, 2017, 8(10), 7014–7024. doi: 10.1039/C7SC01054K
  13. Schneider, J.R.; Carias, A.M.; Bastian, A.R.; Cianci, G.C.; Kiser, P.F.; Veazey, R.S.; Hope, T.J. Long-term direct visualization of passively transferred fluorophore-conjugated antibodies. Journal of Immunological Methods, 2017, 450, 66–72. doi: 10.1016/j.jim.2017.07.009
  14. Huang, T.-Y.; Chang, C.-K.; Kao, Y.-F.; Chin, C.-H.; Ni, C.-W.; Hsu, H.-Y.; Hu, N.-J.; Hsieh, L.-C.; Chou, S.-H.; Lee, I.-R.; Hou, M.-H. Parity-dependent hairpin configurations of repetitive DNA sequence promote slippage associated with DNA expansion. Proceedings of the National Academy of Sciences of the USA, 2017, 114(36), 9535–9540. doi: 10.1073/pnas.1708691114
  15. Barnett, D.; Liu, Y.; Partyka, K.; Huang, Y.; Tang, H.; Hostetter, G.; Brand, R.E.; Singhi, A.D.; Drake, R.R.; Haab, B.B. The CA19-9 and Sialyl-TRA Antigens Define Separate Subpopulations of Pancreatic Cancer Cells. Scientific Reports, 2017, 7, 4020. doi: 10.1038/s41598-017-04164-z
  16. Korkmaz, E.; Friedrich, E.E.; Ramadan, M.H.; Erdos, G.; Mathers, A.R.; Ozdoganlar, O.B.; Washburn, N.R.; Falo, Jr, L.D. Tip-Loaded Dissolvable Microneedle Arrays Effectively Deliver Polymer-Conjugated Antibody Inhibitors of Tumor-Necrosis-Factor-Alpha Into Human Skin. Journal of Pharmaceutical Sciences, 2016, 105(11), 3453–3457. doi: 10.1016/j.xphs.2016.07.008
  17. Zhou, L.; Wang, K.; Wu, Z.; Dong, H.; Sun, H.; Cheng, X.; Zhang, H.; Zhou, H.; Jia, C.; Jin, Q.; Mao, H.; Coll, J.-L.; Zhao, J. Investigation of Controllable Nanoscale Heat-Denatured Bovine Serum Albumin Films on Graphene. Langmuir, 2016, 32(48), 12623–12631. doi: 10.1021/acs.langmuir.6b03296
  18. Zhang, X.; MIn, L.; Jia, C. Application of Wavelet Transform Algorithm and Rolling Ball Algorithm in Single Molecule Fluorescence Resonance Energy Transfer Images. Progress in Biochemistry and Biophysics, 2016, 43(10), 997–1003. doi: 10.16476/j.pibb.2016.0218
  19. Søndergaard, S.; Aznauryan, M.; Haustrup, E.K.; Schiøtt, B.; Birkedal, V.; Corry, B. Dynamics of Fluorescent Dyes Attached to G-Quadruplex DNA and their Effect on FRET Experiments. ChemPhysChem, 2015, 16(12), 2562–2570. doi: 10.1002/cphc.201500271
  20. Wang, W.; Kapur, A.; Ji, X.; Safi, M.; Palui, G.; Palomo, V.; Dawson, P.E.; Mattoussi, H. Photoligation of an Amphiphilic Polymer with Mixed Coordination Provides Compact and Reactive Quantum Dots. Journal of the American Chemical Society, 2015, 137(16), 5438–5451. doi: 10.1021/jacs.5b00671
  21. Reid, D.A.; Keegan, S.; Leo-Macias, A.; Watanabe, G.; Strande, N.T.; Chang, H.H.; Oksuz, B.A.; Fenyo, D.; Lieber, M.R.; Ramsden, D.A.; Rothenberg, E. Organization and dynamics of the nonhomologous end-joining machinery during DNA double-strand break repair. Proceedings of the National Academy of Sciences of the U.S.A., 2015, 112(20), E2575–E2584. doi: 10.1073/pnas.1420115112
  22. Glembockyte, V.; Lincoln, R.; Cosa, G. Cy3 Photoprotection Mediated by Ni2+ for Extended Single-Molecule Imaging: Old Tricks for New Techniques. Journal of the American Chemical Society, 2015, 137(3), 1116–1122. doi: 10.1021/ja509923e
  23. Martell, D.J.; Joshi, C.P.; Gaballa, A.; Santiago, A.G.; Chen, T.-Y.; Jung, W.; Helmann, J.D.; Chen, P. Metalloregulator CueR biases RNA polymerase's kinetic sampling of dead-end or open complex to repress or activate transcription. Proceedings of the National Academy of Sciences of the U.S.A., 2015, 112(44), 13467–13472. doi: 10.1073/pnas.1515231112
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  25. Wang, W.; Ji, X.; Na, H.B.; Safi, M.; Smith, A.; Palui, G.; Perez, J.M.; Mattoussi, H. Design of a Multi-Dopamine-Modified Polymer Ligand Optimally Suited for Interfacing Magnetic Nanoparticles with Biological Systems. Langmuir, 2014, 30(21), 6197-6208. doi: 10.1021/la500974r
  26. Aldeek, F.; Muhammed, M.A.H.; Palui, G.; Zhan, N.; Mattoussi, H. Growth of Highly Fluorescent Polyethylene Glycol- and Zwitterion-Functionalized Gold Nanoclusters. ACS Nano, 2013, 7(3), 2509-2521. doi: 10.1021/nn305856t
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  28. Kim, W.-J.; Kim, A.; Huh, C.; Park, C.W.; Ah, C.S.; Kim, B.K.; Yang, J.-H.; Chung, K.H.; Choi, Y.H.; Hong, J. et al. Photo selective protein immobilization using bovine serum albumin. Applied Surface Science, 2012, 261, 880-889. doi: 10.1016/j.apsusc.2012.08.111

