75 results on '"Srabani Kar"'
Search Results
2. Ethacrynic acid is an inhibitor of human factor XIIIa
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Srabani Kar, Kayla Vu, Madhusoodanan Mottamal, and Rami A. Al-Horani
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Ethacrynic acid ,Factor XIIIa ,Irreversible inhibitor ,Bleeding ,Anticoagulant ,Therapeutics. Pharmacology ,RM1-950 ,Toxicology. Poisons ,RA1190-1270 - Abstract
Abstract Background Ethacrynic acid (EA) is a loop diuretic that is approved orally and parenterally to manage edema-associated diseases. Nevertheless, it was earlier reported that it is also associated with bleeding upon its parenteral administration. In this report, we investigated the effects of EA on human factor XIIIa (FXIIIa) of the coagulation process using a variety of techniques. Methods A series of biochemical and computational methods have been used in this study. The potency and efficacy of human FXIIIa inhibition by EA was evaluated using a bisubstrate-based fluorescence trans-glutamination assay under near physiological conditions. To establish the physiological relevance of FXIIIa inhibition by EA, the effect on FXIIIa-mediated polymerization of fibrin(ogen) as well as the formation of fibrin(ogen) – α2-antiplasmin complex was evaluated using SDS-PAGE experiments. The selectivity profile of EA against other coagulation proteins was assessed by evaluating EA’s effect on human clotting times in the activated partial thromboplastin time (APTT) and the prothrombin time (PT) assays. We also used molecular modeling studies to put forward a putative binding mode for EA in the active site of FXIIIa. Results involving EA were the average of at least three experiments and the standard error ± 1 was provided. In determining the inhibition parameters, we used non-linear regression analysis. Results FXIIIa is a transglutaminase that works at the end of the coagulation process to form an insoluble, rigid, and cross-linked fibrin rich blood clot. In fact, inhibition of FXIIIa-mediated biological processes has been reported to result in a bleeding diathesis. Inhibition of FXIIIa by EA was investigated given the nucleophilic nature of the thiol-containing active site of the enzyme and the Michael acceptor-based electrophilicity of EA. In a bisubstrate-based fluorescence trans-glutamination assay, EA inhibited FXIIIa with a moderate potency (IC 50 ~ 105 µM) and efficacy (∆Y ~ 66%). In SDS-PAGE experiments, EA appears to significantly inhibit the FXIIIa-mediated polymerization of fibrin(ogen) as well as the formation of fibrin(ogen) – α2-antiplasmin complex which indicates that EA affects the physiological functions of FXIIIa. Interestingly, EA did not affect the clotting times of human plasma in the APTT and the PT assays at the highest concentration tested of 2.5 mM suggesting the lack of effects on the coagulation serine proteases and potentially the functional selectivity of EA with respect to the clotting process. Molecular modeling studies demonstrated that the Michael acceptor of EA forms a covalent bond with catalytic residue of Cys314 in the active site of FXIIIa. Conclusions Overall, our studies indicate that EA inhibits the physiological function of human FXIIIa in vitro which may potentially contribute to the bleeding complications that were reported with the association of the parenteral administration of EA.
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- 2022
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3. Editorial: Micro/nano optical devices for biosensing and cellular analysis
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Srabani Kar, Moeto Nagai, and Tuhin Subhra Santra
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optical biosensors ,plasmonic biosensors ,optoelectronic tweezers ,dielectrophoresis ,cancer biomarkers ,Biotechnology ,TP248.13-248.65 - Published
- 2022
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4. Sulfonated Nonsaccharide Heparin Mimetics Are Potent and Noncompetitive Inhibitors of Human Neutrophil Elastase
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Rami A. Al-Horani, Kholoud F. Aliter, Srabani Kar, and Madhusoodanan Mottamal
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Chemistry ,QD1-999 - Published
- 2021
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5. Discovery of Benzyl Tetraphosphonate Derivative as Inhibitor of Human Factor Xia
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Srabani Kar, Dr. Madhusoodanan Mottamal, and Dr. Rami A. Al‐Horani
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factor XIa ,allosteric inhibitors ,anticoagulants ,molecular modeling ,phosphonate derivatives ,Chemistry ,QD1-999 - Abstract
Abstract The inhibition of factor XIa (FXIa) is a trending paradigm for the development of new generations of anticoagulants without a substantial risk of bleeding. In this report, we present the discovery of a benzyl tetra‐phosphonate derivative as a potent and selective inhibitor of human FXIa. Biochemical screening of four phosphonate/phosphate derivatives has led to the identification of the molecule that inhibited human FXIa with an IC50 value of ∼7.4 μM and a submaximal efficacy of ∼68 %. The inhibitor was at least 14‐fold more selective to FXIa over thrombin, factor IXa, factor Xa, and factor XIIIa. It also inhibited FXIa‐mediated activation of factor IX and prolonged the activated partial thromboplastin time of human plasma. In Michaelis‐Menten kinetics experiment, inhibitor 1 reduced the VMAX of FXIa hydrolysis of a chromogenic substrate without significantly affecting its KM suggesting an allosteric mechanism of inhibition. The inhibitor also disrupted the formation of FXIa – antithrombin complex and inhibited thrombin‐mediated and factor XIIa‐mediated formation of FXIa from its zymogen factor XI. Inhibitor 1 has been proposed to bind to or near the heparin/polyphosphate‐binding site in the catalytic domain of FXIa. Overall, inhibitor 1 is the first benzyl tetraphosphonate small molecule that allosterically inhibits human FXIa, blocks its physiological function, and prevents its zymogen activation by other clotting factors under in vitro conditions. Thus, we put forward benzyl tetra‐phosphonate 1 as a novel lead inhibitor of human FXIa to guide future efforts in the development of allosteric anticoagulants.
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- 2020
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6. Microfluidic mechanoporation for cellular delivery and analysis
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Pulasta Chakrabarty, Pallavi Gupta, Kavitha Illath, Srabani Kar, Moeto Nagai, Fan-Gang Tseng, and Tuhin Subhra Santra
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Microfluidics ,Mechanoporation ,Cellular delivery ,Transfection efficiency ,Cell viability ,Medicine (General) ,R5-920 ,Biology (General) ,QH301-705.5 - Abstract
Highly efficient intracellular delivery strategies are essential for developing therapeutic, diagnostic, biological, and various biomedical applications. The recent advancement of micro/nanotechnology has focused numerous researches towards developing microfluidic device-based strategies due to the associated high throughput delivery, cost-effectiveness, robustness, and biocompatible nature. The delivery strategies can be carrier-mediated or membrane disruption-based, where membrane disruption methods find popularity due to reduced toxicity, enhanced delivery efficiency, and cell viability. Among all of the membrane disruption techniques, the mechanoporation strategies are advantageous because of no external energy source required for membrane deformation, thereby achieving high delivery efficiencies and increased cell viability into different cell types with negligible toxicity. The past two decades have consequently seen a tremendous boost in mechanoporation-based research for intracellular delivery and cellular analysis. This article provides a brief review of the most recent developments on microfluidic-based mechanoporation strategies such as microinjection, nanoneedle arrays, cell-squeezing, and hydroporation techniques with their working principle, device fabrication, cellular delivery, and analysis. Moreover, a brief discussion of the different mechanoporation strategies integrated with other delivery methods has also been provided. Finally, the advantages, limitations, and future prospects of this technique are discussed compared to other intracellular delivery techniques.
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- 2022
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7. Microfluidic platforms for single neuron analysis
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Pallavi Gupta, Ashwini Shinde, Kavitha Illath, Srabani Kar, Moeto Nagai, Fan-Gang Tseng, and Tuhin Subhra Santra
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Single neuron analysis ,Microfluidic devices ,Microelectrode array ,Single cell analysis ,Single neuron dynamics ,Omics ,Medicine (General) ,R5-920 ,Biology (General) ,QH301-705.5 - Abstract
Single-neuron actions are the basis of brain function, as clinical sequelae, neuronal dysfunction or failure for most of the central nervous system (CNS) diseases and injuries can be identified via tracing single-neurons. The bulk analysis methods tend to miscue critical information by assessing the population-averaged outcomes. However, its primary requisite in neuroscience to analyze single-neurons and to understand dynamic interplay of neurons and their environment. Microfluidic systems enable precise control over nano-to femto-liter volumes via adjusting device geometry, surface characteristics, and flow-dynamics, thus facilitating a well-defined micro-environment with spatio-temporal control for single-neuron analysis. The microfluidic platform not only offers a comprehensive landscape to study brain cell diversity at the level of transcriptome, genome, and/or epigenome of individual cells but also has a substantial role in deciphering complex dynamics of brain development and brain-related disorders. In this review, we highlight recent advances of microfluidic devices for single-neuron analysis, i.e., single-neuron trapping, single-neuron dynamics, single-neuron proteomics, single-neuron transcriptomics, drug delivery at the single-neuron level, single axon guidance, and single-neuron differentiation. Moreover, we also emphasize limitations and future challenges of single-neuron analysis by focusing on key performances of throughput and multiparametric activity analysis on microfluidic platforms.
