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| Computational Media, Arts & Cultures : Publications since January 2023List all publications in the database. :chronological alphabetical combined listing:%% Bell, David F. @article{fds372267, Author = {Berthet, F and Bell, DF}, Title = {Comme Elle Respire : Memory of Breath, Breath of Memory}, Journal = {Sub-Stance}, Volume = {52}, Number = {1}, Pages = {92-96}, Year = {2023}, Month = {January}, url = {http://dx.doi.org/10.1353/sub.2023.a900534}, Doi = {10.1353/sub.2023.a900534}, Key = {fds372267} } @article{fds372268, Author = {Froger, M and Bell, DF}, Title = {Pairing breaths: Rabah Ameur-Zaïmech's Terminal Sud (2019)}, Journal = {Sub-Stance}, Volume = {52}, Number = {1}, Pages = {244-251}, Year = {2023}, Month = {January}, url = {http://dx.doi.org/10.1353/sub.2023.a900561}, Doi = {10.1353/sub.2023.a900561}, Key = {fds372268} } @article{fds372269, Author = {Bell, DF}, Title = {On the Nose}, Journal = {Sub-Stance}, Volume = {52}, Number = {1}, Pages = {231-236}, Year = {2023}, Month = {January}, url = {http://dx.doi.org/10.1353/sub.2023.a900559}, Doi = {10.1353/sub.2023.a900559}, Key = {fds372269} } @article{fds372453, Author = {Pierre-Dahome, N and Bell, DF}, Title = {Haiti Can't Breathe}, Journal = {Sub-Stance}, Volume = {52}, Number = {1}, Pages = {165-168}, Year = {2023}, Month = {January}, url = {http://dx.doi.org/10.1353/sub.2023.a900549}, Doi = {10.1353/sub.2023.a900549}, Key = {fds372453} } %% Cetinkaya-Rundel, Mine @article{fds369863, Author = {Tackett, M and Çetinkaya-Rundel, M}, Title = {Analyzing and Recreating Data Visualizations of W.E.B. Du Bois}, Journal = {CHANCE}, Volume = {36}, Number = {1}, Pages = {40-47}, Publisher = {Informa UK Limited}, Year = {2023}, Month = {January}, url = {http://dx.doi.org/10.1080/09332480.2023.2179279}, Doi = {10.1080/09332480.2023.2179279}, Key = {fds369863} } %% Dillon, Sheila @article{fds370440, Author = {Dillon, S}, Title = {Portraiture in the Greek east in the Roman period: The view from the Athenian Agora}, Pages = {278-302}, Booktitle = {Comparing Roman Hellenisms in Italy}, Year = {2023}, Month = {April}, ISBN = {9780472133406}, Key = {fds370440} } %% Forte, Maurizio @misc{fds370657, Author = {Giorgi, A and Menicocci, S and Forte, M and Ferrara, V and Mingione, M and Alaimo Di Loro and P and Inguscio, BMS and Ferrara, S and Babiloni, F and Vozzi, A and Ronca, V and Cartocci, G}, Title = {Virtual and Reality: A Neurophysiological Pilot Study of the Sarcophagus of the Spouses.}, Journal = {Brain sciences}, Volume = {13}, Number = {4}, Pages = {635}, Year = {2023}, Month = {April}, url = {http://dx.doi.org/10.3390/brainsci13040635}, Abstract = {Art experience is not solely the observation of artistic objects, but great relevance is also placed on the environment in which the art experience takes place, often in museums and galleries. Interestingly, in the last few years, the introduction of some forms of virtual reality (VR) in museum contexts has been increasing. This has solicited enormous research interest in investigating any eventual differences between looking at the same artifact either in a real context (e.g. a museum) and in VR. To address such a target, a neuroaesthetic study was performed in which electroencephalography (EEG) and autonomic signals (heart rate and skin conductance) were recorded during the observation of the Etruscan artifact "Sarcophagus of the Spouses", both in the museum and in a VR reproduction. Results from EEG analysis showed a higher level of the Workload Index during observation in the museum compared to VR (<i>p</i> = 0.04), while the Approach-Withdrawal Index highlighted increased levels during the observation in VR compared to the observation in the museum (<i>p</i> = 0.03). Concerning autonomic indices, the museum elicited a higher Emotional Index response than the VR (<i>p</i> = 0.03). Overall, preliminary results suggest a higher engagement potential of the museum compared to VR, although VR could also favour higher embodiment than the museum.}, Doi = {10.3390/brainsci13040635}, Key = {fds370657} } %% Jacobs, Hannah @article{fds375175, Author = {Henley, A and Bruckner, L and Jacobs, H and Jansen, M and Nunez, B and Rodriguez, R and Wilson, M}, Title = {On the Books: Jim Crow and Algorithms of Resistance, a Collections as Data Case Study}, Journal = {Journal on Computing and Cultural Heritage}, Volume = {16}, Number = {4}, Pages = {1-20}, Publisher = {Association for Computing Machinery (ACM)}, Year = {2023}, Month = {December}, url = {http://dx.doi.org/10.1145/3631128}, Abstract = {<jats:p>On the Books: Jim Crow and Algorithms of Resistance is a collections as data and machine learning project from the University Libraries at the University of North Carolina at Chapel Hill. This project has created a plain text corpus of North Carolina legal volumes (1866–1967) and used machine learning to identify likely Jim Crow laws. The project has been well received and is now being expanded to two additional states, while assessing the use of On the Books products in research and instruction. State partners at the University of South Carolina and the University of Virginia are adapting the On the Books methodology to create corpora for their own states. Three teaching fellows created learning modules that use products from On the Books and taught the modules to college-level courses. Research fellows are making use of the products on research projects of their own design. This article will provide background for the On the Books project and will assess its use for multiple purposes: as a workflow to be reproduced by others, as content for use in teaching and learning, and as a resource for researchers. To demonstrate the utility of On the Books as a research tool, the article is co-authored by one of the research fellows. The project “Mental Health, Disability, and Jim Crow Laws in North Carolina, 1866–1967,” makes use of the legal corpus as a primary source for researching the intersections of information, mental health, nutrition, and shifts from agricultural to industrial economics in the history of North Carolina. By assessing the experiences of those making use of On the Books products, this article contributes to the understanding of best practices for those interested in creating and supporting collections as data so they may be used successfully for reproducibility, research, and teaching.</jats:p>}, Doi = {10.1145/3631128}, Key = {fds375175} } @article{fds375176, Author = {Fischer, B and Jacobs, HL}, Title = {A Repository of Shared Pedagogical Practices: Assignments in Visualizing Objects, Places, and Spaces: A Digital Project Handbook}, Journal = {IDEAH}, Publisher = {PubPub}, Year = {2023}, Month = {June}, url = {http://dx.doi.org/10.21428/f1f23564.1572e06c}, Doi = {10.21428/f1f23564.1572e06c}, Key = {fds375176} } %% Jenson, Deborah @article{fds371713, Author = {Auguste, E and Beauliere, G and Jenson, D and LeBrun, J and Blanc, J}, Title = {La lutte continue: Louis Mars and the genesis of ethnopsychiatry.