Sulfo-Cyanine3 alkyne

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Sulfo-Cyanine3 amine

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Sulfo-Cyanine3 azide

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Sulfo-Cyanine3 carboxylic acid

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Sulfo-Cyanine3 maleimide

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Sulfo-Cyanine5 NHS ester

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Sulfo-Cyanine5 alkyne

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  2. Braselmann, E.; Wierzba, A.J.; Polaski, J.T.; Chromiński, M.; Holmes, Z.E.; Hung, S.-T.; Batan, D.; Wheeler, J.R.; Parker, R.; Jimenez, R.; Gryko, D.; Batey, R.T.; Palmer, A.E. A multicolor riboswitch-based platform for imaging of RNA in live mammalian cells. Nature Chemical Biology, 2018, 14(10), 964–971. doi: 10.1038/s41589-018-0103-7
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Sulfo-Cyanine5 amine

  1. Guo, A.; Durymanov, M.; Permyakova, A.; Sene, S.; Serre, C.; Reineke, J. Metal Organic Framework (MOF) Particles as Potential Bacteria-Mimicking Delivery Systems for Infectious Diseases: Characterization and Cellular Internalization in Alveolar Macrophages , 2019, 36, 53. doi: 10.1007/s11095-019-2589-4
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Sulfo-Cyanine5 azide

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Sulfo-Cyanine5 bis-NHS ester

  1. Pettersson, J.R.; Lanni, F.; Rule, G.S. Dual lifetimes for complexes between Glutathione-S-transferase (hGSTA1-1) and product-like ligands detected by single-molecule fluorescence imaging. Biochemistry, 2017, 56(31), 4073–4083. doi: 10.1021/acs.biochem.7b00030

Sulfo-Cyanine5 carboxylic acid

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Sulfo-Cyanine5 maleimide

  1. Baranova, N.; Radler, P.; Hernandez-Rocamora, V.M.; Alfonso, C.; Lopez-Pelegrin, M.; Rivas, G.; Vollmer, W.; Loose, M. FtsZ assembles the bacterial cell division machinery by a diffusion-and-capture mechanism. bioRxiv, preprint. doi: 10.1101/485656
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Sulfo-Cyanine5.5 NHS ester

