74,324 results on '"Subramaniam, A."'
Search Results
2. Tropical rational curves with first order tangency via WDVV
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Paul, Anantadulal and Subramaniam, Aditya
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Mathematics - Algebraic Geometry ,14N10, 14T05 - Abstract
In this article, we study the tropical counterpart of the enumeration of rational curves in $\mathbb{CP}^2$ with first order tangency. We use the tropical analogue of the WDVV technique to compute rational tropical plane curves of degree $d$ tangent to a degree $l$ tropical plane curve and passing through $3d-2$ points in general position. As Mikhalkin's correspondence suggests, our numbers agree with earlier results on tangency in complex geometry., Comment: 14 pages, 5 figures
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- 2025
3. Axisymmetric Pushing of a Spherical Cargo using an Active Spherical Janus Motor
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Ganesh, Subramaniam Chembai, Rosenberg, Jessica S., Morris, Jeffrey F., Koplik, Joel, and Maldarelli, Charles
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Physics - Fluid Dynamics ,Condensed Matter - Soft Condensed Matter - Abstract
We analyze the interaction between a self-diffusiophoretic spherical Janus motor and an inert spherical cargo particle in an axisymmetric configuration in the Stokes regime. To study the different configurations of the two spheres and their motions, we develop an analog to the twin multipole approach to numerically determine the axisymmetric stream function for the flow field. We verify the validity and accuracy of this approach using existing literature and COMSOL Multiphysics. We study the effects of the size of the Janus cap, the relative ratio of sizes of the two spheres, and their separation distance on their interactions. For the case of a stationary cargo, we identify the existence of a distinct regime where the Janus motor hovers at a finite separation distance from the cargo and summarize the results using a phase diagram. In the presence of a freely moving cargo, we analyze the steady terminal velocities of the Janus motor and the cargo to identify distinct conditions at which the two spheres can translate with equal velocities while maintaining a finite separation distance.
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- 2025
4. Effect of Magnetic Field on Aqueous Humor Flows Inside Anterior Chamber of Human Eye
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Kumar, Deepak and Pushpavanam, Subramaniam
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Physics - Fluid Dynamics - Abstract
Aqueous humor (AH) dynamics is responsible for maintaining intraocular pressure, ocular health and targeted drug delivery within the eye. This study investigates the flow of AH within the anterior chamber (AC) under the combined influence of a uniform magnetic field and natural convection. Different orientations of the magnetic field and temperaature gradient are considered. A lubrication approximation is employed and the resulting equations are solved using regular perturbation method. The analytical solutions are validated using numerical simulations performed in COMSOL Multiphysics 6.2. In the standing position, AH flow field is characterised by a single vortex, while in the supine position, it forms two counter-rotating vortices. The velocity is found to be higher in standing position. The effect of a uniform magnetic field on the velocity is more significant in the supine position. The magnetic field does not change the flow field qualitatively as buoyancy is the primary driving force. In the standing position a magnetic field oriented perpendicular to the eye resulted in a greatest reduction of AH velocity, as compared to a magnetic field along the eye. This study is a step towards holistic approach for targeted drug delivery using magnetic fields in eye., Comment: 15 pages, 13 Figures
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- 2025
5. Multiagent Finetuning: Self Improvement with Diverse Reasoning Chains
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Subramaniam, Vighnesh, Du, Yilun, Tenenbaum, Joshua B., Torralba, Antonio, Li, Shuang, and Mordatch, Igor
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Computer Science - Computation and Language ,Computer Science - Artificial Intelligence ,Computer Science - Machine Learning - Abstract
Large language models (LLMs) have achieved remarkable performance in recent years but are fundamentally limited by the underlying training data. To improve models beyond the training data, recent works have explored how LLMs can be used to generate synthetic data for autonomous self-improvement. However, successive steps of self-improvement can reach a point of diminishing returns. In this work, we propose a complementary approach towards self-improvement where finetuning is applied to a multiagent society of language models. A group of language models, all starting from the same base model, are independently specialized by updating each one using data generated through multiagent interactions among the models. By training each model on independent sets of data, we illustrate how this approach enables specialization across models and diversification over the set of models. As a result, our overall system is able to preserve diverse reasoning chains and autonomously improve over many more rounds of fine-tuning than single-agent self-improvement methods. We quantitatively illustrate the efficacy of the approach across a wide suite of reasoning tasks., Comment: 22 pages, 13 figures, 7 tables; Project page at https://llm-multiagent-ft.github.io/
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- 2025
6. Unraveling the kinematic and morphological evolution of the Small Magellanic Cloud
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Dhanush, S. R., Subramaniam, A., and Subramanian, S.
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Astrophysics - Astrophysics of Galaxies - Abstract
We modeled the kinematics of the Small Magellanic Cloud (SMC) by analyzing the proper motion (PM) from Gaia DR3 of nine different stellar populations, which include young main sequence (MS) stars (< 2 Gyr), red giant branch stars, red clump stars, red giants with line-of-sight velocities, and three groups of star clusters. This analysis was carried out using a robust Markov Chain Monte Carlo method to derive up to 7 kinematic parameters. We trace the evolution from a non-rotating flattened elliptical system as mapped by the old population to a rotating highly stretched disk structure as denoted by the young MS stars and clusters (< 400 Myr). We estimated that the inclination, i (~ 58$^\circ$ to 82$^\circ$) decreases and the position angle, $\Theta$ (~ 180$^\circ$ to 240$^\circ$) increases with age. We estimated an asymptotic velocity of ~ 49 - 89 km s$^{-1}$ with scale-radius of ~ 6 - 9 kpc for the young MS populations with velocity dispersion of ~ 11 km s$^{-1}$, suggesting a rotation-supported disk structure. Our models estimate a line-of-sight extension of ~ 30 kpc, in agreement with observations. We identified four regions of the SMC showing anomalies in the residual PM, the East Anomaly (EA), South East Anomaly (SEA), South Anomaly (SA), and West Anomaly (WA). The SEA appears like an infalling feature and is identified for the first time. The tidal imprints observed in the residual PM of the SMC suggest that its evolution is considerably shaped by the recent interaction with the Large Magellanic Cloud., Comment: Accepted for publication in ApJ. 18 pages, 13 figures, 2 tables
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- 2025
7. Measuring Large Language Models Capacity to Annotate Journalistic Sourcing
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Vincent, Subramaniam, Wang, Phoebe, Shi, Zhan, Koka, Sahas, and Fang, Yi
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Computer Science - Computation and Language ,Computer Science - Computers and Society - Abstract
Since the launch of ChatGPT in late 2022, the capacities of Large Language Models and their evaluation have been in constant discussion and evaluation both in academic research and in the industry. Scenarios and benchmarks have been developed in several areas such as law, medicine and math (Bommasani et al., 2023) and there is continuous evaluation of model variants. One area that has not received sufficient scenario development attention is journalism, and in particular journalistic sourcing and ethics. Journalism is a crucial truth-determination function in democracy (Vincent, 2023), and sourcing is a crucial pillar to all original journalistic output. Evaluating the capacities of LLMs to annotate stories for the different signals of sourcing and how reporters justify them is a crucial scenario that warrants a benchmark approach. It offers potential to build automated systems to contrast more transparent and ethically rigorous forms of journalism with everyday fare. In this paper we lay out a scenario to evaluate LLM performance on identifying and annotating sourcing in news stories on a five-category schema inspired from journalism studies (Gans, 2004). We offer the use case, our dataset and metrics and as the first step towards systematic benchmarking. Our accuracy findings indicate LLM-based approaches have more catching to do in identifying all the sourced statements in a story, and equally, in matching the type of sources. An even harder task is spotting source justifications.