}, Journal = {The American psychologist}, Volume = {78}, Number = {4}, Pages = {469-483}, Year = {2023}, Month = {May}, url = {http://dx.doi.org/10.1037/amp0001097}, Abstract = {The scientific contributions of Western mental health professionals have been lauded and leveraged for global mental health responses to varying degrees of success. In recent years, the necessity of recognizing the inefficiencies of solely etic and Western-based psychological intervention has been reflected in certain decolonial scholars like Frantz Fanon gaining more recognition. Despite this urgent focus on decolonial psychology, there are still others whose work has historically and contemporarily not received a great deal of attention. There is no better example of such a scholar than Dr. Louis Mars, Haiti's first psychiatrist. Mars made a lasting impact on the communities of Haiti by shifting the conversation around Haitian culture and the practice of how people living with a mental illness were treated. Further, he influenced the global practice of psychiatry by coining "ethnopsychiatry" and asserting that non-Western culture should be intimately considered, rather than stigmatized, in treating people around the world. Unfortunately, the significance of his contributions to ethnopsychiatry, ethnodrama, and the subsequent field of psychology has effectively been erased from the disciplinary canon. Indeed, the weight of Mars' psychiatric and political work deserves focus. (PsycInfo Database Record (c) 2023 APA, all rights reserved).}, Doi = {10.1037/amp0001097}, Key = {fds371713} } %% Johnsen, Sonke @article{fds373347, Author = {Caves, EM and Davis, AL and Nowicki, S and Johnsen, S}, Title = {Backgrounds and the evolution of visual signals.}, Journal = {Trends in ecology & evolution}, Volume = {39}, Number = {2}, Pages = {188-198}, Year = {2024}, Month = {February}, url = {http://dx.doi.org/10.1016/j.tree.2023.09.006}, Abstract = {Color signals which mediate behavioral interactions across taxa and contexts are often thought of as color 'patches' - parts of an animal that appear colorful compared to other parts of that animal. Color patches, however, cannot be considered in isolation because how a color is perceived depends on its visual background. This is of special relevance to the function and evolution of signals because backgrounds give rise to a fundamental tradeoff between color signal detectability and discriminability: as its contrast with the background increases, a color patch becomes more detectable, but discriminating variation in that color becomes more difficult. Thus, the signal function of color patches can only be fully understood by considering patch and background together as an integrated whole.}, Doi = {10.1016/j.tree.2023.09.006}, Key = {fds373347} } @article{fds374188, Author = {Notar, JC and Go, MC and Johnsen, S}, Title = {Learning without a brain: classical conditioning in the ophiuroid Ophiocoma echinata}, Journal = {Behavioral Ecology and Sociobiology}, Volume = {77}, Number = {11}, Year = {2023}, Month = {November}, url = {http://dx.doi.org/10.1007/s00265-023-03402-x}, Abstract = {Brittle stars (Class Ophiuroidea), like all echinoderms, lack centralized nervous systems, having instead five radially arranged nerve cords joined by a central nerve ring. Although operant and classical conditioning have been demonstrated in a limited number of studies in sea stars (Class Asteroidea), members of the other echinoderm classes remain relatively untested. We examined whether individuals of the ophiuroid species Ophiocoma echinata were able to learn an association between a period of darkness and the presentation of a food reward. Ophiuroids in an experimental group were trained by presenting food during a 30-minute period of darkness, while control group animals were fed under regular daytime room lights many hours after a period of darkness of the same duration. After the training period, the experimental group demonstrated they had learned to associate the two cues by regularly emerging during the dark period even when no food was presented. The untrained control animals, as well as pre-training experimental animals, did not emerge during the dark periods when no food was presented. Once trained, experimental animals emerged significantly more times than control animals during dark periods without food (trained emergences = 109; untrained emergences = 22; χ2 = 64.65, p = 0.0007). This study shows that classical conditioning is possible in a class of animals that lacks a centralized nervous system.}, Doi = {10.1007/s00265-023-03402-x}, Key = {fds374188} } @article{fds373651, Author = {Nilsson, D-E and Johnsen, S and Warrant, E}, Title = {Cephalopod versus vertebrate eyes.}, Journal = {Current biology : CB}, Volume = {33}, Number = {20}, Pages = {R1100-R1105}, Year = {2023}, Month = {October}, url = {http://dx.doi.org/10.1016/j.cub.2023.07.049}, Abstract = {Vertebrates and cephalopods are the two major animal groups that view the world through sophisticated camera-type eyes. There are of course exceptions: nautiloid cephalopods have more simply built pinhole eyes. Excellent camera type eyes are also found in other animals, such as some spider groups, a few snails, and certain marine worms, but the vast majority of large camera-type eyes belong to cephalopods and vertebrates. Vertebrates and cephalopods also devote major parts of their brains to the processing of visual information. Obviously, there are differences in eye performance among cephalopods and vertebrates, but there are no major subgroups where vision seems to have low priority. The similarity in eye geometry is striking, especially between fish and coleoid cephalopods, with a hemispherical retina centred around a spherical lens. Do these similarities mean that vertebrate and cephalopod eyes are equally good? Comparing the eyes of vertebrates and cephalopods reveals many fundamental differences with surprisingly small consequences for vision, but also one difference that means that cephalopods and vertebrates do not share the same visual world.}, Doi = {10.1016/j.cub.2023.07.049}, Key = {fds373651} } @article{fds372349, Author = {Caves, EM and Sutton, TT and Warrant, EJ and Johnsen, S}, Title = {Measures and models of visual acuity in epipelagic and mesopelagic teleosts and elasmobranchs.}, Journal = {Journal of comparative physiology. A, Neuroethology, sensory, neural, and behavioral physiology}, Volume = {209}, Number = {5}, Pages = {807-826}, Year = {2023}, Month = {September}, url = {http://dx.doi.org/10.1007/s00359-023-01661-7}, Abstract = {Eyes in low-light environments typically must balance sensitivity and spatial resolution. Vertebrate eyes with large "pixels" (e.g., retinal ganglion cells with inputs from many photoreceptors) will be sensitive but provide coarse vision. Small pixels can render finer detail, but each pixel will gather less light, and thus have poor signal relative-to-noise, leading to lower contrast sensitivity. This balance is particularly critical in oceanic species at mesopelagic depths (200-1000 m) because they experience low light and live in a medium that significantly attenuates contrast. Depending on the spatial frequency and inherent contrast of a pattern being viewed, the viewer's pupil size and temporal resolution, and the ambient light level and water clarity, a visual acuity exists that maximizes the distance at which the pattern can be discerned. We develop a model that predicts this acuity for common conditions in the open ocean, and compare it to visual acuity in marine teleost fishes and elasmobranchs found at various depths in productive and oligotrophic waters. Visual acuity in epipelagic and upper mesopelagic species aligned well with model predictions, but species at lower mesopelagic depths (> 600 m) had far higher measured acuities than predicted. This is consistent with the prediction that animals found at lower mesopelagic depths operate in a visual world consisting primarily of bioluminescent point sources, where high visual acuity helps localize targets of this kind. Overall, the results suggest that visual acuity in oceanic fish and elasmobranchs is under depth-dependent selection for detecting either extended patterns or point sources.