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Sulfo-Cyanine5.5 amine

  1. Malinovskaya, Y.; Melnikov, P.; Baklaushev, V.; Gabashvili, A.; Osipova, N.; Mantrov, S.; Ermolenko, Y.; Maksimenko, O.; Gorshkova, M.; Balabanyan, V.; Kreuter, J.; Gelperina, S. Delivery of doxorubicin-loaded PLGA nanoparticles into U87 human glioblastoma cells. International Journal of Pharmaceutics, 2017, 524(1–2), 77–90. doi: 10.1016/j.ijpharm.2017.03.049

Sulfo-Cyanine5.5 azide

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Sulfo-Cyanine7 NHS ester

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  21. Ayala-Orozco, C.; Liu, J.G.; Knight, M.W.; Wang, Y.; Day, J.K.; Nordlander, P.; Halas, N.J. Fluorescence Enhancement of Molecules Inside a Gold Nanomatryoshka. Nano Letters, 2014, 14(5), 2926-2933. doi: 10.1021/nl501027j

Sulfo-Cyanine7 amine

  1. Guo, X.; Zou, C.-L.; Jung, H.; Gong, Z.; Bruch, A.; Jiang, L.; Tang, H.X. Efficient Generation of a Near-visible Frequency Comb via Cherenkov-like Radiation from a Kerr Microcomb. Physical Review Applied, 2018, 10(1), 014012. doi: 10.1103/PhysRevApplied.10.014012
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  3. Miragoli, M.; Ceriotti, P.; Iafisco, M.; Vacchiano, M.; Salvarani, N.; Alogna, A.; Carullo, P.; Ramirez-Rodríguez, G.B.; Patrício, T.; Esposti, L.D.; Rossi, F.; Ravanetti, F.; Pinelli, S.; Alinovi, R.; Erreni, M.; Rossi, S.; Condorelli, G.; Post, H.; Tampieri, A.; Catalucci, D. Inhalation of peptide-loaded nanoparticles improves heart failure. Science Translational Medicine, 2018, 10(424), eaan6205. doi: 10.1126/scitranslmed.aan6205
  4. Park, H.-K.; Lee, S.J.; Oh, J.-S.; Lee, S.-G.; Jeong, Y.-I.; Lee, H.C. Smart Nanoparticles Based on Hyaluronic Acid for Redox-Responsive and CD44 Receptor-Mediated Targeting of Tumor. Nanoscale Research Letters, 2015, 10(1), 981. doi: 10.1186/s11671-015-0981-5

Sulfo-Cyanine7 carboxylic acid

  1. Luthman, A.S. Wide-Field fHSI with a Linescan SRDA. In: Spectrally Resolved Detector Arrays for Multiplexed Biomedical Fluorescence Imaging (Springer Thesis), 2018, 51–85. doi: 10.1007/978-3-319-98255-7_3
  2. Luthman, A.S.; Dumitru, S.; Quiros-Gonzalez, I.; Joseph, J.; Bohndiek, S.E. Fluorescence hyperspectral imaging (fHSI) using a spectrally resolved detector array. Journal of Biophotonics, 2017, 10(6–7), 840–853. doi: 10.1002/jbio.201600304

Sulfo-Cyanine7.5 carboxylic acid

  1. Shi, F.; Li, M.; Wu, S.; Yang, F.; Di, W.; Pan, M.; Zhao, F.; Luo, S.; Gu, N.; Dou, J. Enhancing the Anti-Multiple Myeloma Efficiency in a Cancer Stem Cell Xenograft Model by Conjugating the ABCG2 Antibody with Microbubbles for a Targeted Delivery of Ultrasound Mediated Epirubicin. Biochemical Pharmacology, 2017, 132, 18–28. doi: 10.1016/j.bcp.2017.02.014

TAMRA alkyne, 5-isomer

  1. Rojas-Sánchez, L.; Sokolova, V.; Riebe, S.; Voskuhl, J.; Epple, M. Covalent Surface Functionalization of Calcium Phosphate Nanoparticles with Fluorescent Dyes by Copper-Catalysed and by Strain-Promoted Azide-Alkyne Click Chemistry. ChemNanoMat, in press. doi: 10.1002/cnma.201800509