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- 2024
8. A Functional Human Liver Tissue Model: 3D Bioprinted Co-culture Discoids
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Subramaniam, Vignesh, Abrahan, Carolina, Higgins, Brett R., Chisolm, Steven J., Sweeney, Baleigh, Duraivel, Senthilkumar, Balzano-Nogueira, Leandro, Palmer, Glyn D., and Angelini, Thomas E.
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Condensed Matter - Soft Condensed Matter ,Physics - Biological Physics ,Quantitative Biology - Tissues and Organs - Abstract
To reduce costs and delays related to developing new and effective drugs, there is a critical need for improved human liver tissue models. Here we describe an approach for 3D bioprinting functional human liver tissue models, in which we fabricate disc-shaped structures (discoids) 200 {\mu}m in thickness and 1-3 mm in diameter, embedded in a highly permeable support medium made from packed microgels. We demonstrate that the method is precise, accurate, and scalable; up to 100 tissues per hour can be manufactured with a variability and error in diameter of about 4%. Histologic and immunohistochemical evaluation of printed discs reveal self-organization, cell cohesion, and key liver marker expression. During the course of 3-4 weeks in culture, the tissues stably synthesize albumin and urea at high levels, outperforming spheroid tissue models. We find the tissues express more than 100 genes associated with molecular absorption, distribution, metabolism, and excretion (ADME) at levels within the range of human liver. The liver tissue models exhibit enzymatic formation of metabolites after exposure to multiple test compounds. Together, these results demonstrate the promise of 3D printed discoids for pharmacological and toxicological applications., Comment: 34 pages, 7 figures, 2 supplementary figures
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- 2024
9. Automated Root Cause Analysis System for Complex Data Products
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Demarne, Mathieu, Cilimdzic, Miso, Falkowski, Tom, Johnson, Timothy, Gramling, Jim, Kuang, Wei, Hou, Hoobie, Aryan, Amjad, Subramaniam, Gayatri, Lee, Kenny, Mejia, Manuel, Liu, Lisa, and Vermareddy, Divya
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Computer Science - Software Engineering ,Computer Science - Artificial Intelligence - Abstract
We present ARCAS (Automated Root Cause Analysis System), a diagnostic platform based on a Domain Specific Language (DSL) built for fast diagnostic implementation and low learning curve. Arcas is composed of a constellation of automated troubleshooting guides (Auto-TSGs) that can execute in parallel to detect issues using product telemetry and apply mitigation in near-real-time. The DSL is tailored specifically to ensure that subject matter experts can deliver highly curated and relevant Auto-TSGs in a short time without having to understand how they will interact with the rest of the diagnostic platform, thus reducing time-to-mitigate and saving crucial engineering cycles when they matter most. This contrasts with platforms like Datadog and New Relic, which primarily focus on monitoring and require manual intervention for mitigation. ARCAS uses a Large Language Model (LLM) to prioritize Auto-TSGs outputs and take appropriate actions, thus suppressing the costly requirement of understanding the general behavior of the system. We explain the key concepts behind ARCAS and demonstrate how it has been successfully used for multiple products across Azure Synapse Analytics and Microsoft Fabric Synapse Data Warehouse., Comment: 13 pages, 6 figures
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- 2024
10. RMCSA Algorithm for Congestion-Aware and Service Latency Aware Dynamic Service Provisioning in Software-Defined SDM-EONs
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Heera, Baljinder Singh, Petale, Shrinivas, Singh, Yatindra Nath, and Subramaniam, Suresh
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Computer Science - Networking and Internet Architecture - Abstract
The implementation of 5G and the future deployment of 6G necessitate the utilization of optical networks that possess substantial capacity and exhibit minimal latency. The dynamic arrival and departure of connection requests in optical networks result in particular central links experiencing more traffic and congestion than non-central links. The occurrence of congested links leads to service blocking despite the availability of resources within the network, restricting the efficient utilization of network resources. The available algorithms in the literature that aim to balance load among network links offer a trade-off between blocking performance and algorithmic complexity, thus increasing service provisioning time. This work proposes a dynamic routing-based congestion-aware routing, modulation, core, and spectrum assignment (RMCSA) algorithm for space division multiplexing elastic optical networks (SDM-EONs). The algorithm finds alternative candidate paths based on real-time link occupancy metrics to minimize blocking due to link congestion under dynamic traffic scenarios. As a result, the algorithm reduces the formation of congestion hotspots in the network owing to link-betweenness centrality. We have performed extensive simulations using two realistic network topologies to compare the performance of the proposed algorithm with relevant RMCSA algorithms available in the literature. The simulation results verify the superior performance of our proposed algorithm compared to the benchmark Yen's K-shortest paths and K-Disjoint shortest paths RMCSA algorithms in connection blocking ratio and spectrum utilization efficiency. To expedite the route-finding process, we present a novel caching strategy that allows the proposed algorithm to demonstrate a much-reduced service delay time compared to the recently developed adaptive link weight-based load-balancing RMCSA algorithm., Comment: The preliminary work was presented at ONDM 2023 conference. https://doi.org/10.23919/ONDM57372.2023.10144866
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- 2024
11. Elastic Modulus Versus Cell Packing Density in MDCK Epithelial Monolayers
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Chisolm, Steven J., Guo, Emily, Subramaniam, Vignesh, Schulze, Kyle D., and Angelini, Thomas E.