}, Doi = {10.1007/s00359-023-01661-7}, Key = {fds372349} } @article{fds372797, Author = {McCoy, DE and Shultz, AJ and Dall, JE and Dionne, JA and Johnsen, S}, Title = {The carotenoid redshift: Physical basis and implications for visual signaling.}, Journal = {Ecology and evolution}, Volume = {13}, Number = {9}, Pages = {e10408}, Year = {2023}, Month = {September}, url = {http://dx.doi.org/10.1002/ece3.10408}, Abstract = {Carotenoid pigments are the basis for much red, orange, and yellow coloration in nature and central to visual signaling. However, as pigment concentration increases, carotenoid signals not only darken and become more saturated but they also redshift; for example, orange pigments can look red at higher concentration. This occurs because light experiences exponential attenuation, and carotenoid-based signals have spectrally asymmetric reflectance in the visible range. Adding pigment disproportionately affects the high-absorbance regions of the reflectance spectra, which redshifts the perceived hue. This carotenoid redshift is substantial and perceivable by animal observers. In addition, beyond pigment concentration, anything that increases the path length of light through pigment causes this redshift (including optical nano- and microstructures). For example, male <i>Ramphocelus</i> tanagers appear redder than females, despite the same population and concentration of carotenoids, due to microstructures that enhance light-pigment interaction. This mechanism of carotenoid redshift has sensory and evolutionary consequences for honest signaling in that structures that redshift carotenoid ornaments may decrease signal honesty. More generally, nearly all colorful signals vary in hue, saturation, and brightness as light-pigment interactions change, due to spectrally asymmetrical reflectance within the visible range of the relevant species. Therefore, the three attributes of color need to be considered together in studies of honest visual signaling.}, Doi = {10.1002/ece3.10408}, Key = {fds372797} } @article{fds372648, Author = {Schweikert, LE and Bagge, LE and Naughton, LF and Bolin, JR and Wheeler, BR and Grace, MS and Bracken-Grissom, HD and Johnsen, S}, Title = {Dynamic light filtering over dermal opsin as a sensory feedback system in fish color change.}, Journal = {Nature communications}, Volume = {14}, Number = {1}, Pages = {4642}, Year = {2023}, Month = {August}, url = {http://dx.doi.org/10.1038/s41467-023-40166-4}, Abstract = {Dynamic color change has evolved multiple times, with a physiological basis that has been repeatedly linked to dermal photoreception via the study of excised skin preparations. Despite the widespread prevalence of dermal photoreception, both its physiology and its function in regulating color change remain poorly understood. By examining the morphology, physiology, and optics of dermal photoreception in hogfish (Lachnolaimus maximus), we describe a cellular mechanism in which chromatophore pigment activity (i.e., dispersion and aggregation) alters the transmitted light striking SWS1 receptors in the skin. When dispersed, chromatophore pigment selectively absorbs the short-wavelength light required to activate the skin's SWS1 opsin, which we localized to a morphologically specialized population of putative dermal photoreceptors. As SWS1 is nested beneath chromatophores and thus subject to light changes from pigment activity, one possible function of dermal photoreception in hogfish is to monitor chromatophores to detect information about color change performance. This framework of sensory feedback provides insight into the significance of dermal photoreception among color-changing animals.}, Doi = {10.1038/s41467-023-40166-4}, Key = {fds372648} } @article{fds370945, Author = {Mullan, R and Davis, AD and Sutton, TT and Johnsen, S}, Title = {An Investigation into the Mechanism Mediating Counterillumination in Myctophid Fishes (Myctophidae).}, Journal = {The Biological bulletin}, Volume = {244}, Number = {1}, Pages = {63-69}, Year = {2023}, Month = {February}, url = {http://dx.doi.org/10.1086/724803}, Abstract = {AbstractCounterillumination is a camouflage strategy employed primarily by mesopelagic fishes, sharks, crustaceans, and squid, which use ventral bioluminescence to obscure their silhouettes when viewed from below. Although certain counterilluminating species have been shown to control the intensity of their ventral emissions to match the background downwelling light, the feedback mechanism mediating this ability is poorly understood. One proposed mechanism involves the presence and use of eye-facing photophores that would allow simultaneous detection and comparison of photophore emissions and downwelling solar light. Eye-facing photophores have been found in at least 34 species of counterilluminating stomiiform fishes and the myctophid <i>Tarletonbeania crenularis</i>. Here, we examined nine phylogenetically spaced myctophid species for eye-facing photophores to assess whether this mechanism is as prevalent in this group as it is in the Stomiiformes. First, microcomputed tomography imaging data were collected for each species, and three-dimensional reconstructions of the fishes were developed to identify potential eye-facing photophores. The fishes were then dissected under a stereomicroscope to confirm the presence of all identified photophores, probe for any photophores missed in the reconstruction analysis, and determine the orientation of the photophores' emissions. Although photophores were identified near the orbits of all species examined, none of the fishes' photophores directed light into their orbits, suggesting that myctophids may regulate bioluminescence through an alternative mechanism.}, Doi = {10.1086/724803}, Key = {fds370945} } %% Vo-Dinh, Tuan @article{fds376827, Author = {Canning, AJ and Vo-Dinh, T}, Title = {Caged gold nanostars: a novel plasmonic nanoplatform with potential theranostic applications.}, Journal = {Nanoscale}, Year = {2024}, Month = {April}, url = {http://dx.doi.org/10.1039/d3nr04130a}, Abstract = {Here, we first introduce caged gold nanostars (C-GNS), a novel hybrid nanoplatform combining the exceptional plasmonic properties of nanostars with the loading capability of hollow-shell structures. We present two synthetic routes used to produce C-GNS particles and highlight the benefits of the galvanic replacement-free approach. FEM simulations explore the enhanced plasmonic properties of this novel nanoparticle morphology. Finally, in a proof-of-concept study, we successfully demonstrate <i>in vivo</i> hyperspectral imaging and photothermal treatment of tumors in a mouse model with the C-GNS nanoplatform.}, Doi = {10.1039/d3nr04130a}, Key = {fds376827} } @article{fds376671, Author = {Naquin, TD and Canning, AJ and Gu, Y and Chen, J and Naquin, CM and Xia, J and Lu, B and Yang, S and Koroza, A and Lin, K and Wang, H-N and Jeck, WR and Lee, LP and Vo-Dinh, T and Huang, TJ}, Title = {Acoustic separation and concentration of exosomes for nucleotide detection: ASCENDx.