TAMRA alkyne, 6-isomer

  1. Rink, W.M.; Thomas, F. Decoration of Coiled-Coil Peptides with N-Cysteine Peptide Thioesters As Cyclic Peptide Precursors Using Copper-Catalyzed Azide-Alkyne Cycloaddition (CuAAC) Click Reaction. Organic Letters, 2018, 20(23), 7493–7497. doi: 10.1021/acs.orglett.8b03261

TAMRA azide, 5-isomer

  1. Eelen, G.; Dubois, C.; Cantelmo, A.R.; Goveia, J.; Brüning, U.; DeRan, M.; Jarugumilli, G.; van Rijssel, J.; Saladino, G.; Comitani, F.; Zecchin, A.; Rocha, S.; Chen, R.; Huang, H.; Vandekeere, S.; Kalucka, J.; Lange, C.; Morales-Rodriguez, F.; Cruys, B.; Treps, L.; Ramer, L.; Vinckier, S.; Brepoels, K.; Wyns, S.; Souffreau, J.; Schoonjans, L.; Lamers, W.H.; Wu, Y.; Haustraete, J.; Hofkens, J.; Liekens, S.; Cubbon, R.; Ghesquière, B.; Dewerchin, M.; Gervasio, F.L.; Li, X.; van Buul, J.D.; Wu, X.; Carmeliet, P. Role of glutamine synthetase in angiogenesis beyond glutamine synthesis. Nature, 2018, 561(7721), 63–69. doi: 10.1038/s41586-018-0466-7
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  3. Moynihan, K.D.; Holden, R.L.; Mehta, N.K.; Wang, C.; Karver, M.R.; Dinter, J.; Liang, S.; Abraham, W.; Melo, M.B.; Zhang, A.Q.; Li, N.; Le Gall, S.; Pentelute, B.; Irvine, D.J. Enhancement of peptide vaccine immunogenicity by increasing lymphatic drainage and boosting serum stability. Cancer Immunology Research, 2018, 6(9), 1025–1038. doi: 10.1158/2326-6066.CIR-17-0607
  4. Li, W.; Zhou, Y.; Tang, G.; Wong, N.-K.; Yang, M.; Tan, D.; Xiao, Y. Chemoproteomics Reveals the Anti-proliferative Potential of Parkinson's Disease Kinase Inhibitor LRRK2-IN-1 by Targeting PCNA Protein. Molecular Pharmaceutics, 2018, 15(8), 3252–3259. doi: 10.1021/acs.molpharmaceut.8b00325
  5. Nemmara, V.J.; Subramanian, V.; Muth, A.; Mondal, S.; Salinger, A.J.; Maurais, A.J.; Tilvawala, R.; Weerapana, E.; Thompson, P.R. The Development of Benzimidazole-Based Clickable Probes for the Efficient Labeling of Cellular Protein Arginine Deiminases (PADs). ACS Chemical Biology, 2018, 13(3), 712–722. doi: 10.1021/acschembio.7b00957
  6. Niessen, S.; Dix, M.M.; Barbas, S.; Potter, Z.E.; Lu, S.; Brodsky, O.; Planken, S.; Behenna, D.; Almaden, C.; Gajiwala, K.S.; Ryan, K.; Ferre, R.; Lazear, M.R.; Hayward, M.M.; Kath, J.C.; Cravatt, B.F. Proteome-wide Map of Targets of T790M-EGFR-Directed Covalent Inhibitors. Cell Chemical Biology, 2017, 24(11), 1388–1400.e7. doi: 10.1016/j.chembiol.2017.08.017
  7. Schonhoft, J.D.; Monteiro, C.; Plate, L.; Eisele, Y.S.; Kelly, J.M.; Boland, D.; Parker, C.G.; Cravatt, B.F.; Teruya, S.; Helmke, S.; Maurer, M.; Berk, J.; Sekijima, Y.; Novais, M.; Coelho, T.; Powers, E.T.; Kelly, J.W. Peptide probes detect misfolded transthyretin oligomers in plasma of hereditary amyloidosis patients. Science Translational Medicine, 2017, 9(407), eaam7621. doi: 10.1126/scitranslmed.aam7621
  8. Planken, S.; Behenna, D.C.; Nair, S.K.; Johnson, T.O.; Nagata, A.; Almaden, C.; Bailey, S.; Ballard, T.E.; Bernier, L.; Cheng, H. et al. Discovery of N-((3R, 4R)-4-fluoro-1-(6-((3-methoxy-1-methyl-1H-pyrazol-4-yl) amino)-9-methyl-9H-purin-2-yl) pyrrolidine-3-yl) acrylamide (PF-06747775) Through Structure-Based Drug Design; ... Journal of Medicinal Chemistry, 2017, 60(7), 3002–3019. doi: 10.1021/acs.jmedchem.6b01894
  9. Zhou, Y.; Li, W.; Wang, M.; Zhang, X.; Zhang, H.; Tong, X.; Xiao, Y. Competitive profiling of celastrol targets in human cervical cancer HeLa cells via quantitative chemical proteomics. Molecular BioSystems, 2017, 13(1), 83–91. doi: 10.1039/c6mb00691d