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Condensed Matter - Soft Condensed Matter ,Physics - Biological Physics - Abstract
The elastic moduli of tissues are connected to their states of health and function. The epithelial monolayer is a simple, minimal, tissue model that is often used to gain understanding of mechanical behavior at the cellular or multi-cellular scale. Here we investigate how the elastic modulus of Madin Darby Canine Kidney (MDCK) cells depends on their packing density. Rather than measuring elasticity at the sub-cellular scale with local probes, we characterize the monolayer at the multi-cellular scale, as one would a thin slab of elastic material. We use a micro-indentation system to apply gentle forces to the apical side of MDCK monolayers, applying a normal force to approximately 100 cells in each experiment. In low-density confluent monolayers, we find that the elastic modulus decreases with increasing cell density. At high densities, the modulus appears to plateau. This finding will help guide our understanding of known collective behaviors in epithelial monolayers and other tissues where variations in cell packing density are correlated with cell motion., Comment: 13 pages, 4 figures
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- 2024
12. Analysis of Conducted and Radiated Emission on a Self-oscillating Capacitive Touch Sensing Circuit
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Sankar, Subramaniam Saravana, Kovar, Stanislav, Pospisilik, Martin, and Galda, Michael
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Computer Science - Emerging Technologies - Abstract
With the advent of smartphones, there has been a recent increase in the use of capacitive touch sensing for various Human Machine Interfaces (HMI). Capacitive-based touch sensing provides higher flexibility and cost-effectiveness than, methodologies such as resistive-based touch sensing. However, Capacitive-based touch sensing is more prone to disturbances such as Electromagnetic interference (EMI) and noise due to temperature variation. This effect becomes more dominating as the sensing excitation frequency increases. Traditional capacitance to digital circuits, such as sigma-delta capacitive sensing, requires multiple clock cycles to measure sensing capacitance, thus necessitating higher frequency operation. In turn, this produces challenges in Electromagnetic Emission while also increasing its susceptibility to EMI, such as false or ghost touch due to exposure of the sensing electrodes to various frequency electric fields. This paper discusses the conducted electromagnetic emission behavior of an external excitation-frequency independent self-oscillating capacitance-to-time converter, where sensing is done with a single clock cycle, and discusses radiated Electromagnetic emission of the touch sensing electrode. The proposed approach is suitable for touch-sensing applications, mainly when used in a noisy EMI environment, such as inside a vehicle within the Automotive industry., Comment: 4 pages, 8 figures
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- 2024
- Full Text
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13. Scalar perturbation and density contrast evolution in $f(Q,C)$ gravity
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Subramaniam, Ganesh, De, Avik, Loo, Tee-How, and Goh, Yong Kheng
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General Relativity and Quantum Cosmology - Abstract
The symmetric teleparallel theory offers an alternative gravitational formulation which can elucidate events in the early and late universe without requiring the physical existence of dark matter or dark energy. In this formalism, $f(Q, C)$ gravity has been recently introduced by incorporating the boundary term $C$ with the non-metricity scalar $Q$. In this paper, we develop the theory of cosmological scalar perturbation for $f(Q, C)$ gravity, and retrieve that of $f(\mathring{R})$ and $f(Q)$ gravity from our result. The analysis assumes a model-independent approach within these theories that adheres to the conventional continuity equation at the background level. We derive the density contrast equation by employing some standard cosmological approximations, where the $f(Q, C)$ theory is encoded in the effective Newtonian constant $G_{eff}$. Finally, we derive the evolution equation of density growth $f_g$.
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- 2024
14. Tracing Hierarchical Star Formation out to Kiloparsec Scales in Nearby Spiral Galaxies with UVIT
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Shashank, Gairola, Subramanian, Smitha, M., Sreedevi, Menon, Shyam H, Mondal, Chayan, Krishna, Sriram, Das, Mousumi, and Subramaniam, Annapurni
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Astrophysics - Astrophysics of Galaxies - Abstract
Molecular clouds fragment under the action of supersonic turbulence & gravity which results in a scale-free hierarchical distribution of star formation (SF) within galaxies. Recent studies suggest that the hierarchical distribution of SF in nearby galaxies shows a dependence on host galaxy properties. In this context, we study the nature of hierarchical SF from a few tens of pc up to several kpc in 4 nearby spiral galaxies NGC1566, NGC5194, NGC5457 & NGC7793, by leveraging the large FoV & high resolution FUV+NUV observations from the UltraViolet Imaging Telescope (UVIT). Using the two-point correlation function, we infer that the young star-forming clumps (SFCs) in the galaxies are arranged in a fractal-like hierarchical distribution, but only up to a maximum scale ($l_{corr}$) & it ranges from 0.5 kpc to 3.1 kpc. The flocculent spiral NGC7793 has $\sim$5 times smaller $l_{corr}$ than the 3 grand design spirals, possibly due to its lower mass, low pressure environment & lack of strong spiral arms. $l_{corr}$ being much smaller than the galaxy size suggests that the SF hierarchy does not extend to the full galaxy size & it is likely an effect set by multiple physical mechanisms in the galaxy. The hierarchical distribution of SFCs dissipates within 10 to 50 Myr, signifying their migration away from their birthplaces over time. Our results suggest that the global hierarchical properties of SF in galaxies are not universal & significant variations exist in the local & global hierarchy parameters of a galaxy. This study also demonstrates the capabilities of UVIT in characterizing the SF hierarchy in nearby galaxies. In the future, a bigger sample can be employed to further understand the role of large-scale galaxy properties (morphology, environment) & physical processes (feedback, turbulence, shear & ISM conditions) on determining the non-universal hierarchical properties of SF in galaxies., Comment: 18 pages, 11 figures, Accepted for publication in Astronomy and Astrophysics (A&A), after language correction
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- 2024
15. Adolescent-Reported Changes in Provider Behavior Following Pediatrician Training in Stimulant Diversion Prevention: Results from a Cluster Randomized Controlled Trial
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Brooke S. G. Molina, Heather M. Joseph, Heidi L. Kipp, Sarah L. Pedersen, David J. Kolko, Rachel A. Lindstrom, Daniel J. Bauer, and Geetha A. Subramaniam
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Objective: To test whether pediatrician training leads to provider utilization of stimulant diversion prevention strategies as reported by adolescent patients with ADHD. Methods: Pediatric practices received a stimulant diversion prevention workshop (SDP) or continued treatment-as-usual (TAU) in a cluster-randomized controlled trial. Surveys were completed by 341 stimulant-treated patients at baseline and three follow-up assessments. Results: In intent-to-treat analyses of patient reports, SDP adolescents reported more provider use of diversion prevention strategies compared to TAU. They also reported more parent-patient communication about diversion. Provider satisfaction with the training was strong. Conclusions: Pediatricians can make use of clinical practice strategies for the prevention of stimulant diversion following a 1-hr training; findings are novel given their reliance on confidential patient report of provider behavior and increase confidence in the results. Coupled with the positive provider satisfaction ratings, results suggest that this brief workshop may be an option for concerned providers that also has the effect of increasing discussion at home about safe use of stimulants.