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- 2022
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8. Lignosulfonic Acid Sodium Is a Noncompetitive Inhibitor of Human Factor XIa
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Srabani Kar, Page Bankston, Daniel K. Afosah, and Rami A. Al-Horani
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factor XIa ,allosteric inhibitor ,anticoagulant ,lignin ,sulfonate ,Medicine ,Pharmacy and materia medica ,RS1-441 - Abstract
The anticoagulant activity of lignosulfonic acid sodium (LSAS), a non-saccharide heparin mimetic, was investigated in this study. LSAS is a relatively safe industrial byproduct with similar polyanionic characteristics to that of heparin. Human plasma clotting assays, fibrin polymerization testing, and enzyme inhibition assays were exploited to investigate the anticoagulant activity of LSAS. In normal human plasma, LSAS selectively doubled the activated partial thromboplastin time (APTT) at ~308 µg/mL. Equally, LSAS doubled APTT at ~275 µg/mL in antithrombin-deficient plasma. Yet, LSAS doubled APTT at a higher concentration of 429 µg/mL using factor XI-deficient plasma. LSAS did not affect FXIIIa-mediated fibrin polymerization at 1000 µg/mL. Enzyme assays revealed that LSAS inhibits factor XIa (FXIa) with an IC50 value of ~8 μg/mL. LSAS did not inhibit thrombin, factor IXa, factor Xa, factor XIIIa, chymotrypsin, or trypsin at the highest concentrations tested and demonstrated significant selectivity against factor XIIa and plasmin. In Michaelis–Menten kinetics, LSAS decreased the VMAX of FXIa hydrolysis of a tripeptide chromogenic substrate without significantly changing its KM indicating an allosteric inhibition mechanism. The inhibitor also disrupted the generation of FXIa–antithrombin complex, inhibited factor XIIa-mediated and thrombin-mediated activation of the zymogen factor XI to FXIa, and competed with heparin for binding to FXIa. Its action appears to be reversed by protamine sulfate. Structure–activity relationship studies demonstrated the advantageous selectivity and allosteric behavior of LSAS over the acetylated and desulfonated derivatives of LSAS. LSAS is a sulfonated heparin mimetic that demonstrates significant anticoagulant activity in human plasma. Overall, it appears that LSAS is a potent, selective, and allosteric inhibitor of FXIa with significant anticoagulant activity in human plasma. Altogether, this study introduces LSAS as a promising lead for further development as an anticoagulant.
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- 2021
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9. Potential Anti-SARS-CoV-2 Therapeutics That Target the Post-Entry Stages of the Viral Life Cycle: A Comprehensive Review
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Rami A. Al-Horani and Srabani Kar
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COVID-19 ,SARS-CoV-2 ,main protease ,papain-like protease ,RNA-dependent RNA polymerase ,dihydroorotate dehydrogenase ,Microbiology ,QR1-502 - Abstract
The coronavirus disease-2019 (COVID-19) pandemic continues to challenge health care systems around the world. Scientists and pharmaceutical companies have promptly responded by advancing potential therapeutics into clinical trials at an exponential rate. Initial encouraging results have been realized using remdesivir and dexamethasone. Yet, the research continues so as to identify better clinically relevant therapeutics that act either as prophylactics to prevent the infection or as treatments to limit the severity of COVID-19 and substantially decrease the mortality rate. Previously, we reviewed the potential therapeutics in clinical trials that block the early stage of the viral life cycle. In this review, we summarize potential anti-COVID-19 therapeutics that block/inhibit the post-entry stages of the viral life cycle. The review presents not only the chemical structures and mechanisms of the potential therapeutics under clinical investigation, i.e., listed in clinicaltrials.gov, but it also describes the relevant results of clinical trials. Their anti-inflammatory/immune-modulatory effects are also described. The reviewed therapeutics include small molecules, polypeptides, and monoclonal antibodies. At the molecular level, the therapeutics target viral proteins or processes that facilitate the post-entry stages of the viral infection. Frequent targets are the viral RNA-dependent RNA polymerase (RdRp) and the viral proteases such as papain-like protease (PLpro) and main protease (Mpro). Overall, we aim at presenting up-to-date details of anti-COVID-19 therapeutics so as to catalyze their potential effective use in fighting the pandemic.
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- 2020
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10. Nanosecond Pulsed Laser Activated Massively Parallel Single-cell Intracellular Delivery Using Ti Micro-Dish.
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Pallavi Shinde, Kavitha Illath, Srabani Kar, and Tuhin Subhra Santra
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- 2020
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11. Recent Advances of Biosensor-Integrated Organ-on-a-Chip Technologies for Diagnostics and Therapeutics
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Ashwini Shinde, Kavitha Illath, Uvanesh Kasiviswanathan, Shalini Nagabooshanam, Pallavi Gupta, Koyel Dey, Pulasta Chakrabarty, Moeto Nagai, Suresh Rao, Srabani Kar, and Tuhin Subhra Santra
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Analytical Chemistry - Published
- 2023
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12. Metallic micro-ring device for highly efficient large cargo delivery in mammalian cells using infrared light pulses
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Ashwini Shinde, Pallavi Shinde, Srabani Kar, Kavitha Illath, Souvik Dey, Nitish R. Mahapatra, Moeto Nagai, and Tuhin Subhra Santra
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Biomedical Engineering ,Bioengineering ,General Chemistry ,Biochemistry - Abstract
Highly efficient large cargo delivery using an infrared light-activated titanium micro-ring device.
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- 2023
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13. Functionally gradient three-dimensional graphene foam-based polymeric scaffolds for multilayered tissue regeneration
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Pallavi Gupta, Sonali Waghmare, Srabani Kar, Kavitha Illath, Suresh Rao, and Tuhin Subhra Santra
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General Chemical Engineering ,General Chemistry - Abstract
The research includes the development of functionally gradient, polymer reinforced 3D graphene foam-based scaffolds for tissue regeneration via the simple process of spin coating and drying.
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- 2023
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14. Nanolocalized single cell membrane nanoelectroporation.
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Tuhin Subhra Santra, C.-W. Lee, Srabani Kar, Jayant Borana, Pen-Cheng Wang, and Fan-Gang Tseng
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- 2014
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15. Algal genomics tools: technological updates and progress
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Niwas Kumar, Srabani Kar, Amit Srivastava, Chiranjib Banerjee, and Pratyoosh Shukla
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- 2023
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16. Sulphated penta-galloyl glucopyranoside (SPGG) is glycosaminoglycan mimetic allosteric inhibitor of cathepsin G
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Rami A Al-Horani, Daniel K Afosah, Srabani Kar, Kholoud F Aliter, and Madhusoodanan Mottamal
- Abstract
ObjectiveCathepsin G (CatG) is a cationic serine protease with wide substrate specificity. CatG is reported to play a role in several inflammatory pathologies. Thus, we aimed at identifying a potent and allosteric inhibitor of CatG to be used as a platform in further drug development opportunities.MethodsChromogenic substrate hydrolysis assays were used to evaluate the inhibition potency and selectivity of SPGG towards CatG. Salt-dependent studies, Michaelis–Menten kinetics and SDS-PAGE were exploited to decipher the mechanism of CatG inhibition by SPGG. Molecular modelling was also used to identify a plausible binding site.Key findingsSPGG displayed an inhibition potency of 57 nM against CatG, which was substantially selective over other proteases. SPGG protected fibronectin and laminin against CatG-mediated degradation. SPGG reduced VMAX of CatG hydrolysis of a chromogenic substrate without affecting KM, suggesting an allosteric mechanism. Resolution of energy contributions indicated that non-ionic interactions contribute ~91% of binding energy, suggesting a substantial possibility of specific recognition. Molecular modelling indicated that SPGG plausibly binds to an anion-binding sequence of 109SRRVRRNRN117.ConclusionWe present the discovery of SPGG as the first small molecule, potent, allosteric glycosaminoglycan mimetic inhibitor of CatG. SPGG is expected to open a major route to clinically relevant allosteric CatG anti-inflammatory agents.
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- 2023
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17. Combinatorial physical methods for cellular therapy: Towards the future of cellular analysis?