  10. Butler, C.R.; Beck, E.M.; Harris, A.R.; Huang, Z.; McAllister, L.A.; Am Ende, C.W.; Fennell, K.F.; Foley, T.L.; Fonseca, K.R.; Hawrylik, S.J.; Johnson, D.S.; Knafels, J.D.; Mente, S.; Noell, S.; Pandit, J.; Phillips, T.B.; Piro, J.R.; Rogers, B.N.; Samad, T.A.; Wang, J.; Wan, S.; Brodney, M.A. Azetidine and Piperidine Carbamates as Efficient, Covalent Inhibitors of Monoacylglycerol Lipase. Journal of Medicinal Chemistry, 2017, 60(23), 9860–9873. doi: 10.1021/acs.jmedchem.7b01531
  11. Zuhl, A.M.; Nolan, C.E.; Brodney, M.A.; Niessen, S.; Atchison, K.; Houle, C.; Karanian, D.A.; Ambroise, Cl.; Brulet, J.W.; Beck, E.M.; Doran, S.D.; O'Neill, B.T.; am Ende, C.W.; Chang, C.; Geoghegan, K.F.; West, G.M.; Judkins, J.C.; Hou, X.; Riddell, D.R.; Johnson, D.S. Chemoproteomic profiling reveals that cathepsin D off-target activity drives ocular toxicity of β-secretase inhibitors. Nature communications, 2016, 7, 13042. doi: 10.1038/ncomms13042
  12. Rana, S.; Blowers, E.C.; Tebbe, C.; Contreras, J.I.; Radhakrishnan, P.; Kizhake, S.; Zhou, T.; Rajule, R.N.; Arnst, J.L.; Munkarah, A.R.; Rattan, R.; Natarajan, A. Isatin Derived Spirocyclic Analogues with α-Methylene-γ-butyrolactone as Anticancer Agents: A Structure-Activity Relationship Study. Journal of Medicinal Chemistry, 2016, 59(10), 5121–5127. doi: 10.1021/acs.jmedchem.6b00400
  13. Zhou, Y.; Li, W.; Xiao, Y. Profiling of Multiple Targets of Artemisinin Activated by Hemin in Cancer Cell Proteome. ACS Chemical Biology, 2016, 11(4), 882–888. doi: 10.1021/acschembio.5b01043
  14. Nusshold, C.; Üllen, A.; Kogelnik, N.; Bernhart, E.; Reicher, H.; Plastira, I.; Glasnov, T.; Zangger, K.; Rechberger, G.; Kollroser, M.; Fauler, G.; Wolinski, H.; Weksler, B.B.; Romero, I.A.; Kohlwein, S.D.; Couraud, P.-O.; Malle, E.; Sattler, W. Assessment of electrophile damage in a human brain endothelial cell line utilizing a clickable alkyne analogue of 2-chlorohexadecanal. Free Radical Biology and Medicine, 2016, 90, 59–74. doi: 10.1016/j.freeradbiomed.2015.11.010
  15. Li, W.; Zhou, Y.; Tang, G.; Xiao, Y. Characterization of the Artemisinin Binding Site for Translationally Controlled Tumor Protein (TCTP) by Bioorthogonal Click Chemistry. Bioconjugate Chemistry, 2016, 27(12), 2828–2833. doi: 10.1021/acs.bioconjchem.6b00556
  16. Mahmoodi, M.M.; Rashidian, M.; Zhang, Y.; Distefano, M.D. Application of meta- and para- Phenylenediamine as Enhanced Oxime Ligation Catalysts for Protein Labeling, PEGylation, Immobilization, and Release. Current Protocols in Protein Science, 2015, 79, 15.4.1–15.4.28. doi: 10.1002/0471140864.ps1504s79
  17. Jia, L.; Chisari, M.; Maktabi, M.H.; Sobieski, C.; Zhou, H.; Konopko, A.M.; Martin, B.R.; Mennerick, S.J.; Blumer, K.J. A Mechanism Regulating G Protein-coupled Receptor Signaling That Requires Cycles of Protein Palmitoylation and Depalmitoylation. Journal of Biological Chemistry, 2014, 289(9), 6249–6257. doi: 10.1074/jbc.m113.531475
  18. Zhou, Y.; Guo, T.; Li, X.; Dong, Y.; Galatsis, P.; Johnson, D.S.; Pan, Z. Discovery of selective 2,4-diaminopyrimidine-based photoaffinity probes for glyoxalase I. Medicinal Chemistry Communications, 2014, 5(3), 352–357. doi: 10.1039/c3md00286a
  19. Zhou, Y.; Guo, T.; Tang, G.; Wu, H.; Wong, N.-K.; Pan, Z. Site-Selective Protein Immobilization by Covalent Modification of GST Fusion Proteins. Bioconjugate Chemistry, 2014, 25(11), 1911-1915. doi: 10.1021/bc500347b