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- 2025
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16. Integrative multiomics reveals common endotypes across PSEN1, PSEN2, and APP mutations in familial Alzheimer’s disease
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Valdes, Phoebe, Caldwell, Andrew B, Liu, Qing, Fitzgerald, Michael Q, Ramachandran, Srinivasan, Karch, Celeste M, Galasko, Douglas R, Yuan, Shauna H, Wagner, Steven L, and Subramaniam, Shankar
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Biomedical and Clinical Sciences ,Health Sciences ,Alzheimer's Disease ,Acquired Cognitive Impairment ,Genetics ,Alzheimer's Disease including Alzheimer's Disease Related Dementias (AD/ADRD) ,Brain Disorders ,Dementia ,Neurodegenerative ,Neurosciences ,Stem Cell Research ,Stem Cell Research - Induced Pluripotent Stem Cell - Human ,Human Genome ,Aging ,Stem Cell Research - Induced Pluripotent Stem Cell ,2.1 Biological and endogenous factors ,Neurological ,Dominantly Inherited Alzheimer Network ,Medical and Health Sciences ,Biomedical and clinical sciences ,Health sciences - Abstract
BackgroundPSEN1, PSEN2, and APP mutations cause Alzheimer's disease (AD) with an early age at onset (AAO) and progressive cognitive decline. PSEN1 mutations are more common and generally have an earlier AAO; however, certain PSEN1 mutations cause a later AAO, similar to those observed in PSEN2 and APP.MethodsWe examined whether common disease endotypes exist across these mutations with a later AAO (~ 55 years) using hiPSC-derived neurons from familial Alzheimer's disease (FAD) patients harboring mutations in PSEN1A79V, PSEN2N141I, and APPV717I and mechanistically characterized by integrating RNA-seq and ATAC-seq.ResultsWe identified common disease endotypes, such as dedifferentiation, dysregulation of synaptic signaling, repression of mitochondrial function and metabolism, and inflammation. We ascertained the master transcriptional regulators associated with these endotypes, including REST, ASCL1, and ZIC family members (activation), and NRF1 (repression).ConclusionsFAD mutations share common regulatory changes within endotypes with varying severity, resulting in reversion to a less-differentiated state. The regulatory mechanisms described offer potential targets for therapeutic interventions.
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- 2025
17. Modeling enzyme competition in eicosanoid metabolism in macrophage cells using a cybernetic framework.
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Khanum, Sana, Gupta, Shakti, Maurya, Mano, Raja, Rubesh, Aboulmouna, Lina, Subramaniam, Shankar, and Ramkrishna, Doraiswami
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arachidonic acid ,cyclooxygenase ,eicosapentaenoic acid ,inflammation ,kinetic modeling ,lipidomics ,lipolysis and fatty acid metabolism ,omega-3 fatty acid ,prostaglandin ,Animals ,Macrophages ,Mice ,Eicosanoids ,Eicosapentaenoic Acid ,Arachidonic Acid ,Models ,Biological ,RAW 264.7 Cells ,Prostaglandin-Endoperoxide Synthases - Abstract
Cellular metabolism is a complex process involving the consumption and production of metabolites, as well as the regulation of enzyme synthesis and activity. Modeling of metabolic processes is important to understand the underlying mechanisms, with a wide range of applications in metabolic engineering and health sciences. Cybernetic modeling is a powerful technique that accounts for unknown intricate regulatory mechanisms in complex cellular processes. It models regulation as goal-oriented, where the levels and activities of enzymes are modulated by the cybernetic control variables to achieve the cybernetic objective. This study used cybernetic model to study the enzyme competition between arachidonic acid (AA) and eicosapentaenoic acid (EPA) metabolism in murine macrophages. AA and EPA compete for the shared enzyme cyclooxygenase. Upon external stimuli, AA produces proinflammatory 2-series prostaglandins and EPA metabolizes to antiinflammatory 3-series prostaglandins, where proinflammatory and antiinflammatory responses are necessary for homeostasis. The cybernetic model adequately captured the experimental data for control and EPA-supplemented conditions. The model is validated by performing an F-test, conducting leave-one-out-metabolite cross-validation, and predicting an unseen experimental condition. The cybernetic variables provide insights into the competition between AA and EPA for the cyclooxygenase enzyme. Predictions from our model suggest that the system undergoes a switch from a predominantly proinflammatory state in the control to an antiinflammatory state with EPA-supplementation. The model can also be used to analytically determine the AA and EPA concentrations required for the switch to occur. The quantitative outcomes enhance understanding of proinflammatory and antiinflammatory metabolism in RAW 264.7 macrophages.
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- 2024
18. Unsupervised Machine Learning for Osteoporosis Diagnosis Using Singh Index Clustering on Hip Radiographs
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Madhivanan, Vimaladevi, Vijaya, Kalavakonda, Lal, Abhay, Rithika, Senthil, Subramaniam, Shamala Karupusamy, and Sameer, Mohamed
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Electrical Engineering and Systems Science - Image and Video Processing ,Computer Science - Computer Vision and Pattern Recognition ,Computer Science - Machine Learning - Abstract
Osteoporosis, a prevalent condition among the aging population worldwide, is characterized by diminished bone mass and altered bone structure, increasing susceptibility to fractures. It poses a significant and growing global public health challenge over the next decade. Diagnosis typically involves Dual-energy X-ray absorptiometry to measure bone mineral density, yet its mass screening utility is limited. The Singh Index (SI) provides a straightforward, semi-quantitative means of osteoporosis diagnosis through plain hip radiographs, assessing trabecular patterns in the proximal femur. Although cost-effective and accessible, manual SI calculation is time-intensive and requires expertise. This study aims to automate SI identification from radiographs using machine learning algorithms. An unlabelled dataset of 838 hip X-ray images from Indian adults aged 20-70 was utilized. A custom convolutional neural network architecture was developed for feature extraction, demonstrating superior performance in cluster homogeneity and heterogeneity compared to established models. Various clustering algorithms categorized images into six SI grade clusters, with comparative analysis revealing only two clusters with high Silhouette Scores for promising classification. Further scrutiny highlighted dataset imbalance and emphasized the importance of image quality and additional clinical data availability. The study suggests augmenting X-ray images with patient clinical data and reference images, alongside image pre-processing techniques, to enhance diagnostic accuracy. Additionally, exploring semi-supervised and self-supervised learning methods may mitigate labelling challenges associated with large datasets.