}, Journal = {Sci Adv}, Volume = {10}, Number = {10}, Pages = {eadm8597}, Year = {2024}, Month = {March}, url = {http://dx.doi.org/10.1126/sciadv.adm8597}, Abstract = {Efficient isolation and analysis of exosomal biomarkers hold transformative potential in biomedical applications. However, current methods are prone to contamination and require costly consumables, expensive equipment, and skilled personnel. Here, we introduce an innovative spaceship-like disc that allows Acoustic Separation and Concentration of Exosomes and Nucleotide Detection: ASCENDx. We created ASCENDx to use acoustically driven disc rotation on a spinning droplet to generate swift separation and concentration of exosomes from patient plasma samples. Integrated plasmonic nanostars on the ASCENDx disc enable label-free detection of enriched exosomes via surface-enhanced Raman scattering. Direct detection of circulating exosomal microRNA biomarkers from patient plasma samples by the ASCENDx platform facilitated a diagnostic assay for colorectal cancer with 95.8% sensitivity and 100% specificity. ASCENDx overcomes existing limitations in exosome-based molecular diagnostics and holds a powerful position for future biomedical research, precision medicine, and point-of-care medical diagnostics.}, Doi = {10.1126/sciadv.adm8597}, Key = {fds376671} } @article{fds376236, Author = {Atta, S and Canning, AJ and Vo-Dinh, T}, Title = {A simple low-cost flexible plasmonic patch based on spiky gold nanostars for ultra-sensitive SERS sensing.}, Journal = {The Analyst}, Volume = {149}, Number = {7}, Pages = {2084-2096}, Year = {2024}, Month = {March}, url = {http://dx.doi.org/10.1039/d3an02246c}, Abstract = {Recently, transparent and flexible surface-enhanced Raman scattering (SERS) substrates have received great interest for direct point-of-care detection of analytes on irregular nonplanar surfaces. In this study, we proposed a simple cost-effective strategy to develop a flexible SERS patch utilizing multibranched sharp spiked gold nanostars (GNS) decorated on a commercially available adhesive Scotch Tape for achieving ultra-high SERS sensitivity. The experimental SERS measurements were correlated with theoretical finite element modeling (FEM), which indicates that the GNS having a 2.5 nm branch tip diameter (GNS-4) exhibits the strongest SERS enhancement. Using rhodamine 6G (R6G) as a model analyte, the SERS performance of the flexible SERS patch exhibited a minimum detection limit of R6G as low as 1 pM. The enhancement factor of the SERS patch with GNS-4 was calculated as 6.2 × 10<sup>8</sup>, which indicates that our flexible SERS substrate has the potential to achieve ultra-high sensitivity. The reproducibility was tested with 30 different spots showing a relative standard deviation (RSD) of SERS intensity of about 5.4%, indicating good reproducibility of the SERS platform. To illustrate the usefulness of the flexible SERS sensor patch, we investigated the detection of a carcinogenic compound crystal violet (CV) on fish scales, which is often used as an effective antifungal agent in the aquaculture industry. The results realized the trace detection of CV with the minimum detection limit as low as 1 pM. We believe that our transparent, and flexible SERS patch based on GNS-4 has potential as a versatile, low-cost platform for real-world SERS sensing applications on nonplanar surfaces.}, Doi = {10.1039/d3an02246c}, Key = {fds376236} } @article{fds376672, Author = {Atta, S and Zhao, Y and Li, JQ and Vo-Dinh, T}, Title = {Dual-Modal Colorimetric and Surface-Enhanced Raman Scattering (SERS)-Based Lateral Flow Immunoassay for Ultrasensitive Detection of SARS-CoV-2 Using a Plasmonic Gold Nanocrown.}, Journal = {Analytical chemistry}, Volume = {96}, Number = {12}, Pages = {4783-4790}, Year = {2024}, Month = {March}, url = {http://dx.doi.org/10.1021/acs.analchem.3c04361}, Abstract = {The 2019 coronavirus disease (COVID-19) outbreak created an unprecedented need for rapid, sensitive, and cost-effective point-of-care diagnostic tests to prevent and mitigate the spread of the SARS-CoV-2 virus. Herein, we demonstrated an advanced lateral flow immunoassay (LFIA) platform with dual-functional [colorimetric and surface-enhanced Raman scattering (SERS)] detection of the spike 1 (S1) protein of SARS-CoV-2. The nanosensor was integrated with a specially designed core-gap-shell morphology consisting of a gold shell decorated with external nanospheres, a structure referred to as gold nanocrown (GNC), labeled with a Raman reporter molecule 1,3,3,1',3',3'-hexamethyl-2,2'-indotricarbocyanine iodide (HITC) to produce a strong colorimetric signal as well as an enhanced SERS signal. Among the different plasmonics-active GNC nanostructures, the GNC-2 morphology, which has a shell decorated with an optimum number and size of nanospheres, produces an intense dark-blue colorimetric signal and ultrahigh SERS signal. The limit of detection (LOD) of the S1 protein via colorimetric detection LFIA was determined to be 91.24 pg/mL. On the other hand, the LOD for the SERS LFIA method was more than three orders of magnitude lower at 57.21 fg/mL. Furthermore, we analyzed the performance of the GNC-2 nanosensor for directly analyzing the S1 protein spiked in saliva samples without any sample pretreatment and achieving the LOD as low as 39.65 fg/mL using SERS-based plasmonics-enhanced LFIA, indicating ultrahigh detection sensitivity. Overall, our GNC nanosensor showed excellent sensitivity, reproducibility, and rapid detection of the SARS-CoV-2 S1 protein, demonstrating excellent potential as a promising point-of-care platform for the early detection of respiratory virus infections.}, Doi = {10.1021/acs.analchem.3c04361}, Key = {fds376672} } @article{fds373360, Author = {Vu, T and Klippel, P and Canning, AJ and Ma, C and Zhang, H and Kasatkina, LA and Tang, Y and Xia, J and Verkhusha, VV and Vo-Dinh, T and Jing, Y and Yao, J}, Title = {On the Importance of Low-Frequency Signals in Functional and Molecular Photoacoustic Computed Tomography.}, Journal = {IEEE transactions on medical imaging}, Volume = {43}, Number = {2}, Pages = {771-783}, Year = {2024}, Month = {February}, url = {http://dx.doi.org/10.1109/tmi.2023.3320668}, Abstract = {In photoacoustic computed tomography (PACT) with short-pulsed laser excitation, wideband acoustic signals are generated in biological tissues with frequencies related to the effective shapes and sizes of the optically absorbing targets. Low-frequency photoacoustic signal components correspond to slowly varying spatial features and are often omitted during imaging due to the limited detection bandwidth of the ultrasound transducer, or during image reconstruction as undesired background that degrades image contrast. Here we demonstrate that low-frequency photoacoustic signals, in fact, contain functional and molecular information, and can be used to enhance structural visibility, improve quantitative accuracy, and reduce spare-sampling artifacts. We provide an in-depth theoretical analysis of low-frequency signals in PACT, and experimentally evaluate their impact on several representative PACT applications, such as mapping temperature in photothermal treatment, measuring blood oxygenation in a hypoxia challenge, and detecting photoswitchable molecular probes in deep organs. Our results strongly suggest that low-frequency signals are important for functional and molecular PACT.}, Doi = {10.1109/tmi.2023.3320668}, Key = {fds373360} } @article{fds373887, Author = {Li, JQ and Neng-Wang, H and Canning, AJ and Gaona, A and Crawford, BM and Garman, KS and Vo-Dinh, T}, Title = {Surface-Enhanced Raman Spectroscopy-Based Detection of Micro-RNA Biomarkers for Biomedical Diagnosis Using a Comparative Study of Interpretable Machine Learning Algorithms.