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Pulasta Chakrabarty, Kavitha Illath, Srabani Kar, Moeto Nagai, and Tuhin Subhra Santra
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Pharmaceutical Science - Abstract
The physical energy activated techniques for cellular delivery and analysis is one of the most rapidly expanding research areas for a variety of biological and biomedical discoveries. These methods, such as electroporation, optoporation, sonoporation, mechanoporation, magnetoporation, etc., have been widely used in delivering different biomolecules into a range of primary and patient-derived cell types. However, the techniques when used individually have had limitations in delivery and co-delivery of diverse biomolecules in various cell types. In recent years, a number of studies have been performed by combining the different membrane disruption techniques, either sequentially or simultaneously, in a single study. The studies, referred to as combinatorial, or hybrid techniques, have demonstrated enhanced transfection, such as efficient macromolecular and gene delivery and co-delivery, at lower delivery parameters and with high cell viability. Such studies can open up new and exciting avenues for understanding the subcellular structure and consequently facilitate the development of novel therapeutic strategies. This review consequently aims at summarising the different developments in hybrid therapeutic techniques. The different methods discussed include mechano-electroporation, electro-sonoporation, magneto-mechanoporation, magnetic nanoparticles enhanced electroporation, and magnetic hyperthermia studies. We discuss the clinical status of the different methods and conclude with a discussion on the future prospects of the combinatorial techniques for cellular therapy and diagnostics.
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- 2022
18. The Effects of Surfaces and Surface Passivation on the Electrical Properties of Nanowires and Other Nanostructures: Time-Resolved Terahertz Spectroscopy Studies
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Hannah J. Joyce, Stephanie O. Adeyemo, Jamie D. Lake, Srabani Kar, Oliver J. Burton, Yunyan Zhang, Huiyun Liu, H. Hoe Tan, C. Jagadish, Michael B. Johnston, and Jack A. Alexander-Webber
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- 2022
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19. Fabrication of TiO2 microspikes for highly efficient intracellular delivery by pulse laser-assisted photoporation
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Srabani Kar, Tuhin Subhra Santra, Pallab Sinha Mahapatra, Moeto Nagai, and L. Mohan
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chemistry.chemical_classification ,Materials science ,General Chemical Engineering ,Biomolecule ,02 engineering and technology ,General Chemistry ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,0104 chemical sciences ,Cell membrane ,chemistry.chemical_compound ,Nanopore ,medicine.anatomical_structure ,Membrane ,chemistry ,Monolayer ,medicine ,Biophysics ,Propidium iodide ,Viability assay ,0210 nano-technology ,Intracellular - Abstract
The introduction of foreign cargo into living cells with high delivery efficiency and cell viability is a challenge in cell biology and biomedical research. Here, we demonstrate a nanosecond pulse laser-activated photoporation for highly efficient intracellular delivery using titanium dioxide (TiO2) microspikes as a substratum. The TiO2 microspikes were formed on titanium (Ti) substrate using an electrochemical anodization process. Cells were cultured on top of the TiO2 microspikes as a monolayer, and the biomolecule was added. Due to pulse laser exposure of the TiO2 microspike-cell membrane interface, the microspikes heat up and induce cavitation bubbles, which rapidly grow, coalesce and collapse to induce explosion, resulting in very strong fluid flow at the cell membrane surface. Thus, the cell plasma membrane disrupts and creates transient nanopores, allowing delivery of biomolecules into cells by a simple diffusion process. By this technique, we successfully delivered propidium iodide (PI) dye in HeLa cells with high delivery efficiency (93%) and high cell viability (98%) using 7 mJ pulse energy at 650 nm wavelength. Thus, our TiO2 microspike-based platform is compact, easy to use, and potentially applicable for therapeutic and diagnostic purposes.
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- 2021
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20. Long-Term Stability and Optoelectronic Performance Enhancement of InAsP Nanowires with an Ultrathin InP Passivation Layer
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LuLu Chen, Stephanie O. Adeyemo, H. Aruni Fonseka, Huiyun Liu, Srabani Kar, Hui Yang, Anton Velichko, David J. Mowbray, Zhiyuan Cheng, Ana M. Sanchez, Hannah J Joyce, Yunyan Zhang, Fonseka, H Aruni [0000-0003-3410-6981], Mowbray, David J [0000-0002-7673-6837], Cheng, Zhiyuan [0000-0002-5603-968X], Sanchez, Ana M [0000-0002-8230-6059], Zhang, Yunyan [0000-0002-2196-7291], and Apollo - University of Cambridge Repository
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TK ,Mechanical Engineering ,photonic properties ,ultrathin InP ,QD ,General Materials Science ,Bioengineering ,long-term stability ,General Chemistry ,Condensed Matter Physics ,surface passivation ,QC ,thin nanowire - Abstract
Funder: Leverhulme Trust, The influence of nanowire (NW) surface states increases rapidly with the reduction of diameter and hence severely degrades the optoelectronic performance of narrow-diameter NWs. Surface passivation is therefore critical, but it is challenging to achieve long-term effective passivation without significantly affecting other qualities. Here, we demonstrate that an ultrathin InP passivation layer of 2-3 nm can effectively solve these challenges. For InAsP nanowires with small diameters of 30-40 nm, the ultrathin passivation layer reduces the surface recombination velocity by at least 70% and increases the charge carrier lifetime by a factor of 3. These improvements are maintained even after storing the samples in ambient atmosphere for over 3 years. This passivation also greatly improves the performance thermal tolerance of these thin NWs and extends their operating temperature from
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- 2022
21. Infrared Pulse Laser-Activated Highly Efficient Intracellular Delivery Using Titanium Microdish Device
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Fan-Gang Tseng, Pallavi Shinde, Mohan Loganathan, Tuhin Subhra Santra, Moeto Nagai, Srabani Kar, and Hwan-You Chang
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Materials science ,Cell Survival ,Infrared Rays ,0206 medical engineering ,Biomedical Engineering ,02 engineering and technology ,law.invention ,Biomaterials ,Cell membrane ,chemistry.chemical_compound ,law ,medicine ,Propidium iodide ,Viability assay ,Titanium ,Pulse (signal processing) ,Lasers ,Phototherapy ,Photothermal therapy ,021001 nanoscience & nanotechnology ,Laser ,020601 biomedical engineering ,Dextran ,medicine.anatomical_structure ,Membrane ,chemistry ,0210 nano-technology ,Biomedical engineering - Abstract
We report infrared (IR) pulse laser-activated highly efficient parallel intracellular delivery by using an array of titanium microdish (TMD) device. Upon IR laser pulse irradiation, a two-dimensional array of TMD device generated photothermal cavitation bubbles to disrupt the cell membrane surface and create transient membrane pores to deliver biomolecules into cells by a simple diffusion process. We successfully delivered the dyes and different sizes of dextran in different cell types with variations of laser pulses. Our platform has the ability to transfect more than a million cells in a parallel fashion within a minute. The best results were achieved for SiHa cells with a delivery efficiency of 96% and a cell viability of around 98% for propidium iodide dye using 600 pulses, whereas a delivery efficiency of 98% and a cell viability of 100% were obtained for dextran 3000 MW delivery using 700 pulses. For dextran 10,000 MW, the delivery efficiency was 92% and the cell viability was 98%, respectively. The device is compact, easy-to-use, and potentially applicable for cellular therapy and diagnostic purposes.
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- 2020
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22. Adverse Effects of Chromium, Cadmium and Zinc on the Growth and Metabolic Activities of Pulse Crops and their Key Management Strategies: A Review
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Ravindra Prasad and Srabani Kar
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Toxicology ,Chromium ,Cadmium ,chemistry ,chemistry.chemical_element ,Pulse crop ,Zinc ,Adverse effect - Published
- 2020
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23. Nano-localized single-cell nano-electroporation
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Fan-Gang Tseng, Tuhin Subhra Santra, Srabani Kar, and Hwan-You Chang
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Materials science ,Cell Survival ,Cell ,Biomedical Engineering ,Bioengineering ,Nanotechnology ,02 engineering and technology ,Transfection ,010402 general chemistry ,01 natural sciences ,Biochemistry ,Cell membrane ,Nano ,medicine ,Viability assay ,chemistry.chemical_classification ,Biomolecule ,Electroporation ,Cell Membrane ,technology, industry, and agriculture ,Pulse duration ,General Chemistry ,021001 nanoscience & nanotechnology ,0104 chemical sciences ,medicine.anatomical_structure ,chemistry ,0210 nano-technology ,Plasmids - Abstract
The ability to deliver foreign cargos into single living cells is of great interest in cell biology and therapeutic research. Here, we have reported a single or multiple position based nano-localized single-cell nano-electroporation platform. The device consists of an array of triangular shape ITO nano-electrodes with a 70 nm gap between two nano-electrodes, each having a 40 nm tip diameter. The voltage is applied between nano-electrodes to generate an intense electric field, which electroporates multiple nano-localized regions of the targeted single-cell membrane, and biomolecules are gently delivered into cells by pressurizing pump flow, without affecting cell viability. The platform successfully delivers dyes, QDs, and plasmids into different cell types with the variation of field strength, pulse duration, and the number of pulses. This new approach allows us to analyze delivery of different biomolecules into single living cells with high transfection efficiency (>96%, for CL1-0 cells) and high cell viability (∼98%), which are potentially beneficial for cellular therapy and diagnostic purposes.