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- 2024
19. Transitions Between Cooperative and Crowding-Dominated Collective Motion in non-Jammed MDCK Monolayers
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Chisolm, Steven J., Guo, Emily, Subramaniam, Vignesh, Schulze, Kyle D., and Angelini, Thomas E.
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Condensed Matter - Soft Condensed Matter ,Physics - Biological Physics - Abstract
Transitions between solid-like and fluid-like states in living tissues have been found in steps of embryonic development and in stages of disease progression. Our current understanding of these transitions has been guided by experimental and theoretical investigations focused on how motion becomes arrested with increased mechanical coupling between cells, typically as a function of packing density or cell cohesiveness. However, cells actively respond to externally applied forces by contracting after a time delay, so it is possible that at some packing densities or levels of cell cohesiveness, mechanical coupling stimulates cell motion instead of suppressing it. Here we report our findings that at low densities and within multiple ranges of cell cohesiveness, cell migration speeds increase with these measures of mechanical coupling. Our observations run counter to our intuition that cell motion will be suppressed by increasingly packing or sticking cells together and may provide new insight into biological processes involving motion in dense cell populations., Comment: 5 figures; supplementary information
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- 2024
20. Presenting a STEM Ways of Thinking Framework for Engineering Design-based Physics Problems
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Subramaniam, Ravishankar Chatta, Morphew, Jason W., Rebello, Carina M., and Rebello, N. Sanjay
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Physics - Physics Education - Abstract
Investigating students' thinking in classroom tasks, particularly in science and engineering, is essential for improving educational practices and advancing student learning. In this context, the notion of Ways of Thinking (WoT) has gained traction in STEM education, offering a framework to explore how students approach and solve interdisciplinary problems. Building on our earlier studies and contributing to ongoing discussions on WoT frameworks, this paper introduces a new WoT framework: Ways of Thinking in Engineering Design based Physics (WoT4EDP). WoT4EDP integrates five key elements: design, science, mathematics, metacognitive reflection, and computational thinking within an undergraduate introductory physics laboratory. This framework offers a novel perspective by emphasizing how these interconnected elements work together to foster deeper learning and holistic problem-solving in Engineering Design based projects. A key takeaway is that this framework serves as a practical tool for educators and researchers to design, implement, and analyze interdisciplinary STEM activities in physics classrooms. We describe the development of WoT4EDP, situate it within the broader landscape of undergraduate STEM education, and provide detailed characterizations of its components. Additionally, we compare WoT4EDP with two contemporary frameworks: Dalal et al. (2021) and English (2023), to glean insights that enhance its application and promote interdisciplinary thinking. This paper is the first of a two-part series. In the upcoming second part, we will demonstrate the application of the WoT4EDP framework, showcasing how it can be used to analyze student thinking in real-world, ED-based physics projects., Comment: 26 pages, 3 figures Section 4F is now expanded with more details. Abstract slightly expanded
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- 2024
21. Brain Treebank: Large-scale intracranial recordings from naturalistic language stimuli
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Wang, Christopher, Yaari, Adam Uri, Singh, Aaditya K, Subramaniam, Vighnesh, Rosenfarb, Dana, DeWitt, Jan, Misra, Pranav, Madsen, Joseph R., Stone, Scellig, Kreiman, Gabriel, Katz, Boris, Cases, Ignacio, and Barbu, Andrei
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Quantitative Biology - Neurons and Cognition - Abstract
We present the Brain Treebank, a large-scale dataset of electrophysiological neural responses, recorded from intracranial probes while 10 subjects watched one or more Hollywood movies. Subjects watched on average 2.6 Hollywood movies, for an average viewing time of 4.3 hours, and a total of 43 hours. The audio track for each movie was transcribed with manual corrections. Word onsets were manually annotated on spectrograms of the audio track for each movie. Each transcript was automatically parsed and manually corrected into the universal dependencies (UD) formalism, assigning a part of speech to every word and a dependency parse to every sentence. In total, subjects heard over 38,000 sentences (223,000 words), while they had on average 168 electrodes implanted. This is the largest dataset of intracranial recordings featuring grounded naturalistic language, one of the largest English UD treebanks in general, and one of only a few UD treebanks aligned to multimodal features. We hope that this dataset serves as a bridge between linguistic concepts, perception, and their neural representations. To that end, we present an analysis of which electrodes are sensitive to language features while also mapping out a rough time course of language processing across these electrodes. The Brain Treebank is available at https://BrainTreebank.dev/, Comment: 36 pages, 17 figures; Accepted at NeurIPS Dataset and Benchmarks 2024
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- 2024
22. EXACFS -- A CIL Method to mitigate Catastrophic Forgetting
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Balasubramanian, S, Subramaniam, M Sai, Talasu, Sai Sriram, Krishna, P Yedu, Sai, Manepalli Pranav Phanindra, Mukkamala, Ravi, and Gera, Darshan
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Computer Science - Computer Vision and Pattern Recognition ,Computer Science - Machine Learning - Abstract
Deep neural networks (DNNS) excel at learning from static datasets but struggle with continual learning, where data arrives sequentially. Catastrophic forgetting, the phenomenon of forgetting previously learned knowledge, is a primary challenge. This paper introduces EXponentially Averaged Class-wise Feature Significance (EXACFS) to mitigate this issue in the class incremental learning (CIL) setting. By estimating the significance of model features for each learned class using loss gradients, gradually aging the significance through the incremental tasks and preserving the significant features through a distillation loss, EXACFS effectively balances remembering old knowledge (stability) and learning new knowledge (plasticity). Extensive experiments on CIFAR-100 and ImageNet-100 demonstrate EXACFS's superior performance in preserving stability while acquiring plasticity.