TAMRA azide, 6-isomer

  1. Eelen, G.; Dubois, C.; Cantelmo, A.R.; Goveia, J.; Brüning, U.; DeRan, M.; Jarugumilli, G.; van Rijssel, J.; Saladino, G.; Comitani, F.; Zecchin, A.; Rocha, S.; Chen, R.; Huang, H.; Vandekeere, S.; Kalucka, J.; Lange, C.; Morales-Rodriguez, F.; Cruys, B.; Treps, L.; Ramer, L.; Vinckier, S.; Brepoels, K.; Wyns, S.; Souffreau, J.; Schoonjans, L.; Lamers, W.H.; Wu, Y.; Haustraete, J.; Hofkens, J.; Liekens, S.; Cubbon, R.; Ghesquière, B.; Dewerchin, M.; Gervasio, F.L.; Li, X.; van Buul, J.D.; Wu, X.; Carmeliet, P. Role of glutamine synthetase in angiogenesis beyond glutamine synthesis. Nature, 2018, 561(7721), 63–69. doi: 10.1038/s41586-018-0466-7
  2. Li, W.; Zhou, Y.; Tang, G.; Wong, N.-K.; Yang, M.; Tan, D.; Xiao, Y. Chemoproteomics Reveals the Anti-proliferative Potential of Parkinson's Disease Kinase Inhibitor LRRK2-IN-1 by Targeting PCNA Protein. Molecular Pharmaceutics, 2018, 15(8), 3252–3259. doi: 10.1021/acs.molpharmaceut.8b00325
  3. Nemmara, V.J.; Subramanian, V.; Muth, A.; Mondal, S.; Salinger, A.J.; Maurais, A.J.; Tilvawala, R.; Weerapana, E.; Thompson, P.R. The Development of Benzimidazole-Based Clickable Probes for the Efficient Labeling of Cellular Protein Arginine Deiminases (PADs). ACS Chemical Biology, 2018, 13(3), 712–722. doi: 10.1021/acschembio.7b00957
  4. Zhou, Y.; Li, W.; Wang, M.; Zhang, X.; Zhang, H.; Tong, X.; Xiao, Y. Competitive profiling of celastrol targets in human cervical cancer HeLa cells via quantitative chemical proteomics. Molecular BioSystems, 2017, 13(1), 83–91. doi: 10.1039/c6mb00691d
  5. Butler, C.R.; Beck, E.M.; Harris, A.R.; Huang, Z.; McAllister, L.A.; Am Ende, C.W.; Fennell, K.F.; Foley, T.L.; Fonseca, K.R.; Hawrylik, S.J.; Johnson, D.S.; Knafels, J.D.; Mente, S.; Noell, S.; Pandit, J.; Phillips, T.B.; Piro, J.R.; Rogers, B.N.; Samad, T.A.; Wang, J.; Wan, S.; Brodney, M.A. Azetidine and Piperidine Carbamates as Efficient, Covalent Inhibitors of Monoacylglycerol Lipase. Journal of Medicinal Chemistry, 2017, 60(23), 9860–9873. doi: 10.1021/acs.jmedchem.7b01531
  6. Zuhl, A.M.; Nolan, C.E.; Brodney, M.A.; Niessen, S.; Atchison, K.; Houle, C.; Karanian, D.A.; Ambroise, Cl.; Brulet, J.W.; Beck, E.M.; Doran, S.D.; O'Neill, B.T.; am Ende, C.W.; Chang, C.; Geoghegan, K.F.; West, G.M.; Judkins, J.C.; Hou, X.; Riddell, D.R.; Johnson, D.S. Chemoproteomic profiling reveals that cathepsin D off-target activity drives ocular toxicity of β-secretase inhibitors. Nature communications, 2016, 7, 13042. doi: 10.1038/ncomms13042