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- 2020
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24. Role of regulatory pathways and multi-omics approaches for carbon capture and mitigation in cyanobacteria
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Niwas, Kumar, Srabani, Kar, and Pratyoosh, Shukla
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Environmental Engineering ,Renewable Energy, Sustainability and the Environment ,Bioengineering ,General Medicine ,Cyanobacteria ,Waste Management and Disposal ,Carbon ,Biotechnology - Abstract
Cyanobacteria are known for their metabolic potential and carbon capture and sequestration capabilities. These cyanobacteria are not only an effective source for carbon minimization and resource mobilization into value-added products for biotechnological gains. The present review focuses on the detailed description of carbon capture mechanisms exerted by the various cyanobacterial strains, the role of important regulatory pathways, and their subsequent genes responsible for such mechanisms. Moreover, this review will also describe effectual mechanisms of central carbon metabolism like isoprene synthesis, ethylene production, MEP pathway, and the role of Glyoxylate shunt in the carbon sequestration mechanisms. This review also describes some interesting facets of using carbon assimilation mechanisms for valuable bio-products. The role of regulatory pathways and multi-omics approaches in cyanobacteria will not only be crucial towards improving carbon utilization but also will give new insights into utilizing cyanobacterial bioresource for carbon neutrality.
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- 2022
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25. Microfluidic platforms for single neuron analysis
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Pallavi Gupta, Ashwini Shinde, Kavitha Illath, Srabani Kar, Moeto Nagai, Fan-Gang Tseng, Tuhin Subhra Santra, Santra, Tuhin Subhra [0000-0002-9403-2155], and Apollo - University of Cambridge Repository
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Single axon guidance ,Single cell analysis ,Microfluidic devices ,Biomedical Engineering ,Omics ,Bioengineering ,Cell Biology ,Biomaterials ,Single neuron dynamics ,nervous system ,Single neuron analysis ,Molecular Biology ,Biotechnology ,Microelectrode array - Abstract
Single-neuron actions are the basis of brain function, as clinical sequelae, neuronal dysfunction or failure for most of the central nervous system (CNS) diseases and injuries can be identified via tracing single-neurons. The bulk analysis methods tend to miscue critical information by assessing the population-averaged outcomes. However, its primary requisite in neuroscience to analyze single-neurons and to understand dynamic interplay of neurons and their environment. Microfluidic systems enable precise control over nano-to femto-liter volumes via adjusting device geometry, surface characteristics, and flow-dynamics, thus facilitating a well-defined micro-environment with spatio-temporal control for single-neuron analysis. The microfluidic platform not only offers a comprehensive landscape to study brain cell diversity at the level of transcriptome, genome, and/or epigenome of individual cells but also has a substantial role in deciphering complex dynamics of brain development and brain-related disorders. In this review, we highlight recent advances of microfluidic devices for single-neuron analysis, i.e., single-neuron trapping, single-neuron dynamics, single-neuron proteomics, single-neuron transcriptomics, drug delivery at the single-neuron level, single axon guidance, and single-neuron differentiation. Moreover, we also emphasize limitations and future challenges of single-neuron analysis by focusing on key performances of throughput and multiparametric activity analysis on microfluidic platforms.
- Published
- 2021
26. Light-Induced Cellular Delivery and Analysis
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Srabani Kar, Tuhin Subhra Santra, Ashwini S. Shinde, Moeto Nagai, and Fan-Gang Tseng
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Materials science ,Light induced ,Biophysics - Published
- 2021
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27. Ethacrynic acid is an inhibitor of human factor XIIIa
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Madhusoodanan Mottamal, Rami A. Al-Horani, Srabani Kar, and Kayla Vu
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Pharmacology ,Fibrin ,Ethacrynic Acid ,Chemistry ,Humans ,Pharmacology (medical) ,Factor XIIIa ,Molecular biology ,Blood Coagulation ,Antifibrinolytic Agents - Abstract
Background Ethacrynic acid (EA) is a loop diuretic that is approved orally and parenterally to manage edema-associated diseases. Nevertheless, it was earlier reported that it is also associated with bleeding upon its parenteral administration. In this report, we investigated the effects of EA on human factor XIIIa (FXIIIa) of the coagulation process using a variety of techniques. Methods A series of biochemical and computational methods have been used in this study. The potency and efficacy of human FXIIIa inhibition by EA was evaluated using a bisubstrate-based fluorescence trans-glutamination assay under near physiological conditions. To establish the physiological relevance of FXIIIa inhibition by EA, the effect on FXIIIa-mediated polymerization of fibrin(ogen) as well as the formation of fibrin(ogen) – α2-antiplasmin complex was evaluated using SDS-PAGE experiments. The selectivity profile of EA against other coagulation proteins was assessed by evaluating EA’s effect on human clotting times in the activated partial thromboplastin time (APTT) and the prothrombin time (PT) assays. We also used molecular modeling studies to put forward a putative binding mode for EA in the active site of FXIIIa. Results involving EA were the average of at least three experiments and the standard error ± 1 was provided. In determining the inhibition parameters, we used non-linear regression analysis. Results FXIIIa is a transglutaminase that works at the end of the coagulation process to form an insoluble, rigid, and cross-linked fibrin rich blood clot. In fact, inhibition of FXIIIa-mediated biological processes has been reported to result in a bleeding diathesis. Inhibition of FXIIIa by EA was investigated given the nucleophilic nature of the thiol-containing active site of the enzyme and the Michael acceptor-based electrophilicity of EA. In a bisubstrate-based fluorescence trans-glutamination assay, EA inhibited FXIIIa with a moderate potency (IC50 ~ 105 µM) and efficacy (∆Y ~ 66%). In SDS-PAGE experiments, EA appears to significantly inhibit the FXIIIa-mediated polymerization of fibrin(ogen) as well as the formation of fibrin(ogen) – α2-antiplasmin complex which indicates that EA affects the physiological functions of FXIIIa. Interestingly, EA did not affect the clotting times of human plasma in the APTT and the PT assays at the highest concentration tested of 2.5 mM suggesting the lack of effects on the coagulation serine proteases and potentially the functional selectivity of EA with respect to the clotting process. Molecular modeling studies demonstrated that the Michael acceptor of EA forms a covalent bond with catalytic residue of Cys314 in the active site of FXIIIa. Conclusions Overall, our studies indicate that EA inhibits the physiological function of human FXIIIa in vitro which may potentially contribute to the bleeding complications that were reported with the association of the parenteral administration of EA.
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- 2021
28. Fabrication of TiO
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L, Mohan, Srabani, Kar, Pallab Sinha, Mahapatra, Moeto, Nagai, and Tuhin Subhra, Santra
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Article - Abstract
The introduction of foreign cargo into living cells with high delivery efficiency and cell viability is a challenge in cell biology and biomedical research. Here, we demonstrate a nanosecond pulse laser-activated photoporation for highly efficient intracellular delivery using titanium dioxide (TiO2) microspikes as a substratum. The TiO2 microspikes were formed on titanium (Ti) substrate using an electrochemical anodization process. Cells were cultured on top of the TiO2 microspikes as a monolayer, and the biomolecule was added. Due to pulse laser exposure of the TiO2 microspike–cell membrane interface, the microspikes heat up and induce cavitation bubbles, which rapidly grow, coalesce and collapse to induce explosion, resulting in very strong fluid flow at the cell membrane surface. Thus, the cell plasma membrane disrupts and creates transient nanopores, allowing delivery of biomolecules into cells by a simple diffusion process. By this technique, we successfully delivered propidium iodide (PI) dye in HeLa cells with high delivery efficiency (93%) and high cell viability (98%) using 7 mJ pulse energy at 650 nm wavelength. Thus, our TiO2 microspike-based platform is compact, easy to use, and potentially applicable for therapeutic and diagnostic purposes.