}, Journal = {Appl Spectrosc}, Volume = {78}, Number = {1}, Pages = {84-98}, Year = {2024}, Month = {January}, url = {http://dx.doi.org/10.1177/00037028231209053}, Abstract = {Surface-enhanced Raman spectroscopy (SERS) has wide diagnostic applications due to narrow spectral features that allow multiplex analysis. We have previously developed a multiplexed, SERS-based nanosensor for micro-RNA (miRNA) detection called the inverse molecular sentinel (iMS). Machine learning (ML) algorithms have been increasingly adopted for spectral analysis due to their ability to discover underlying patterns and relationships within large and complex data sets. However, the high dimensionality of SERS data poses a challenge for traditional ML techniques, which can be prone to overfitting and poor generalization. Non-negative matrix factorization (NMF) reduces the dimensionality of SERS data while preserving information content. In this paper, we compared the performance of ML methods including convolutional neural network (CNN), support vector regression, and extreme gradient boosting combined with and without NMF for spectral unmixing of four-way multiplexed SERS spectra from iMS assays used for miRNA detection. CNN achieved high accuracy in spectral unmixing. Incorporating NMF before CNN drastically decreased memory and training demands without sacrificing model performance on SERS spectral unmixing. Additionally, models were interpreted using gradient class activation maps and partial dependency plots to understand predictions. These models were used to analyze clinical SERS data from single-plexed iMS in RNA extracted from 17 endoscopic tissue biopsies. CNN and CNN-NMF, trained on multiplexed data, performed most accurately with RMSElabel = 0.101 and 9.68 × 10-2, respectively. We demonstrated that CNN-based ML shows great promise in spectral unmixing of multiplexed SERS spectra, and the effect of dimensionality reduction on performance and training speed.}, Doi = {10.1177/00037028231209053}, Key = {fds373887} } @article{fds375326, Author = {Atta, S and Canning, AJ and Vo-Dinh, T}, Title = {Rapid SERS assay for determination of the opioid fentanyl using silver-coated sharply branched gold nanostars.}, Journal = {Mikrochimica acta}, Volume = {191}, Number = {2}, Pages = {110}, Year = {2024}, Month = {January}, url = {http://dx.doi.org/10.1007/s00604-023-06172-5}, Abstract = {A high-throughput surface-enhanced Raman scattering (SERS)-sensing platform is presented for FNT detection in human urine without any sample preparation. The sensing platform is based on plasmonics-active silver-coated sharply branched gold nanostars (SGNS). The effect of silver thickness was investigated experimentally and theoretically, and the results indicated that SERS enhancement was maximum at an optimum silver thickness of 45 nm on the sharply spiked SGNS. The proposed high-throughput SERS platform exhibited ultrahigh sensitivity and excellent enhancement uniformity for a model analyte, i.e., crystal violet. Moreover, the SERS-sensing platform demonstrated good sensitivity of FNT spiked in human urine samples with two differential linear response ranges of 2 to 0.2 µg/mL and 0.1 µg/mL to 100 pg/mL, respectively, with a detection limit as low as 10.02 pg/mL. The spiked human urine samples show satisfactory recovery values from 92.5 to 102% with relative standard deviations (RSD) of less than 10%. In summary, the high-throughput performance of the proposed microplate-based SERS platform demonstrated great potential for rapid low-cost SERS-based sensing applications.}, Doi = {10.1007/s00604-023-06172-5}, Key = {fds375326} } @article{fds372689, Author = {Atta, S and Li, JQ and Vo-Dinh, T}, Title = {Multiplex SERS detection of polycyclic aromatic hydrocarbon (PAH) pollutants in water samples using gold nanostars and machine learning analysis.}, Journal = {The Analyst}, Volume = {148}, Number = {20}, Pages = {5105-5116}, Year = {2023}, Month = {October}, url = {http://dx.doi.org/10.1039/d3an00636k}, Abstract = {Polycyclic aromatic hydrocarbons (PAHs) have attracted a lot of environmental concern because of their carcinogenic and mutagenic properties, and the fact they can easily contaminate natural resources such as drinking water and river water. This study presents a simple and sensitive point-of-care SERS detection of PAHs combined with machine learning algorithms to predict the PAH content more precisely and accurately in real-life samples such as drinking water and river water. We first synthesized multibranched sharp-spiked surfactant-free gold nanostars (GNSs) that can generate strong surface-enhanced Raman scattering (SERS) signals, which were further coated with cetyltrimethylammonium bromide (CTAB) for long-term stability of the GNSs as well as to trap PAHs. We utilized CTAB-capped GNSs for solution-based 'mix and detect' SERS sensing of various PAHs including pyrene (PY), nitro-pyrene (NP), anthracene (ANT), benzo[a]pyrene (BAP), and triphenylene (TP) spiked in drinking water and river water using a portable Raman module. Very low limits of detection (LOD) were achieved in the nanomolar range for the PAHs investigated. More importantly, the detected SERS signal was reproducible for over 90 days after synthesis. Furthermore, we analyzed the SERS data using artificial intelligence (AI) with machine learning algorithms based on the convolutional neural network (CNN) model in order to discriminate the PAHs in samples more precisely and accurately. Using a CNN classification model, we achieved a high prediction accuracy of 90% in the nanomolar detection range and an f1 score (harmonic mean of precision and recall) of 94%, and using a CNN regression model, achieved an RMSE<sub>conc</sub> = 1.07 × 10<sup>-1</sup> μM. Overall, our SERS platform can be effectively and efficiently used for the accurate detection of PAHs in real-life samples, thus opening up a new, sensitive, selective, and practical approach for point-of-need SERS diagnosis of small molecules in complex practical environments.}, Doi = {10.1039/d3an00636k}, Key = {fds372689} } @article{fds372430, Author = {Srinivasan, ES and Liu, Y and Odion, RA and Chongsathidkiet, P and Wachsmuth, LP and Haskell-Mendoza, AP and Edwards, RM and Canning, AJ and Willoughby, G and Hinton, J and Norton, SJ and Lascola, CD and Maccarini, PF and Mariani, CL and Vo-Dinh, T and Fecci, PE}, Title = {Gold Nanostars Obviate Limitations to Laser Interstitial Thermal Therapy (LITT) for the Treatment of Intracranial Tumors.}, Journal = {Clin Cancer Res}, Volume = {29}, Number = {16}, Pages = {3214-3224}, Year = {2023}, Month = {August}, url = {http://dx.doi.org/10.1158/1078-0432.CCR-22-1871}, Abstract = {PURPOSE: Laser interstitial thermal therapy (LITT) is an effective minimally invasive treatment option for intracranial tumors. Our group produced plasmonics-active gold nanostars (GNS) designed to preferentially accumulate within intracranial tumors and amplify the ablative capacity of LITT. EXPERIMENTAL DESIGN: The impact of GNS on LITT coverage capacity was tested in ex vivo models using clinical LITT equipment and agarose gel-based phantoms of control and GNS-infused central "tumors." In vivo accumulation of GNS and amplification of ablation were tested in murine intracranial and extracranial tumor models followed by intravenous GNS injection, PET/CT, two-photon photoluminescence, inductively coupled plasma mass spectrometry (ICP-MS), histopathology, and laser ablation. RESULTS: Monte Carlo simulations demonstrated the potential of GNS to accelerate and specify thermal distributions. In ex vivo cuboid tumor phantoms, the GNS-infused phantom heated 5.5× faster than the control. In a split-cylinder tumor phantom, the GNS-infused border heated 2× faster and the surrounding area was exposed to 30% lower temperatures, with margin conformation observed in a model of irregular GNS distribution. In vivo, GNS preferentially accumulated within intracranial tumors on PET/CT, two-photon photoluminescence, and ICP-MS at 24 and 72 hours and significantly expedited and increased the maximal temperature achieved in laser ablation compared with control. CONCLUSIONS: Our results provide evidence for use of GNS to improve the efficiency and potentially safety of LITT. The in vivo data support selective accumulation within intracranial tumors and amplification of laser ablation, and the GNS-infused phantom experiments demonstrate increased rates of heating, heat contouring to tumor borders, and decreased heating of surrounding regions representing normal structures.