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- 2024
23. Anderson Localization in Photonic Time Crystals
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Eswaran, Karthik Subramaniam, Kopaei, Ali Emami, and Sacha, Krzysztof
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Physics - Optics ,Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Quantum Gases ,Quantum Physics - Abstract
Solutions of the wave equations for time-independent disordered media can exhibit Anderson localization where instead of wave propagation we observe their localization around different points in space. Photonic time crystals are spatially homogeneous media in which the refractive index changes periodically in time, leading to the formation of bands in the wave number domain. By analogy to Anderson localization in space, one might expect that the presence of temporal disorder in photonic time crystals would lead to Anderson localization in the time domain. Here, we show that indeed periodic modulations of the refractive index with the addition of temporal disorder lead to Anderson localization in time, where an electromagnetic field can emerge from the temporally modulated medium at a certain moment in time and then decay exponentially over time. Thus, we are dealing with a situation where, in a fluctuating three-dimensional medium, the birth and death of waves can occur, and the mechanism of this phenomenon corresponds to Anderson localization., Comment: 4 pages + supplementary material, 3 figures
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- 2024
24. Training the Untrainable: Introducing Inductive Bias via Representational Alignment
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Subramaniam, Vighnesh, Mayo, David, Conwell, Colin, Poggio, Tomaso, Katz, Boris, Cheung, Brian, and Barbu, Andrei
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Computer Science - Machine Learning ,Computer Science - Artificial Intelligence ,Computer Science - Computation and Language - Abstract
We demonstrate that architectures which traditionally are considered to be ill-suited for a task can be trained using inductive biases from another architecture. Networks are considered untrainable when they overfit, underfit, or converge to poor results even when tuning their hyperparameters. For example, plain fully connected networks overfit on object recognition while deep convolutional networks without residual connections underfit. The traditional answer is to change the architecture to impose some inductive bias, although what that bias is remains unknown. We introduce guidance, where a guide network guides a target network using a neural distance function. The target is optimized to perform well and to match its internal representations, layer-by-layer, to those of the guide; the guide is unchanged. If the guide is trained, this transfers over part of the architectural prior and knowledge of the guide to the target. If the guide is untrained, this transfers over only part of the architectural prior of the guide. In this manner, we can investigate what kinds of priors different architectures place on untrainable networks such as fully connected networks. We demonstrate that this method overcomes the immediate overfitting of fully connected networks on vision tasks, makes plain CNNs competitive to ResNets, closes much of the gap between plain vanilla RNNs and Transformers, and can even help Transformers learn tasks which RNNs can perform more easily. We also discover evidence that better initializations of fully connected networks likely exist to avoid overfitting. Our method provides a mathematical tool to investigate priors and architectures, and in the long term, may demystify the dark art of architecture creation, even perhaps turning architectures into a continuous optimizable parameter of the network., Comment: Under Review; 24 pages, 9 figures; Project page and code is at https://untrainable-networks.github.io/
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- 2024
25. Orbits and vertical height distribution of 4006 open clusters in the Galactic disk using Gaia DR3
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Rangwal, Geeta, Arya, Aman, Subramaniam, Annapurni, Singh, Kulinder Pal, and Liu, Xiaowei
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Astrophysics - Astrophysics of Galaxies - Abstract
Open clusters (OCs) in the Galaxy are excellent probes for tracing the structure and evolution of the Galactic disk. We present an updated catalog of parameters for 1,145 OCs, estimated using the Gaia DR3 data earlier listed in Cantat-Gaudin et al. (2020). This sample is complemented by 3,677 OCs from the catalog by Hunt & Reffert (2023). Using the Galaxy potential and the space velocities, orbits of 4,006 OCs were computed. We provide a catalog with orbital parameters such as eccentricity, perigalactic and apogalactic distance, and the maximum vertical height traced by OCs from the Galactic disk. The OCs were found to be distributed between 5-16 kpc from the Galactic center, with older OCs showing a radially extended distribution. The low number of old OCs in the inner Solar circle region likely suggests their destruction in this area. We derive a quantitative expression for the dependency of the maximum vertical height (Z_max) OCs can reach with the cluster's age and Galactocentric radius for the first time. The young and intermediate-age OCs show similar values of Z_max till 9 kpc, with the latter group having higher values beyond. OCs older than 1 Gyr show larger values of Z_max at all Galactocentric radii and significantly larger values beyond 9 kpc. Higher values of Z_max are found in the third Galactic quadrant, suggesting a link between these higher values and the Galactic warp. This sample shows that young OCs are also involved in the diagonal ridge formation in the solar neighborhood.
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- 2024
26. UVIT Study of the MAgellanic Clouds (U-SMAC) II. A Far-UV catalog of the Small Magellanic Cloud: Morphology and Kinematics of young stellar population
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Hota, Sipra, Subramaniam, Annapurni, Nayak, Prasanta K., and Subramanian, Smitha
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Astrophysics - Astrophysics of Galaxies - Abstract
The Small Magellanic Cloud (SMC) is an irregular dwarf galaxy that has recently undergone an interaction with the Large Magellanic Cloud. The young massive stars in the SMC formed in the disturbed low-metallicity environment are important targets in astrophysics. We present a catalog of $\sim$ 76,800 far ultraviolet (FUV) sources towards the SMC detected using the Ultra Violet Imaging Telescope (UVIT) onboard AstroSat. We created an FUV catalog with $\sim$ 62900 probable SMC members which predominantly comprise main-sequence, giant, and subgiant stars. We selected 4 young populations (Young 1, Young 2, Young 3, and Blue Loop (BL) stars) identified from the Gaia optical color-magnitude diagram to study the morphology and kinematics of the young SMC using this catalog. We detect a clumpy morphology with a broken bar, a shell-like structure, and the inner SMC Wing for the 4 stellar populations. The eastern region and the northeastern regions are mainly populated by Young 1, 2, and 3. The central region predominantly has the Young 2 and 3 populations, whereas the SW has BL stars, Young 2 and 3. The 2-D kinematic study using proper motion (PM) reveals that Young 2 and 3 populations show two kinematically distinct sub-populations with low and high PM dispersion, whereas the Young 1 and BL stars show two kinematically distinct populations with low dispersion. Our analysis points to a kinematic disturbance along the RA direction for stars younger than $\sim$ 150 Myr located in the eastern region, with no significant disturbance along the Declination., Comment: 14 figures, 6 tables, Accepted for publication in the Astronomical Journal
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- 2024
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27. Candidate ram-pressure stripped galaxies in six low-redshift clusters revealed from ultraviolet imaging
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George, Koshy, Poggianti, B. M., Omizzolo, A., Vulcani, B., Côté, P., Postma, J., Smith, R., Jaffe, Y. L., Gullieuszik, M., Moretti, A., Subramaniam, A., Sreekumar, P., Ghosh, S. K., Tandon, S. N., and Hutchings, J. B.
