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Saswata Karmakar, Ph.D
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New organocatalyst scaffolds with high activity in promoting hydrazone and oxime formation at neutral pH
D Larsen, M Pittelkow, S Karmakar, ET Kool
Organic letters 17 (2), 274-277, 2015
962015
Organocatalytic removal of formaldehyde adducts from RNA and DNA bases
S Karmakar, EM Harcourt, DS Hewings, F Scherer, AF Lovejoy, DM Kurtz, ...
Nature chemistry 7 (9), 752-758, 2015
492015
Identification and characterization of second-generation invader locked nucleic acids (LNAs) for mixed-sequence recognition of double-stranded DNA
SP Sau, AS Madsen, P Podbevsek, NK Andersen, TS Kumar, S Andersen, ...
The Journal of organic chemistry 78 (19), 9560-9570, 2013
302013
High-Affinity DNA Targeting Using Readily Accessible Mimics of N2′-Functionalized 2′-Amino-α-L-LNA
S Karmakar, BA Anderson, RL Rathje, S Andersen, TB Jensen, P Nielsen, ...
The Journal of organic chemistry 76 (17), 7119-7131, 2011
282011
Invader probes: Harnessing the energy of intercalation to facilitate recognition of chromosomal DNA for diagnostic applications
DC Guenther, GH Anderson, S Karmakar, BA Anderson, BA Didion, ...
Chemical science 6 (8), 5006-5015, 2015
212015
Recognition of double-stranded DNA using energetically activated duplexes with interstrand zippers of 1-, 2-or 4-pyrenyl-functionalized O 2′-alkylated RNA monomers
S Karmakar, AS Madsen, DC Guenther, BC Gibbons, PJ Hrdlicka
Organic & biomolecular chemistry 12 (39), 7758-7773, 2014
212014
Invaders: Recognition of Double‐Stranded DNA by Using Duplexes Modified with Interstrand Zippers of 2′‐O‐(Pyren‐1‐yl)methyl‐ribonucleotides
BA Didion, S Karmakar, DC Guenther, SP Sau, JP Verstegen, PJ Hrdlicka
ChemBioChem 14 (13), 1534-1538, 2013
192013
DNA strands with alternating incorporations of LNA and 2′-O-(pyren-1-yl) methyluridine: SNP-discriminating RNA detection probes
S Karmakar, PJ Hrdlicka
Chemical science 4 (9), 3447-3454, 2013
182013
Recognition of Mixed-Sequence DNA Duplexes: Design Guidelines for Invaders Based on 2′-O-(Pyren-1-yl)methyl-RNA Monomers
S Karmakar, DC Guenther, PJ Hrdlicka
The Journal of organic chemistry 78 (23), 12040-12048, 2013
172013
Bulged Invader probes: Activated duplexes for mixed-sequence dsDNA recognition with improved thermodynamic and kinetic profiles
DC Guenther, S Karmakar, PJ Hrdlicka
Chemical Communications 51 (81), 15051-15054, 2015
152015
Ergonomic study of ingress-egress of an army vehicle in simulated environment
S Karmakar, D Majumdar, MS Pal, D Majumdar
Proceedings of international conference on trends in product lifecycle …, 2011
142011
Self-assembled monolayers of thiols adsorbed on Au/ZnO-functionalized silica nanosprings: Photoelectron spectroscopy-analysis and detection of vaporized explosives
BA Fouetio Kengne, S Karmakar, M Kaura, VVR Sai, G Corti, IB Niraula, ...
ACS Applied Materials & Interfaces 6 (16), 13355-13366, 2014
132014
Sandwich assay for mixed-sequence recognition of double-stranded DNA: Invader-based detection of targets specific to foodborne pathogens
B Denn, S Karmakar, DC Guenther, PJ Hrdlicka
Chemical Communications 49 (84), 9851-9853, 2013
132013
25 years and still going strong: 2′-O-(pyren-1-yl) methylribonucleotides–versatile building blocks for applications in molecular biology, diagnostics and materials science
PJ Hrdlicka, S Karmakar
Organic & biomolecular chemistry 15 (46), 9760-9774, 2017
112017
Head-to-head comparison of LNA, MP γPNA, INA and Invader probes targeting mixed-sequence double-stranded DNA
RG Emehiser, E Hall, DC Guenther, S Karmakar, PJ Hrdlicka
Organic & Biomolecular Chemistry 18 (1), 56-65, 2020
82020
Mixed-sequence recognition of double-stranded DNA using enzymatically stable phosphorothioate invader probes
BA Anderson, S Karmakar, PJ Hrdlicka
Molecules 20 (8), 13780-13793, 2015
52015
Recognition of mixed-sequence DNA using double-stranded probes with interstrand zipper arrangements of O2′-triphenylene-and coronene-functionalized RNA monomers
S Karmakar, DC Guenther, BC Gibbons, PJ Hrdlicka
Organic & biomolecular chemistry 15 (44), 9362-9371, 2017
42017
Synthesis and biophysical characterization of oligonucleotides modified with O2′-alkylated RNA monomers featuring substituted pyrene moieties
S Karmakar, T Horrocks, BC Gibbons, DC Guenther, R Emehiser, ...
Organic & biomolecular chemistry 17 (3), 609-621, 2019
32019
Recognition of double-stranded DNA using LNA-modified toehold Invader probes
SP Adhikari, P Vukelich, DC Guenther, S Karmakar, PJ Hrdlicka
Organic & Biomolecular Chemistry 19 (42), 9276-9290, 2021
22021
Nicked Invader probes: multistranded and sequence-unrestricted recognition of double-stranded DNA
SP Adhikari, S Karmakar, PJ Hrdlicka
Organic & Biomolecular Chemistry 20 (5), 1019-1030, 2022
12022
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