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- 2021
29. Pulsed laser assisted high-throughput intracellular delivery in hanging drop based three dimensional cancer spheroids†
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Pallab Sinha Mahapatra, Shantanu Pradhan, Srabani Kar, Pallavi Gupta, Fan-Gang Tseng, Ashish Kumar, and Tuhin Subhra Santra
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Materials science ,Cell Survival ,Metal Nanoparticles ,02 engineering and technology ,010402 general chemistry ,01 natural sciences ,Biochemistry ,Article ,Analytical Chemistry ,law.invention ,Cell membrane ,chemistry.chemical_compound ,law ,Neoplasms ,Spheroids, Cellular ,Electrochemistry ,medicine ,Environmental Chemistry ,Humans ,Propidium iodide ,Cell damage ,Spectroscopy ,Lasers ,Spheroid ,021001 nanoscience & nanotechnology ,Laser ,medicine.disease ,Fluorescence ,0104 chemical sciences ,medicine.anatomical_structure ,chemistry ,Cancer cell ,Biophysics ,Gold ,0210 nano-technology ,Intracellular - Abstract
Targeted intracellular delivery of biomolecules and therapeutic cargo enables the controlled manipulation of cellular processes. Laser-based optoporation has emerged as a versatile, non-invasive technique that employs light-based transient physical disruption of the cell membrane and achieves high transfection efficiency with low cell damage. Testing of the delivery efficiency of optoporation-based techniques has been conducted on single cells in monolayers, but its applicability in three-dimensional (3D) cell clusters/spheroids has not been explored. Cancer cells grown as 3D tumor spheroids are widely used in anti-cancer drug screening and can be potentially employed for testing delivery efficiency. Towards this goal, we demonstrated the optoporation-based high-throughput intracellular delivery of a model fluorescent cargo (propidium iodide, PI) within 3D SiHa human cervical cancer spheroids. To enable this technique, nano-spiked core–shell gold-coated polystyrene nanoparticles (ns-AuNPs) with a high surface-to-volume ratio were fabricated. ns-AuNPs exhibited high electric field enhancement and highly localized heating at an excitation wavelength of 680 nm. ns-AuNPs were co-incubated with cancer cells within hanging droplets to enable the rapid aggregation and assembly of spheroids. Nanosecond pulsed-laser excitation at the optimized values of laser fluence (45 mJ cm(−2)), pulse frequency (10 Hz), laser exposure time (30 s), and ns-AuNP concentration (5 × 10(10) particles per ml) resulted in the successful delivery of PI dye into cancer cells. This technique ensured high delivery efficiency (89.6 ± 2.8%) while maintaining high cellular viability (97.4 ± 0.4%), thereby validating the applicability of this technique for intracellular delivery. The optoporation-based strategy can enable high-throughput single cell manipulation, is scalable towards larger 3D tissue constructs, and may provide translational benefits for the delivery of anti-cancer therapeutics to tumors.
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- 2021
30. Ultrafast terahertz photoresponse of single and double-walled carbon nanotubes: Optical pump-terahertz probe spectroscopy
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Srabani Kar and A. K. Sood
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Materials science ,Condensed Matter::Other ,business.industry ,Terahertz radiation ,Carrier scattering ,Scattering ,Photoconductivity ,02 engineering and technology ,General Chemistry ,Carbon nanotube ,Condensed Matter::Mesoscopic Systems and Quantum Hall Effect ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,0104 chemical sciences ,law.invention ,Optical pumping ,Condensed Matter::Materials Science ,Semiconductor ,law ,Scattering rate ,Optoelectronics ,General Materials Science ,0210 nano-technology ,business - Abstract
Photocarrier excitation in conventional semiconductors enhances the conductivity due to increased intraband absorption of terahertz (THz) radiation. We report frequency dependent photoconductivity in terahertz range after 800 nm optical pump excitation in (6,5) semiconducting single-walled carbon nanotubes (SWCNT) and double-walled carbon nanotubes (DWCNT) containing both metallic and semiconducting tubes. The real and imaginary parts of photoconductivity (Δσ(ω)) show non-Drude behavior. In SWCNT, the real part ΔσRe(ω) is positive for low frequency and negative on the high-frequency side of the terahertz spectra. In contrast, DWCNTs show negative ΔσRe(ω) on low frequency and positive on the high-frequency side. This contrasting behavior is explained using Boltzmann transport theory, where the carrier scattering rate is energy dependent. Taking the scattering rate to be dominated by short-range disorder scattering, we show that the Boltzmann transport model captures the unique experimental features of Δσ(ω), for SWCNT as well as DWCNT. Both the semiconducting and metallic nanotubes in DWCNT are shown to contribute to the observed photoconductivity.
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- 2019
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31. Microfluidic nanomaterials: From synthesis to biomedical applications
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Pallavi Gupta, Syrpailyne Wankhar, Srabani Kar, Kavitha Illath, Fan-Gang Tseng, Ashwini S. Shinde, Tuhin Subhra Santra, Moeto Nagai, and Ki-Taek Lim
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Computer science ,Microfluidics ,Biophysics ,New materials ,Bioengineering ,Nanotechnology ,Nanomaterials ,Nanostructures ,Biomaterials ,Biopolymers ,Mechanics of Materials ,Lab-On-A-Chip Devices ,Quantum Dots ,Ceramics and Composites ,Clinical evaluation - Abstract
Microfluidic platforms gain popularity in biomedical research due to their attractive inherent features, especially in nanomaterials synthesis. This review critically evaluates the current state of the controlled synthesis of nanomaterials using microfluidic devices. We describe nanomaterials' screening in microfluidics, which is very relevant for automating the synthesis process for biomedical applications. We discuss the latest microfluidics trends to achieve noble metal, silica, biopolymer, quantum dots, iron oxide, carbon-based, rare-earth-based, and other nanomaterials with a specific size, composition, surface modification, and morphology required for particular biomedical application. Screening nanomaterials has become an essential tool to synthesize desired nanomaterials using more automated processes with high speed and repeatability, which can't be neglected in today's microfluidic technology. Moreover, we emphasize biomedical applications of nanomaterials, including imaging, targeting, therapy, and sensing. Before clinical use, nanomaterials have to be evaluated under physiological conditions, which is possible in the microfluidic system as it stimulates chemical gradients, fluid flows, and the ability to control microenvironment and partitioning multi-organs. In this review, we emphasize the clinical evaluation of nanomaterials using microfluidics which was not covered by any other reviews. In the future, the growth of new materials or modification in existing materials using microfluidics platforms and applications in a diversity of biomedical fields by utilizing all the features of microfluidic technology is expected.
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- 2021
32. Dirac surface plasmons in photoexcited bismuth telluride nanowires: optical pump-terahertz probe spectroscopy
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Abinash Kumar, Srabani Kar, D. V. S. Muthu, N. Ravishankar, A. K. Sood, and K P Mithun
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Materials science ,Terahertz radiation ,Surface plasmon ,Physics::Optics ,02 engineering and technology ,021001 nanoscience & nanotechnology ,01 natural sciences ,Molecular physics ,Photoexcitation ,Optical pumping ,chemistry.chemical_compound ,chemistry ,Topological insulator ,0103 physical sciences ,General Materials Science ,Bismuth telluride ,010306 general physics ,0210 nano-technology ,Plasmon ,Surface states - Abstract
Collective excitation of Dirac plasmons in graphene and topological insulators has opened new possibilities of tunable plasmonic materials ranging from THz to mid-infrared regions. Using time resolved Optical Pump-Terahertz Probe (OPTP) spectroscopy, we demonstrate the presence of plasmonic oscillations in bismuth telluride nanowires (Bi2Te3 NWs) after photoexcitation using an 800 nm pump pulse. In the frequency domain, the differential conductivity (Δσ = σpump on − σpump off) spectrum shows a Lorentzian response where the resonance frequency (ωp), attributed to surface plasmon oscillations, shifts with photogenerated carrier density (n) as . This dependence establishes the absorption of THz radiation by the Dirac surface plasmon oscillations of the charge carriers in the Topological Surface States (TSS) of Bi2Te3 NWs. Moreover, we obtain a modulation depth, tunable by pump fluence, of ∼40% over the spectral range of 0.5 to 2.5 THz. In addition, the time evolution of Δσ(t) represents a long relaxation channel lasting for more than 50 ps. We model the decay dynamics of Δσ(t) using coupled second order rate equations, highlighting the contributions from surface recombination as well as from trap mediated relaxation channels of the photoinjected carriers.
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- 2021
33. Gold-Polystyrene Core-Shell Hybrid Nanoparticles Mediated Highly Efficient Intracellular Delivery Using Light Pulses
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Moeto Nagai, Srabani Kar, Tuhin Subhra Santra, Syrpailyne Wankhar, Kavitha Illath, and Fan-Gang Tseng
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chemistry.chemical_classification ,Materials science ,Biomolecule ,Molecular biophysics ,Nanoparticle ,02 engineering and technology ,Transfection ,Polymer ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,0104 chemical sciences ,chemistry.chemical_compound ,Membrane ,chemistry ,Drug delivery ,Biophysics ,Propidium iodide ,0210 nano-technology - Abstract
Cellular transfection is a method by which exogenous biomolecules can be introduced into the cells. In the fields of molecular and cellular biology, cellular transfection is considered an essential tool, specifically for applications such as drug delivery, cellular therapy, and biomedical imaging. Photoporation based cellular transfection approach uses high-intensity light energy to create membrane pores, sometimes nanoparticles are incorporated to achieve the result at low intensity. In this work, hybrid nanoparticles, composed of gold and polystyrene are used to mediate the photoporation. Laser fluence, exposure time, wavelength, the concentration of nanoparticles, and concentration of exogenous molecules are optimized for the successful delivery of propidium iodide dye, quantum dots, and plasmid into CL1-0, AGS, and P-19 cells. The best results (delivery efficiency of 92% and cell viability of 98%) are achieved in delivering propidium iodide dye into CL1-0 cells.