  7. Zhou, Y.; Li, W.; Xiao, Y. Profiling of Multiple Targets of Artemisinin Activated by Hemin in Cancer Cell Proteome. ACS Chemical Biology, 2016, 11(4), 882–888. doi: 10.1021/acschembio.5b01043
  8. Li, W.; Zhou, Y.; Tang, G.; Xiao, Y. Characterization of the Artemisinin Binding Site for Translationally Controlled Tumor Protein (TCTP) by Bioorthogonal Click Chemistry. Bioconjugate Chemistry, 2016, 27(12), 2828–2833. doi: 10.1021/acs.bioconjchem.6b00556
  9. Mahmoodi, M.M.; Rashidian, M.; Zhang, Y.; Distefano, M.D. Application of meta- and para- Phenylenediamine as Enhanced Oxime Ligation Catalysts for Protein Labeling, PEGylation, Immobilization, and Release. Current Protocols in Protein Science, 2015, 79, 15.4.1–15.4.28. doi: 10.1002/0471140864.ps1504s79
  10. Jia, L.; Chisari, M.; Maktabi, M.H.; Sobieski, C.; Zhou, H.; Konopko, A.M.; Martin, B.R.; Mennerick, S.J.; Blumer, K.J. A Mechanism Regulating G Protein-coupled Receptor Signaling That Requires Cycles of Protein Palmitoylation and Depalmitoylation. Journal of Biological Chemistry, 2014, 289(9), 6249–6257. doi: 10.1074/jbc.m113.531475
  11. Zhou, Y.; Guo, T.; Li, X.; Dong, Y.; Galatsis, P.; Johnson, D.S.; Pan, Z. Discovery of selective 2,4-diaminopyrimidine-based photoaffinity probes for glyoxalase I. Medicinal Chemistry Communications, 2014, 5(3), 352–357. doi: 10.1039/c3md00286a

TAMRA maleimide, 6-isomer

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TFA-Amino modifier CPG 500

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THPTA ligand

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dsGreen Gel Staining Solution, 10000×

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dsGreen for Real-Time PCR, 100×

  1. Segal, E.S.; Gritsenko, V.; Levitan, A.; Yadav, B.; Dror, N.; Steenwyk, J.L.; Silberberg, Y.; Mielich, K.; Rokas, A.; Gow, N.A.R.; Kunze, R.; Sharan, R.; Berman, J. Gene Essentiality Analyzed by In Vivo Transposon Mutagenesis and Machine Learning in a Stable Haploid Isolate of Candida albicans. mBio, 2018, 9(5), e02048-18. doi: 10.1128/mBio.02048-18
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