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Astrophysics - Astrophysics of Galaxies - Abstract
The assembly of galaxy clusters is understood to be a hierarchical process with a continuous accretion of galaxies over time, which increases the cluster size and mass. Late-type galaxies that fall into clusters can undergo ram-pressure stripping, forming extended gas tails within which star formation can happen. The number, location, and tail orientations of such galaxies provide clues about the galaxy infall process, the assembly of the cluster over time, and the consequences of infall for galaxy evolution. Here, we utilise the $\sim$ 0.5 degree diameter circular field of the Ultraviolet Imaging Telescope to image six galaxy clusters at z < 0.06 that are known to contain jellyfish galaxies. We searched for stripping candidates in the ultraviolet images of these clusters, which revealed 54 candidates showing signs of unilateral extra-planar emission, due to ram-pressure stripping. Seven candidates had already been identified as likely stripping based on optical B-band imaging. We identified 47 new candidates through UV imaging. Spectroscopic redshift information is available for 39 of these candidate galaxies, of which 19 are associated with six clusters. The galaxies with spectroscopic redshifts that are not part of the clusters appear to be within structures at different redshifts identified as additional peaks in the redshift distribution of galaxies, indicating that they might be ram-pressure stripped or disturbed galaxies in other structures along the line of sight. We examine the orbital history of these galaxies based on their location in the position-velocity phase-space diagram and explore a possible connection to the orientation of the tail direction among cluster member candidates. The tails of confirmed cluster member galaxies are found to be oriented away from the cluster centre., Comment: Accepted for publication in A&A
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- 2024
28. Investigating the Design-Science Connection in a multi-week Engineering Design (ED)-based introductory physics laboratory task
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Subramaniam, Ravishankar Chatta, Borse, Nikhil, Bralin, Amir, Morphew, Jason W., Rebello, Carina M., and Rebello, N. Sanjay
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Physics - Physics Education - Abstract
Reform documents advocate for innovative pedagogical strategies to enhance student learning. A key innovation is the integration of science and engineering practices through Engineering Design (ED)-based physics laboratory tasks, where students tackle engineering design problems by applying physics principles. While this approach has its benefits, research shows that students do not always effectively apply scientific concepts, but instead rely on trial-and-error approaches, and end up 'gadgeteering' their way to a solution. This leads to what is commonly referred to as the "design-science gap" -- that students do not always consciously apply science concepts while solving a design problem. However, as obvious as the notion of a `gap' may appear, there seems to exist no consensus on the definitions of `design' and `science', further complicating the understanding of this `gap'. This qualitative study addresses the notion of the design-science gap by examining student-groups' discussions and written lab reports from a multi-week ED-based undergraduate introductory physics laboratory task. Building on our earlier studies, we developed and employed a nuanced, multi-layered coding scheme inspired by the Gioia Framework to characterize `design thinking' and `science thinking'. We discuss how student-groups engage in various aspects of design and how they apply concepts physics principles to solve the problem. In the process, we demonstrate the interconnectedness of students' design thinking and science thinking. We advocate for the usage of the term "design-science connection" as opposed to "design-science gap" to deepen both design and scientific thinking. Our findings offer valuable insights for educators in design-based science education., Comment: 1. Some changes made in Sections: 1, 2A, 2B, 2E, 4A, 4E (i), 4E (ii), 5D (ii), 5G, 5I; Nothing removed, but there's significantly more detailing now. 2. Caption 5E has been slightly modified. 3. Tables 4 and 5 have been expanded (extra column added). 5. A new Section 9 added to outline Future Work
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- 2024
29. Towards Timetronics with Photonic Systems
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Kopaei, Ali Emami, Eswaran, Karthik Subramaniam, Kosior, Arkadiusz, Hodgson, Daniel, Matsko, Andrey, Taheri, Hossein, Beige, Almut, and Sacha, Krzysztof
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Physics - Optics ,Condensed Matter - Disordered Systems and Neural Networks ,Condensed Matter - Quantum Gases ,Quantum Physics - Abstract
Periodic driving of systems of particles can create crystalline structures in time. Such systems can be used to study solid-state physics phenomena in the time domain. In addition, it is possible to engineer the wave-number band structure of optical systems and to realize photonic time crystals by periodic temporal modulation of the material properties of the electromagnetic wave propagation medium. We introduce here a versatile averaged-permittivity approach which empowers emulating various condensed matter phases in the time dimension in a traveling wave resonator. This is achieved by utilizing temporal modulation of permittivity within a small segment of the resonator and the spatial shape of the segment. The required frequency and depth of the modulation are experimentally achievable, opening a pathway for research into the practical realisation of crystalline structures in time utilising microwave and optical systems., Comment: 4 pages + supplemental materials, 3 figures
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- 2024
30. Digital Twin Enabled Data-Driven Approach for Traffic Efficiency and Software-Defined Vehicular Network Optimization
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Shahriar, Mohammad Sajid, Subramaniam, Suresh, Matsuura, Motoharu, Hasegawa, Hiroshi, and Lin, Shih-Chun
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Computer Science - Networking and Internet Architecture - Abstract
In the realms of the internet of vehicles (IoV) and intelligent transportation systems (ITS), software defined vehicular networks (SDVN) and edge computing (EC) have emerged as promising technologies for enhancing road traffic efficiency. However, the increasing number of connected autonomous vehicles (CAVs) and EC-based applications presents multi-domain challenges such as inefficient traffic flow due to poor CAV coordination and flow-table overflow in SDVN from increased connectivity and limited ternary content addressable memory (TCAM) capacity. To address these, we focus on a data-driven approach using virtualization technologies like digital twin (DT) to leverage real-time data and simulations. We introduce a DT design and propose two data-driven solutions: a centralized decision support framework to improve traffic efficiency by reducing waiting times at roundabouts and an approach to minimize flow-table overflow and flow re-installation by optimizing flow-entry lifespan in SDVN. Simulation results show the decision support framework reduces average waiting times by 22% compared to human-driven vehicles, even with a CAV penetration rate of 40%. Additionally, the proposed optimization of flow-table space usage demonstrates a 50% reduction in flow-table space requirements, even with 100% penetration of connected vehicles., Comment: 7 pages, 9 figures, conference paper
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- 2024
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31. Enhancement of Power Quality in Single Phase Systems Using Grid Connected Solar Inverter with AQSG Control
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Nambiar, Divya R., Kumar, Sooraj Suresh, Kumar, M. V. Manoj, Jayaprakash, P., Subramaniam, Umashankar, Almakhles, Dhafer, di Prisco, Marco, Series Editor, Chen, Sheng-Hong, Series Editor, Vayas, Ioannis, Series Editor, Kumar Shukla, Sanjay, Series Editor, Sharma, Anuj, Series Editor, Kumar, Nagesh, Series Editor, Wang, Chien Ming, Series Editor, Cui, Zhen-Dong, Series Editor, Lu, Xinzheng, Series Editor, Mansour, Yasser, editor, Subramaniam, Umashankar, editor, Mustaffa, Zahiraniza, editor, Abdelhadi, Abdelhakim, editor, Al-Atroush, Mohamed, editor, and Abowardah, Eman, editor
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- 2025
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32. Serum Glial Fibrillary Acidic Protein and Neurofilament Light Chain Levels Reflect Different Mechanisms of Disease Progression under B-Cell Depleting Treatment in Multiple Sclerosis.