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- 2021
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34. High Charge Carrier Mobilities and Long Diffusion Lengths in Tin Based Metal Halide Perovskite
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Ravi Silva, Stephanie O. Adeyemo, Shashini M. Silva, Hannah J. Joyce, K. D. G. Imalka Jayawardena, and Srabani Kar
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Materials science ,Annealing (metallurgy) ,Band gap ,Photoconductivity ,Diffusion ,Analytical chemistry ,chemistry.chemical_element ,Halide ,02 engineering and technology ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,0104 chemical sciences ,chemistry ,Charge carrier ,0210 nano-technology ,Tin ,Perovskite (structure) - Abstract
Tin (Sn)-based perovskites are promising for lower band gap and tandem solar cells due to their red-shifted band gap towards the infrared region. However, Sn based hybrid metal halide perovskite is well known to suffer rapid photoconductivity decay due to the oxidation of Sn2+ to Sn4+ under atmospheric oxygen. Here, the charge carrier dynamics of tin based metal halide perovskite is investigated using optical pump-terahertz probe (OPTP) spectroscopy. Also, the performance of the perovskite films at different annealing temperatures is compared and the best performing temperature is identified. The Sn based perovskite films exhibited a remarkable charge carrier mobility and diffusion length.
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- 2020
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35. Potential Anti-SARS-CoV-2 Therapeutics That Target the Post-Entry Stages of the Viral Life Cycle: A Comprehensive Review
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Srabani Kar and Rami A. Al-Horani
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0301 basic medicine ,medicine.drug_class ,dihydroorotate dehydrogenase ,030106 microbiology ,Pneumonia, Viral ,Anti-Inflammatory Agents ,lcsh:QR1-502 ,RNA-dependent RNA polymerase ,remdesivir ,dexamethasone ,papain-like protease ,Review ,Favipiravir ,favipiravir ,Bioinformatics ,medicine.disease_cause ,Monoclonal antibody ,Antiviral Agents ,lcsh:Microbiology ,03 medical and health sciences ,Betacoronavirus ,Drug Delivery Systems ,Viral life cycle ,Drug Development ,Virology ,Pandemic ,Medicine ,Animals ,Humans ,Protease Inhibitors ,Pandemics ,Coronavirus ,Clinical Trials as Topic ,business.industry ,SARS-CoV-2 ,Antibodies, Monoclonal ,COVID-19 ,COVID-19 Drug Treatment ,Clinical trial ,030104 developmental biology ,Infectious Diseases ,Drug development ,main protease ,EIDD-2801 ,business ,Coronavirus Infections ,Peptides - Abstract
The coronavirus disease-2019 (COVID-19) pandemic continues to challenge health care systems around the world. Scientists and pharmaceutical companies have promptly responded by advancing potential therapeutics into clinical trials at an exponential rate. Initial encouraging results have been realized using remdesivir and dexamethasone. Yet, the research continues so as to identify better clinically relevant therapeutics that act either as prophylactics to prevent the infection or as treatments to limit the severity of COVID-19 and substantially decrease the mortality rate. Previously, we reviewed the potential therapeutics in clinical trials that block the early stage of the viral life cycle. In this review, we summarize potential anti-COVID-19 therapeutics that block/inhibit the post-entry stages of the viral life cycle. The review presents not only the chemical structures and mechanisms of the potential therapeutics under clinical investigation, i.e., listed in clinicaltrials.gov, but it also describes the relevant results of clinical trials. Their anti-inflammatory/immune-modulatory effects are also described. The reviewed therapeutics include small molecules, polypeptides, and monoclonal antibodies. At the molecular level, the therapeutics target viral proteins or processes that facilitate the post-entry stages of the viral infection. Frequent targets are the viral RNA-dependent RNA polymerase (RdRp) and the viral proteases such as papain-like protease (PLpro) and main protease (Mpro). Overall, we aim at presenting up-to-date details of anti-COVID-19 therapeutics so as to catalyze their potential effective use in fighting the pandemic.
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- 2020
36. Optical Manipulation of Cells
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Pallavi Shinde, Srabani Kar, Moeto Nagai, and Tuhin Subhra Santra
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Materials science - Published
- 2020
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37. Microfluidic Electroporation and Applications
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Pallavi Shinde, L. Mohan, Saumendra Kumar Bajpai, Koyel Dey, Srabani Kar, and Tuhin Subhra Santra
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Materials science ,Electroporation ,Microfluidics ,Nanotechnology - Published
- 2020
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38. Potential Anti-COVID-19 Therapeutics that Block the Early Stage of the Viral Life Cycle: Structures, Mechanisms, and Clinical Trials
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Srabani Kar, Kholoud F. Aliter, and Rami A. Al-Horani
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0301 basic medicine ,coronavirus ,ACE2 ,Disease ,Review ,Bioinformatics ,medicine.disease_cause ,spike protein ,lcsh:Chemistry ,0302 clinical medicine ,Pandemic ,Medicine ,030212 general & internal medicine ,lcsh:QH301-705.5 ,Spectroscopy ,Coronavirus ,Clinical Trials as Topic ,Antibodies, Monoclonal ,General Medicine ,Computer Science Applications ,Coronavirus Infections ,medicine.drug_class ,Pneumonia, Viral ,Virus Attachment ,Monoclonal antibody ,TMPRSS2 ,Antiviral Agents ,Catalysis ,Inorganic Chemistry ,Small Molecule Libraries ,03 medical and health sciences ,Betacoronavirus ,Viral life cycle ,Viral entry ,Polysaccharides ,endocytosis ,Humans ,Physical and Theoretical Chemistry ,Molecular Biology ,Pandemics ,business.industry ,SARS-CoV-2 ,Organic Chemistry ,COVID-19 ,Virus Internalization ,Clinical trial ,030104 developmental biology ,lcsh:Biology (General) ,lcsh:QD1-999 ,viral entry ,business ,Peptides ,viral fusion - Abstract
The ongoing pandemic of coronavirus disease-2019 (COVID-19) is being caused by severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2). The disease continues to present significant challenges to the health care systems around the world. This is primarily because of the lack of vaccines to protect against the infection and the lack of highly effective therapeutics to prevent and/or treat the illness. Nevertheless, researchers have swiftly responded to the pandemic by advancing old and new potential therapeutics into clinical trials. In this review, we summarize potential anti-COVID-19 therapeutics that block the early stage of the viral life cycle. The review presents the structures, mechanisms, and reported results of clinical trials of potential therapeutics that have been listed in clinicaltrials.gov. Given the fact that some of these therapeutics are multi-acting molecules, other relevant mechanisms will also be described. The reviewed therapeutics include small molecules and macromolecules of sulfated polysaccharides, polypeptides, and monoclonal antibodies. The potential therapeutics target viral and/or host proteins or processes that facilitate the early stage of the viral infection. Frequent targets are the viral spike protein, the host angiotensin converting enzyme 2, the host transmembrane protease serine 2, and clathrin-mediated endocytosis process. Overall, the review aims at presenting update-to-date details, so as to enhance awareness of potential therapeutics, and thus, to catalyze their appropriate use in combating the pandemic.
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- 2020
39. Formation of nanostructures on magnesium alloy by anodization for potential biomedical applications
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L. Mohan, Moeto Nagai, B Nandhini, Tuhin Subhra Santra, Srabani Kar, and Sathish Sundar Dhilip Kumar
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Materials science ,Nanostructure ,Biocompatibility ,Anodizing ,Simulated body fluid ,02 engineering and technology ,Electrolyte ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,Article ,0104 chemical sciences ,Dielectric spectroscopy ,chemistry.chemical_compound ,Chemical engineering ,chemistry ,Mechanics of Materials ,Materials Chemistry ,General Materials Science ,Magnesium alloy ,0210 nano-technology ,Ethylene glycol - Abstract
In the present work, we have investigated the formation of nanostructures on AZ31 magnesium alloy using electrochemical anodization technique. The formed nanostructures were efficiently showed bone-like apatite formation followed by its gradual increase, when immersed in simulated body fluid (SBF) and it exhibited controlled degradation in 7 days. Cell viability study was performed using MG-63 cells (human osteosarcoma cell lines) and revealed that the nanostructured surface has excellent biocompatibility by enhancing both cell adhesion and cell growth. The detailed characterization of this anodized surface was evaluated by field emission scanning electron microscopy (FESEM) and energy-dispersive X-ray spectroscopy (EDS). Furthermore, surface-corrosion before and after anodization was examined by electrochemical impedance spectroscopy (EIS) and potentiodynamic polarization studies in SBF. The in-depth studies bring out the fact that native oxide in the sample is converted to a biocompatible nanostructure, which is created due to anodization in a particular electrolyte solution containing ethylene glycol and hybrid hydrofluoric acid mixture.