}, Doi = {10.1158/1078-0432.CCR-22-1871}, Key = {fds372430} } @article{fds370600, Author = {Li, S and Anwar, IJ and Canning, AJ and Vo-Dinh, T and Kirk, AD and Xu, H}, Title = {Xenorecognition and costimulation of porcine endothelium-derived extracellular vesicles in initiating human porcine-specific T cell immune responses.}, Journal = {Am J Transplant}, Volume = {23}, Number = {7}, Pages = {904-919}, Year = {2023}, Month = {July}, url = {http://dx.doi.org/10.1016/j.ajt.2023.04.006}, Abstract = {Porcine vascular endothelial cells (PECs) form a mechanistic centerpiece of xenograft rejection. Here, we determined that resting PECs release swine leukocyte antigen class I (SLA-I) but not swine leukocyte antigen class-II DR (SLA-DR) expressing extracellular vesicles (EVs) and investigated whether these EVs proficiently initiate xenoreactive T cell responses via direct xenorecognition and costimulation. Human T cells acquired SLA-I+ EVs with or without direct contact to PECs, and these EVs colocalized with T cell receptors. Although interferon gamma-activated PECs released SLA-DR+ EVs, the binding of SLA-DR+ EVs to T cells was sparse. Human T cells demonstrated low levels of proliferation without direct contact to PECs, but marked T cell proliferation was induced following exposure to EVs. EV-induced proliferation proceeded independent of monocytes/macrophages, suggesting that EVs delivered both a T cell receptor signal and costimulation. Costimulation blockade targeting B7, CD40L, or CD11a significantly reduced T cell proliferation to PEC-derived EVs. These findings indicate that endothelial-derived EVs can directly initiate T cell-mediated immune responses, and suggest that inhibiting the release of SLA-I EVs from organ xenografts has the potential to modify the xenograft rejection. We propose a secondary-direct pathway for T cell activation via xenoantigen recognition/costimulation by endothelial-derived EVs.}, Doi = {10.1016/j.ajt.2023.04.006}, Key = {fds370600} } @article{fds372690, Author = {Wang, H-N and Vo-Dinh, T}, Title = {Cascade Amplified Plasmonics Molecular Biosensor for Sensitive Detection of Disease Biomarkers.}, Journal = {Biosensors}, Volume = {13}, Number = {8}, Pages = {774}, Year = {2023}, Month = {July}, url = {http://dx.doi.org/10.3390/bios13080774}, Abstract = {Recent advances in molecular technologies have provided various assay strategies for monitoring biomarkers, such as miRNAs for early detection of various diseases and cancers. However, there is still an urgent unmet need to develop practical and accurate miRNA analytical tools that could facilitate the incorporation of miRNA biomarkers into clinical practice and management. In this study, we demonstrate the feasibility of using a cascade amplification method, referred to as the "Cascade Amplification by Recycling Trigger Probe" (CARTP) strategy, to improve the detection sensitivity of the inverse Molecular Sentinel (iMS) nanobiosensor. The iMS nanobiosensor developed in our laboratory is a unique homogeneous multiplex bioassay technique based on surface-enhanced Raman scattering (SERS) detection, and was used to successfully detect miRNAs from clinical samples. The CARTP strategy based on the toehold-mediated strand displacement reaction is triggered by a linear DNA strand, called the "Recycling Trigger Probe" (RTP) strand, to amplify the iMS SERS signal. Herein, by using the CARTP strategy, we show a significantly improved detection sensitivity with the limit of detection (LOD) of 45 fM, which is 100-fold more sensitive than the non-amplified iMS assay used in our previous report. We envision that the further development and optimization of this strategy ultimately will allow multiplexed detection of miRNA biomarkers with ultra-high sensitivity for clinical translation and application.}, Doi = {10.3390/bios13080774}, Key = {fds372690} } @article{fds369676, Author = {Atta, S and Vo-Dinh, T}, Title = {Ultra-trace SERS detection of cocaine and heroin using bimetallic gold-silver nanostars (BGNS-Ag).}, Journal = {Analytica chimica acta}, Volume = {1251}, Pages = {340956}, Year = {2023}, Month = {April}, url = {http://dx.doi.org/10.1016/j.aca.2023.340956}, Abstract = {A rapid, in-field, and reliable method for the detection of illegal drugs of abuse in biological fluids without any sample pretreatment would potentially be helpful for law enforcement, drug control officials, and public healthcare. In this study, we presented a cost-effective and highly reproducible solution-based surface-enhanced Raman scattering (SERS) platform utilizing a portable Raman instrument for fast sensitive SERS detection of illegal drugs, such as cocaine, and heroin in human urine without any sample preprocessing. The SERS platform was constructed for the first time by combining the superior SERS enhancement properties of bimetallic silver-coated gold nanostars (BGNS-Ag) and the advantages of suitable alkaline metal salts such as NaI for SERS signal amplification. The effects of the silver thickness of BGNS-Ag and alkaline salts on the SERS performance were investigated in detail; we observed that the maximum SERS enhancement was obtained for BGNS-Ag with the maximum silver thickness (54 ± 5 nm) in presence of NaI salt. Our SERS platform shows ultra-high sensitivity of cocaine and heroin with a limit of detection (LOD) as low as 10 pg/mL for cocaine and 100 pg/mL for heroin, which was 100 times lower than that of the traditional silver nanoparticle-based illegal drug detection. As a demonstration, the platform was further applied to detect cocaine and heroin spiked in human urine without any sample preprocessing achieving a LOD of 100 pg/mL for cocaine and 1 ng/mL for heroin. Overall, our SERS detection platform shows potential for rapid, onsite, ultra-low-cost portable applications for trace detection of illegal drugs and biomarkers.}, Doi = {10.1016/j.aca.2023.340956}, Key = {fds369676} } @article{fds369935, Author = {Atta, S and Vo-Dinh, T}, Title = {A hybrid plasmonic nanoprobe using polyvinylpyrrolidone-capped bimetallic silver-gold nanostars for highly sensitive and reproducible solution-based SERS sensing.}, Journal = {The Analyst}, Volume = {148}, Number = {8}, Pages = {1786-1796}, Year = {2023}, Month = {April}, url = {http://dx.doi.org/10.1039/d2an01876d}, Abstract = {Practical solution-based assays using surface-enhanced Raman spectroscopy (SERS) with portable instrumentation are currently of particular interest for rapid, efficient, and low-cost detection of analytes. However, current assays still have limited applicability due to their poor sensitivity and reproducibility. Herein, we demonstrate highly stable polyvinylpyrrolidone (PVP)-capped bimetallic silver-coated gold nanostars (BGNS-Ag-PVP) as a solution-based SERS nanoprobe that is capable of producing a strong, uniform, and reproducible SERS signal using a portable Raman instrument. The developed hybrid BGNS-Ag-PVP nanostructure shows tunable optical properties with improved SERS sensitivity and reproducibility as compared to gold nanostars. We have synthesized bimetallic nanoprobes BGNS-Ag-PVP having three different silvers, referred to as BGNS-Ag-PVP-1, BGNS-Ag-PVP-2, and BGNS-Ag-PVP-3. The SERS performance of BGNS-Ag-PVP was studied using methylene blue (Meb) as a probe molecule, and we achieved a detection limit of up to 10 nM indicating the high sensitivity of the solution-based SERS platform. The application of such bimetallic nanoparticles is demonstrated <i>via</i> the sensitive detection of the antithyroid drug methimazole (Mz) used as a model analyte system. We have achieved a detection limit of 1 nM for Mz spiked with human urine indicating three orders of magnitude lower than previously reported solution-based SERS detection methods. Furthermore, the SERS performance was reproducible over 3 months indicating excellent stability and repeatability. The result illustrates the potential of this solution-based SERS detection platform as a promising sensing tool for analytes such as illicit drugs, and biomarkers that have affinity to bind on nanoprobes.}, Doi = {10.1039/d2an01876d}, Key = {fds369935} } @article{fds369834, Author = {Atta, S and Canning, AJ and Odion, R and Wang, HN and Hau, D and Devadhasan, JP and Summers, AJ and Gates-Hollingsworth, MA and Pflughoeft, KJ and Gu, J and Montgomery, DC and AuCoin, DP and Zenhausern, F and Vo-Dinh, T}, Title = {Sharp Branched Gold Nanostar-Based Lateral-Flow Immunoassay for Detection of Yersinia pestis}, Journal = {ACS Applied Nano Materials}, Volume = {6}, Number = {5}, Pages = {3884-3892}, Year = {2023}, Month = {March}, url = {http://dx.doi.org/10.1021/acsanm.2c05557}, Abstract = {Over the past few decades, colorimetric paper-based lateral flow immunoassay (LFIA) has emerged as a versatile analytical tool for rapid point-of-care detection of infectious diseases with high simplicity and flexibility. The LFIA sensitivity is based on color visualization of the antibody-labeled nanoparticles bound with the target analytes at the test line. Therefore, the nanoparticle design is crucial for LFIA sensitivity. The traditional LFIA is based on spherical gold nanoparticles, which usually suffer from poor sensitivity because of very low optical contrast at the test line. To improve the LFIA sensitivity, we have developed an LFIA based on gold nanostars (GNSs) with different branch lengths and sharpness (GNS-1, GNS-2, and GNS-3), which possess higher optical contrast than conventional gold nanospheres (GNSPs). We have selected the bacterium Yersinia pestis as a model analyte system. The effective affinity of GNSPs and GNSs with the Y. pestis fraction 1 (F1) protein was quantitively investigated by colorimetric and optical density measurements of the test line. The results show that GNS-3, which has maximum spike length and branch sharpness, exhibits the highest analytical sensitivity based on the limit of detection of the LFIA readout compared to other GNSs and GNSPs. The detection limit of the Y. pestis F1 antigen was achieved up to 0.1 ng/mL for GNS-3, which is 100 times lower than that for the GNSP at a 1 pmol/L concentration and 10 times lower than that for the reported procedure based on traditional gold nanoparticles. Overall, our prototype LFIA platform based on a highly spiked GNS (GNS-3) exhibits high analytical sensitivity, indicating it to be a promising candidate for routine LFIA application to detect infectious diseases.}, Doi = {10.1021/acsanm.2c05557}, Key = {fds369834} } @article{fds369936, Author = {Cupil-Garcia, V and Li, JQ and Norton, SJ and Odion, RA and Strobbia, P and Menozzi, L and Ma, C and Hu, J and Zentella, R and Boyanov, MI and Finfrock, YZ and Gursoy, D and Douglas, DS and Yao, J and Sun, T-P and Kemner, KM and Vo-Dinh, T}, Title = {Plasmonic nanorod probes' journey inside plant cells for in vivo SERS sensing and multimodal imaging.}, Journal = {Nanoscale}, Volume = {15}, Number = {13}, Pages = {6396-6407}, Year = {2023}, Month = {March}, url = {http://dx.doi.org/10.1039/d2nr06235f}, Abstract = {Nanoparticle-based platforms are gaining strong interest in plant biology and bioenergy research to monitor and control biological processes in whole plants. However, <i>in vivo</i> monitoring of biomolecules using nanoparticles inside plant cells remains challenging due to the impenetrability of the plant cell wall to nanoparticles beyond the exclusion limits (5-20 nm). To overcome this physical barrier, we have designed unique bimetallic silver-coated gold nanorods (AuNR@Ag) capable of entering plant cells, while conserving key plasmonic properties in the near-infrared (NIR). To demonstrate cellular internalization and tracking of the nanorods inside plant tissue, we used a comprehensive multimodal imaging approach that included transmission electron microscopy (TEM), confocal fluorescence microscopy, two-photon luminescence (TPL), X-ray fluorescence microscopy (XRF), and photoacoustics imaging (PAI). We successfully acquired SERS signals of nanorods <i>in vivo</i> inside plant cells of tobacco leaves. On the same leaf samples, we applied orthogonal imaging methods, TPL and PAI techniques for <i>in vivo</i> imaging of the nanorods. This study first demonstrates the intracellular internalization of AuNR@Ag inside whole plant systems for <i>in vivo</i> SERS analysis in tobacco cells. This work demonstrates the potential of this nanoplatform as a new nanotool for intracellular <i>in vivo</i> biosensing for plant biology.}, Doi = {10.1039/d2nr06235f}, Key = {fds369936} } @article{fds369321, Author = {Atta, S and Vo-Dinh, T}, Title = {Solution-Based Ultra-Sensitive Surface-Enhanced Raman Scattering Detection of the Toxin Bacterial Biomarker Pyocyanin in Biological Fluids Using Sharp-Branched Gold Nanostars.}, Journal = {Analytical chemistry}, Volume = {95}, Number = {5}, Pages = {2690-2697}, Year = {2023}, Month = {February}, url = {http://dx.doi.org/10.1021/acs.analchem.2c03210}, Abstract = {There is a critical need for sensitive rapid point-of-care detection of bacterial infection biomarkers in complex biological fluids with minimal sample preparation, which can improve early-stage diagnosis and prevent several bacterial infections and fatal diseases. A solution-based surface-enhanced Raman scattering (SERS) detection platform has long been sought after for low cost, rapid, and on-site detection of analyte molecules, but current methods still exhibit poor sensitivity. In this study, we have tuned the morphology of the surfactant-free gold nanostars (GNSs) to achieve sharp protruding spikes for maximum SERS enhancement. We have controlled the GNS spike morphologies and optimized SERS performance in the solution phase using para-mercaptobenzoic acid as an SERS probe. To illustrate the potential for point-of-care applications, we have utilized a portable Raman instrument for measurements. For pathogenic agent sensing applications, we demonstrated rapid and sensitive detection of the toxin biomarker pyocyanin (PYO) used as the bacterial biomarker model system. Pyocyanin is a toxic compound produced and secreted by the common water-borne Gram-negative bacterium <i>Pseudomonas aeruginosa</i>, a pathogen known for advanced antibiotic resistance and association with serious diseases such as ventilator-associated pneumonia and cystic fibrosis. The limit of detection (LOD) achieved for PYO was 0.05 nM using sharp branched GNSs. Furthermore, as a proof of strategy, this SERS detection of PYO was performed directly in drinking water, human saliva, and human urine without any sample treatment pre-purification, achieving an LOD of 0.05 nM for drinking water and 0.4 nM for human saliva and urine. This work provides a proof-of-principle demonstration for the high sensitivity detection of the bacterial toxin biomarker with minimal sample preparation: the "mix and detect" detection of the GNS platform is simple, robust, and rapid, taking only 1-2 min for each measurement. Overall, our SERS detection platform shows great potential for point-of-need sensing and point-of-care diagnostics in biological fluids.