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- 2020
40. Near-infrared nanosecond-pulsed laser-activated highly efficient intracellular delivery mediated by nano-corrugated mushroom-shaped gold-coated polystyrene nanoparticles
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Te-Chang Chen, Tuhin Subhra Santra, Jayant Borana, Ming-Chang M. Lee, Chih-Wei Chen, Srabani Kar, and Fan-Gang Tseng
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Materials science ,business.industry ,Cell Survival ,Lasers ,Surface plasmon ,Fluence ,Membrane ,Quantum dot ,Nano ,Optoelectronics ,Nanoparticles ,Polystyrenes ,General Materials Science ,Gold ,business ,Absorption (electromagnetic radiation) ,Plasmon ,Intracellular - Abstract
Here, an efficient intracellular delivery of molecules with high cell viability is reported using nanosecond-pulsed laser-activated plasmonic photoporation, mediated by high-aspect-ratio nano-corrugated mushroom-shaped gold-coated polystyrene nanoparticles (nm-AuPNPs) at near-infrared wavelength. Upon pulsed laser illumination, nm-AuPNPs exhibit greater plasmonic extinction than spherical AuPNPs, which increase their energy efficiency and reduce the necessary illumination of light, effectively controlling cell damage and improving the delivery efficiency. Nm-AuPNPs exhibit surface plasmon absorption at near infrared region with a peak at 945 nm. Pulsed laser illumination at this plasmon peak triggers explosive nanobubbles, which create transient membrane pores, allowing the delivery of dyes, quantum dots and plasmids into the different cell types. The results can be tuned by laser fluence, exposure time, molecular size and concentration of nm-AuPNPs. The best results are found for CL1-0 cells, which yielded a 94% intracellular PI dye uptake and ∼100% cell viability at 35 mJ cm−2 laser fluence for 945 nm wavelength. Thus, the presented approach has proven to have an inevitable potential for biological cell research and therapeutic applications.
- Published
- 2020
41. Contributors
- Author
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Tarun Kumar Barik, Abid Bhat, Ramesh Chandra, Vivekanand Chatap, Saravana Babu Chidambaram, Jørn B. Christensen, Rolf Daniels, Xavier Delgadillo, Koyel Dey, Namdev Dhas, Sunil Kumar Dubey, Sachin Dubey, Mysore Prakash Gowrav, Siddhanth Hejmady, Padamati Jagadeeswari, Paul Joyce, Srabani Kar, null Kavitha, Aljoscha Koenneke, Amogh Kumar, Arehally Marappa Mahalakshmi, Tahlia R. Meola, L. Mohan, Srinivas Mutalik, Francis Kamau Mwiiri, Moeto Nagai, Abhijeet Pandey, Kamla Pathak, Marcel Pourasghar, Clive A. Prestidge, Vamshi Krishna Rapalli, Kamal Singh Rathore, Bipul Ray, Meena Kishore Sakharkar, Tuhin Subhra Santra, Marc Schneider, Hayley B. Schultz, Javad Sharifi-Rad, Pallavi Shinde, Debjani Singh, Gautam Singhvi, Tuladhar Sunanda, Akhilesh Kumar Tewari, and Philippe Wuthrich
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- 2020
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42. Physical approaches for drug delivery
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T. K. Barik, Javad Sharifi-Rad, Koyel Dey, Tuhin Subhra Santra, Moeto Nagai, Amogh Kumar, Pallavi Shinde, Kavitha, L. Mohan, and Srabani Kar
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Low toxicity ,Hydrophilic membrane ,Computer science ,Electroporation ,Genetic enhancement ,Drug delivery ,Computational biology ,Gene gun ,Viral vector - Abstract
Delivery of exogenous materials or cargo such as drugs, proteins, peptides, and nucleic acids into cells is a vital segment in molecular and cellular biology for potential cellular therapy and drug-discovery applications contributing toward personalization of medicine. Over the years, drug-delivery techniques have been developed in order to gain more control over the drug dosage, targeted delivery, and to minimize side effects. The major drug-delivery techniques can be classified as viral, chemical, and physical methods. Viral vectors are prominently used for gene therapy; however, they are cell-specific and have an immune response with high toxicity. Chemical methods are often limited by the low efficiency of plasmid delivery into different cell types due to plasmid degradation and toxicity. Considering these limitations, different physical methods such as photoporation, gene gun, hydrodynamic injection, electroporation, and mechanoporation, etc., are being widely developed for highly efficient cargo delivery with low toxicity. These methods are able to create transient hydrophilic membrane pores to deliver cargos into cells using different physical energies. Currently, ex vivo cargo delivery is widely studied while few in vivo applications have been developed. Concerning several obstacles to cargo delivery into cells, this chapter mainly focuses on different physical drug-delivery techniques such as electroporation, optoporation, mechanoporation, magnetoporation, and hybrid techniques along with their working mechanisms, advantages, disadvantages, and limitations. An insight into the future prospects and real-time applications of these techniques is also discussed.
- Published
- 2020
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43. Enhanced performance of InAsP nanowires with ultra-thin passivation layer
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Srabani Kar, Yunyan Zhang, Huiyun Liu, Stephanie O. Adeyemo, and Hannah J. Joyce
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010302 applied physics ,Materials science ,Passivation ,business.industry ,Band gap ,Photoconductivity ,Nanowire ,02 engineering and technology ,Carrier lifetime ,021001 nanoscience & nanotechnology ,01 natural sciences ,chemistry.chemical_compound ,chemistry ,0103 physical sciences ,Indium phosphide ,Optoelectronics ,4018 Nanotechnology ,0210 nano-technology ,business ,Layer (electronics) ,51 Physical Sciences ,Surface states ,40 Engineering - Abstract
Surface passivation with a higher band gap shell has been shown to successfully reduce the density of surface states at the surface of nanowires. The effect of ultra-thin InP passivation layers of thicknesses $\sim 3 -5$ nm coated on InAsP nanowires is investigated and compared to bare InAsP nanowires. The ultra-thin passivation exhibited an improvement in carrier lifetime and mobility by approximately a factor of 3. Surface recombination velocity was decreased by at least a factor of 3.
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- 2019
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44. Effect of CoCl2 or H2O2 pre-conditioned mesenchymal stem cells in a mouse model of pulmonary fibrosis
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Ena Ray Banerjee, Srabani Kar, and Alpana Dave
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Pathology ,medicine.medical_specialty ,Lung ,medicine.diagnostic_test ,business.industry ,Mesenchymal stem cell ,Inflammation ,Bleomycin ,medicine.disease ,Symptomatic relief ,General Biochemistry, Genetics and Molecular Biology ,chemistry.chemical_compound ,medicine.anatomical_structure ,Bronchoalveolar lavage ,chemistry ,Pulmonary fibrosis ,medicine ,Bone marrow ,medicine.symptom ,business - Abstract
Introduction: Pulmonary Fibrosis is characterized by excessive matrix deposition which leads to airway remodeling and disruption of the typical architecture of the lung parenchyma. The disease progression is associated with a high mortality rate. The current treatment for pulmonary fibrosis includes drugs which either reduce progression of the disease or provide symptomatic relief. Multiple studies have examined the effect of cell-based therapy in pulmonary fibrosis. We investigated the effect of administration of pre-conditioned bone marrow-derived mesenchymal stem cells (BMMSC) in a mouse model of pulmonary fibrosis. Methods: Firstly, we examined the effect of pre-conditioning on the cells using cell-based assays. We found that pre-conditioning did not significantly alter cell proliferation or led to cellular inflammation. The cells continued to express MSC marker, CD105, and pluripotency marker Oct3/4. Next, we evaluated the proliferative and anti-inflammatory potential of BMMSC administration using a series of assays in a mouse model of pulmonary fibrosis. Bleomycin was administered to induce pulmonary fibrosis in mice on Day 0. MSCs were administered on day 1 and day 3; the mice were sacrificed on day 22, and their tissues were collected for analysis. Results: We found that similar to untreated cells, administration of pre-conditioned cells resulted in an increase in the proliferative potential and reduction in inflammation in the lung tissue, bronchoalveolar lavage, bone marrow, and blood. We observed reduction in the number of granulocytes in peripheral blood upon MSC administration. However, we did not observe any structural changes in the lung upon MSC administration. We found a small reduction in collagen content in the lung which was also seen upon staining with Masson's trichrome. Conclusion: These results demonstrate that pre-conditioned BM-MSC lead to improvement in the disease state through paracrine effects but pre-conditioning of cells for 24 hours does not significantly improve the beneficial effect of MSC administration.