}, Doi = {10.1021/acs.analchem.2c03210}, Key = {fds369321} } @article{fds367636, Author = {Canning, AJ and Chen, X and Li, JQ and Jeck, WR and Wang, H-N and Vo-Dinh, T}, Title = {miRNA probe integrated biosensor platform using bimetallic nanostars for amplification-free multiplexed detection of circulating colorectal cancer biomarkers in clinical samples.}, Journal = {Biosens Bioelectron}, Volume = {220}, Pages = {114855}, Year = {2023}, Month = {January}, url = {http://dx.doi.org/10.1016/j.bios.2022.114855}, Abstract = {There is a critical need for sensitive and rapid detection technologies utilizing molecular biotargets such as microRNAs (miRNAs), which regulate gene expression and are a promising class of diagnostic biomarkers for disease detection. Here, we present the development and fabrication of a highly reproducible and robust plasmonic bimetallic nanostar biosensing platform to detect miRNA targets using surfaced-enhanced Raman scattering (SERS)-based gene probes called the inverse Molecular Sentinel (iMS). We investigated and optimized the integration of iMS gene probes onto this SERS substrate, achieving ultra-sensitive detection with limits of detection of 6.8 and 16.7 zmol within the sensing region for two miRNA sequences of interest. Finally, we demonstrated the biomedical usefulness of this nanobiosensor platform with the multiplexed detection of upregulated miRNA targets, miR21 and miR221, from colorectal cancer patient plasma. The resulting SERS data are in excellent agreement with PCR data obtained from patient samples and can distinguish between healthy and cancerous patient samples. These results underline the potential of the iMS-integrated substrate nanobiosensing platform for rapid and sensitive diagnostics of cancer biomarkers for point-of-care applications.}, Doi = {10.1016/j.bios.2022.114855}, Key = {fds367636} } @article{fds371687, Author = {Devadhasan, JP and Summers, AJ and Gu, J and Smith, S and Thomas, B and Fattahi, A and Helton, J and Pandit, SG and Gates-Hollingsworth, M and Hau, D and Pflughoeft, KJ and Montgomery, DC and Atta, S and Vo-Dinh, T and AuCoin, D and Zenhausern, F}, Title = {Point-of-care vertical flow immunoassay system for ultra-sensitive multiplex biothreat-agent detection in biological fluids.}, Journal = {Biosensors & bioelectronics}, Volume = {219}, Pages = {114796}, Year = {2023}, Month = {January}, url = {http://dx.doi.org/10.1016/j.bios.2022.114796}, Abstract = {This paper presents simple, fast, and sensitive detection of multiple biothreat agents by paper-based vertical flow colorimetric sandwich immunoassay for detection of Yersinia pestis (LcrV and F1) and Francisella tularensis (lipopolysaccharide; LPS) antigens using a vertical flow immunoassay (VFI) prototype with portable syringe pump and a new membrane holder. The capture antibody (cAb) printing onto nitrocellulose membrane and gold-labelled detection antibody (dAb) were optimized to enhance the assay sensitivity and specificity. Even though the paper pore size was relaxed from previous 0.1 μm to the current 0.45 μm for serum samples, detection limits as low as 0.050 ng/mL for LcrV and F1, and 0.100 ng/mL for FtLPS have been achieved in buffer and similarly in diluted serum (with LcrV and F1 LODs remained the same and LPS LOD reduced to 0.250 ng/mL). These were 40, 80, and 50X (20X for LPS in serum) better than those from lateral flow configuration. Furthermore, the comparison of multiplex format demonstrated low cross-reactivity and equal sensitivity to that of the singleplex assay. The optimized VFI platform thus provides a portable and rapid on-site monitoring system for multiplex biothreat detection with the potential for high sensitivity, specificity, reproducibility, and multiplexing capability, supporting its utility in remote and resource-limited settings.}, Doi = {10.1016/j.bios.2022.114796}, Key = {fds371687} } @booklet{Panjehpour08, Author = {M. Panjehpour and D. Coppola and B. F. Overholt and T. Vo-dinh and S. Overholt}, Title = {Photodynamic therapy of Barrett's esophagus: Ablation of Barrett's mucosa and reduction in p53 protein expression after treatment}, Journal = {Anticancer Research}, Volume = {28}, Number = {1B}, Pages = {485 -- 489}, Year = {2008}, ISSN = {0250-7005}, Abstract = {Background: The effectiveness of photodynamic therapy (PDT) for ablation of high grade dysplasia (HGD) in Barrett's esophagus (BE) is typically reported histologically. Following successful PDT, Barrett's mucosa is replaced with neosquamous mucosa. The objective of this study was to compare the expression of p53 protein in neosquamous mucosa as compared to that in HGD samples not treated with PDT. Patients and Methods: The patients were divided into two groups. Group I patients (n=12) had been treated with PDT for HGD and provided 23 biopsy samples of neosquamous mucosa. Group II patients (n = 10) had not received any ablative therapies for BE and provided 14 HGD samples. The immunohistochemical (IHC) staining for p53 protein was performed using mouse anti-human monoclonal antibody DO-1. The degree of p53 protein expression in the cell nuclei was scored using an established IHC scoring system (0 for negative samples and range of 2 to 8 for positive samples). Results: The HGD samples showed diffuse strong p53 staining. The median IHC score for HGD was 7.0. The median IHC score for neosquamous mucosa following PDT was 4.0, with positive scores indicating weak staining in the basal layer of the neosquamous samples. There was significantly lower p53 expression in the neosquamous samples compared to that in the HGD samples (p$<$0.001). Conclusion: Significantly lower p53 protein expression was detected in neosquamous mucosa of patients who had received PDT for HGD, suggesting a decreased risk for neoplastic progression after treatment.}, Key = {Panjehpour08} } @booklet{Vo-dinh08a, Author = {T. Vo-dinh}, Title = {Nanobiosensing using plasmonic nanoprobes}, Journal = {Ieee Journal Of Selected Topics In Quantum Electronics}, Volume = {14}, Number = {1}, Pages = {198 -- 205}, Year = {2008}, ISSN = {1077-260X}, Abstract = {This paper provides an overview of the development and applications of plasmonics-active nanoprobes in biomedical diagnostics. Specific examples of detection techniques using surface-enhanced Raman scattering are presented to illustrate the usefulness and potential of the plasmonics nanoprobes for gene detection and nanobiosensing. The detection of specific target deoxyribonucleic acids sequences using a novel "molecular sentinel" nanoprobe method is presented and discussed in detail.}, Key = {Vo-dinh08a} } | |
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