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- 2018
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45. Ultrafast Spectral Photoresponse of Bilayer Graphene: Optical Pump–Terahertz Probe Spectroscopy
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A. K. Sood, Van Luan Nguyen, Srabani Kar, Dipti R. Mohapatra, and Young Hee Lee
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Materials science ,Phonon scattering ,Condensed matter physics ,Terahertz radiation ,Scattering ,Photoconductivity ,General Engineering ,General Physics and Astronomy ,02 engineering and technology ,Conductivity ,Condensed Matter::Mesoscopic Systems and Quantum Hall Effect ,021001 nanoscience & nanotechnology ,01 natural sciences ,Optical pumping ,Condensed Matter::Materials Science ,0103 physical sciences ,General Materials Science ,010306 general physics ,0210 nano-technology ,Spectroscopy ,Bilayer graphene - Abstract
Photoinduced terahertz conductivity Δσ(ω) of Bernal stacked bilayer graphene (BLG) with different dopings is measured by time-resolved optical pump terahertz probe spectroscopy. The real part of photoconductivity Δσ(ω) (ΔσRe(ω)) is positive throughout the spectral range 0.5-2.5 THz in low-doped BLG. This is in sharp contrast to Δσ(ω) for high-doped bilayer graphene where ΔσRe(ω) is negative at low frequency and positive on the high frequency side. We use Boltzmann transport theory to understand quantitatively the frequency dependence of Δσ(ω), demanding the energy dependence of different scattering rates such as short-range impurity scattering, Coulomb scattering, carrier-acoustic phonon scattering, and substrate surface optical phonon scattering. We find that the short-range disorder scattering dominates over other processes. The calculated photoconductivity captures very well the experimental conductivity spectra as a function of lattice temperature varying from 300 to 4 K, without any empirical fitting procedures adopted so far in the literature. This helps us to understand the intraband conductivity of photoexcited hot carriers in 2D materials.
- Published
- 2018
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46. Electrochemical fabrication of TiO2 micro-flowers for an efficient intracellular delivery using nanosecond light pulse
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Moeto Nagai, Tuhin Subhra Santra, L. Mohan, and Srabani Kar
- Subjects
chemistry.chemical_classification ,Materials science ,Biomolecule ,chemistry.chemical_element ,Substrate (chemistry) ,Nanotechnology ,02 engineering and technology ,Nanosecond ,010402 general chemistry ,021001 nanoscience & nanotechnology ,Condensed Matter Physics ,01 natural sciences ,Article ,0104 chemical sciences ,Titanium oxide ,chemistry.chemical_compound ,chemistry ,Titanium dioxide ,General Materials Science ,Viability assay ,0210 nano-technology ,Intracellular ,Titanium - Abstract
Introduction of foreign cargo into the targeted living cell with high transfection efficiency and high cell viability is an important mean for many biological and biomedical research purpose. Here, we have demonstrated a newly developed Titanium oxide micro-flower structure (TMS) for intracellular delivery. The TMS were formed on titanium (Ti) substrate using an electrochemical anodization process. The TMS consists of branches of titanium dioxide (TiO2) nanotubes, which play an important role in efficient cargo delivery. Due to nanosecond pulse laser exposure, Ti substrate heat-up, generating cavitation bubbles. These bubbles can rapidly grow, coalesce, and collapse to induce explosion resulting in very strong fluid flow through the TiO2 nanotubes and disrupt the cell plasma membrane promoting the delivery of biomolecules into cells. Using this platform, we successfully deliver dyes with 93% efficiency and nearly 98% cell viability into HCT cells, and this technique is potentially applicable for cellular therapy and diagnostics.
- Published
- 2021
- Full Text
- View/download PDF
47. Terahertz Spectroscopy to Unveil Intraband Scattering in Photoexcited Graphene
- Author
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Srabani Kar, A. K. Sood, Stephanie O. Adeyemo, and Hannah J. Joyce
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Materials science ,Condensed Matter::Other ,Graphene ,Terahertz radiation ,Scattering ,Physics::Optics ,Fermi energy ,02 engineering and technology ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,Molecular physics ,Light scattering ,0104 chemical sciences ,law.invention ,Terahertz spectroscopy and technology ,law ,Physics::Chemical Physics ,0210 nano-technology ,Bilayer graphene ,Spectroscopy - Abstract
Intraband scattering dynamics of optically excited graphene has been explored by using time resolved terahertz spectroscopy. The results for different forms of graphene in terms of layers, Fermi energy position, hydrogen functionalization have been discussed and explained by using Boltzmann transport theory. It is shown how the short-range and Coulomb scattering play important roles in determining photo-induced terahertz conductivity. While photoexcited single layer graphene showed completely negative photoinduced terahertz conductivity (the real part), photoexcited bilayer graphene showed transition from negative to positive in the spectral range 0.5-2.5 THz.
- Published
- 2019
- Full Text
- View/download PDF
48. Engineering III–V Nanowires for Optoelectronics: From Visible to Terahertz
- Author
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Djamshid A. Damry, Hannah J. Joyce, Chawit Uswachoke, Srabani Kar, Hark Hoe Tan, Michael B. Johnston, Chennupati Jagadish, Kun Peng, Jennifer Wong-Leung, and Stephanie O. Adeyemo
- Subjects
Materials science ,business.industry ,Transmission electron microscopy ,Terahertz radiation ,Nanowire ,Optoelectronics ,business ,Characterization (materials science) - Abstract
We describe how optimized growth processes and contact-free electrical characterization techniques are accelerating the development of III–V nanowire-based optoelectronic devices with new and enhanced performance. © 2019 The Author(s).
- Published
- 2019
- Full Text
- View/download PDF
49. Can titanium oxide nanotubes facilitate intracellular delivery by laser-assisted photoporation?
- Author
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Tuhin Subhra Santra, Ren Hattori, Miho Ishii-Teshima, Takayuki Shibata, Moeto Nagai, Parthasarathi Bera, Srabani Kar, L. Mohan, and Sounak Roy
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Materials science ,General Physics and Astronomy ,chemistry.chemical_element ,02 engineering and technology ,010402 general chemistry ,01 natural sciences ,Oxygen ,law.invention ,Metal ,X-ray photoelectron spectroscopy ,law ,Irradiation ,Anodizing ,Surfaces and Interfaces ,General Chemistry ,021001 nanoscience & nanotechnology ,Condensed Matter Physics ,Laser ,0104 chemical sciences ,Surfaces, Coatings and Films ,Titanium oxide ,chemistry ,Chemical engineering ,visual_art ,visual_art.visual_art_medium ,0210 nano-technology ,Titanium - Abstract
In the present study, a newly developed nanosecond pulse laser-assisted photoporation using titanium-oxide nanotubes (TNT) for highly efficient intracellular delivery has been established. The proof of concept for the possibilities of intracellular delivery after irradiation of nanosecond pulse laser on TNT has been validated. TNT on titanium sheets using the electrochemical anodization technique at different voltage and time has been developed. The extensive X-ray photoelectron spectroscopy (XPS) study confirms the presence of different titanium oxide species such as TiO2, TixOy (TiO/Ti2O3/Ti3O5) having different concentrations in TNT formed by different anodization voltage and time along with a minor quantity of Ti metal (Ti0). Formation of sub-oxides results in oxygen defects in TNT. It has also been evidenced from XPS that the anodization voltage and time can change the concentration of oxygen defects on the nanotubes. Due to the formation of oxygen defects, nanotubes have the quasi-metallic and metallic properties. These properties of the nanotubes may facilitate the intracellular delivery by various mechanisms after irradiation of nanosecond pulse laser. Using this technique, we successfully have delivered Propidium iodide (PI) and dextran into HeLa cells (HeLa- human cervical cancer cells) with high transfection efficiency and cell viability on nanotubes formed at 15 V/2 h.
- Published
- 2021
- Full Text
- View/download PDF
50. Tunable terahertz photoconductivity of hydrogen functionalized graphene using optical pump-terahertz probe spectroscopy
- Author
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Srabani Kar, A. K. Sood, and Dipti R. Mohapatra
- Subjects
Materials science ,Graphene ,Scattering ,Terahertz radiation ,Band gap ,Carrier scattering ,Photoconductivity ,Doping ,02 engineering and technology ,021001 nanoscience & nanotechnology ,01 natural sciences ,Molecular physics ,law.invention ,chemistry.chemical_compound ,chemistry ,law ,0103 physical sciences ,Graphane ,General Materials Science ,010306 general physics ,0210 nano-technology - Abstract
We show that the terahertz photoconductivity of monolayer graphene following 800 nm femtosecond optical pump excitation can be tuned by different levels of hydrogenation (graphane) and provide a quantitative understanding of the unique spectral dependence of photoconductivity. The real part of terahertz photoconductivity (ΔσRe(ω)), which is negative in doped pristine graphene, becomes positive after hydrogenation. Frequency and electronic temperature Te dependent conductivity σ(ω, Te) is calculated using the Boltzmann transport equation taking into account the energy dependence of different scattering rates of the hot carriers. It is shown that the carrier scattering rate dominated by disorder-induced short-range scattering, though sufficient for pristine graphene, is not able to explain the observed complex Δσ(ω) for graphane. Our results are explained by considering the system to be heterogeneous after hydrogenation where conductivity is a weighted sum of conductivities of two parts: one dominated by Coulomb scattering coming from trapped charge impurities in the underlying substrate and the other dominated by short-range scattering coming from disorder, surface defects, dislocations and ripples in graphene flakes. A finite band gap opening due to hydrogenation is shown to be important in determining Δσ(ω).
- Published
- 2018
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