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Benkert, Pascal, Maleska Maceski, Aleksandra, Schaedelin, Sabine, Oechtering, Johanna, Zadic, Amar, Vilchez Gomez, Juan, Melie-Garcia, Lester, Cagol, Alessandro, Galbusera, Riccardo, Subramaniam, Suvitha, Lorscheider, Johannes, Galli, Edoardo, Mueller, Jannis, Fischer-Barnicol, Bettina, Achtnichts, Lutz, Findling, Oliver, Lalive, Patrice, Bridel, Claire, Uginet, Marjolaine, Müller, Stefanie, Pot, Caroline, Mathias, Amandine, Du Pasquier, Renaud, Salmen, Anke, Hoepner, Robert, Chan, Andrew, Disanto, Giulio, Zecca, Chiara, DSouza, Marcus, Hemkens, Lars, Yaldizli, Özgür, Derfuss, Tobias, Roth, Patrick, Gobbi, Claudio, Brassat, David, Tackenberg, Björn, Pedotti, Rosetta, Raposo, Catarina, Oksenberg, Jorge, Wiendl, Heinz, Berger, Klaus, Hermesdorf, Marco, Piehl, Fredrik, Conen, David, Buser, Andreas, Kappos, Ludwig, Khalil, Michael, Granziera, Cristina, Abdelhak, Ahmed, Leppert, David, Willemse, Eline, and Kuhle, Jens
- Abstract
OBJECTIVE: To investigate the longitudinal dynamics of serum glial fibrillary acidic protein (sGFAP) and serum neurofilament light chain (sNfL) levels in people with multiple sclerosis (pwMS) under B-cell depleting therapy (BCDT) and their capacity to prognosticate future progression independent of relapse activity (PIRA) events. METHODS: A total of 362 pwMS (1,480 samples) starting BCDT in the Swiss Multiple Sclerosis (MS) Cohort were included. sGFAP levels in 2,861 control persons (4,943 samples) provided normative data to calculate adjusted Z scores. RESULTS: Elevated sGFAP levels (Z score >1) at 1 year were associated with a higher hazard for PIRA (hazard ratio [HR]: 1.80 [95% CI: 1.17-2.78]; p = 0.0079) than elevated sNfL levels (HR, 1.45 [0.95-2.24], p = 0.0886) in a combined model. Independent of PIRA events, sGFAP levels longitudinally increased by 0.49 Z score units per 10 years follow-up (estimate, 0.49 [0.29, 0.69], p
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- 2024
33. Generation of ‘semi-guided’ cortical organoids with complex neural oscillations
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Fitzgerald, Michael Q, Chu, Tiffany, Puppo, Francesca, Blanch, Rebeca, Chillón, Miguel, Subramaniam, Shankar, and Muotri, Alysson R
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Biomedical and Clinical Sciences ,Engineering ,Biomedical Engineering ,Stem Cell Research ,Neurosciences ,Biotechnology ,1.1 Normal biological development and functioning ,Neurological ,Organoids ,Humans ,Cerebral Cortex ,Cell Differentiation ,Cell Culture Techniques ,Neurons ,Chemical Sciences ,Biological Sciences ,Medical and Health Sciences ,Bioinformatics - Abstract
Temporal development of neural electrophysiology follows genetic programming, similar to cellular maturation and organization during development. The emergent properties of this electrophysiological development, namely neural oscillations, can be used to characterize brain development. Recently, we utilized the innate programming encoded in the human genome to generate functionally mature cortical organoids. In brief, stem cells are suspended in culture via continuous shaking and naturally aggregate into embryoid bodies before being exposed to media formulations for neural induction, differentiation and maturation. The specific culture format, media composition and duration of exposure to these media distinguish organoid protocols and determine whether a protocol is guided or unguided toward specific neural fate. The 'semi-guided' protocol presented here has shorter induction and differentiation steps with less-specific patterning molecules than most guided protocols but maintains the use of neurotrophic factors such as brain-derived growth factor and neurotrophin-3, unlike unguided approaches. This approach yields the cell type diversity of unguided approaches while maintaining reproducibility for disease modeling. Importantly, we characterized the electrophysiology of these organoids and found that they recapitulate the maturation of neural oscillations observed in the developing human brain, a feature not shown with other approaches. This protocol represents the potential first steps toward bridging molecular and cellular biology to human cognition, and it has already been used to discover underlying features of human brain development, evolution and neurological conditions. Experienced cell culture technicians can expect the protocol to take 1 month, with extended maturation, electrophysiology recording, and adeno-associated virus transduction procedure options.
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- 2024
34. GitHub is an effective platform for collaborative and reproducible laboratory research
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Chen, Katharine Y., Toro-Moreno, Maria, and Subramaniam, Arvind Rasi
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Quantitative Biology - Other Quantitative Biology - Abstract
Laboratory research is a complex, collaborative process that involves several stages, including hypothesis formulation, experimental design, data generation and analysis, and manuscript writing. Although reproducibility and data sharing are increasingly prioritized at the publication stage, integrating these principles at earlier stages of laboratory research has been hampered by the lack of broadly applicable solutions. Here, we propose that the workflow used in modern software development offers a robust framework for enhancing reproducibility and collaboration in laboratory research. In particular, we show that GitHub, a platform widely used for collaborative software projects, can be effectively adapted to organize and document all aspects of a research project's lifecycle in a molecular biology laboratory. We outline a three-step approach for incorporating the GitHub ecosystem into laboratory research workflows: 1. designing and organizing experiments using issues and project boards, 2. documenting experiments and data analyses with a version control system, and 3. ensuring reproducible software environments for data analyses and writing tasks with containerized packages. The versatility, scalability, and affordability of this approach make it suitable for various scenarios, ranging from small research groups to large, cross-institutional collaborations. Adopting this framework from a project's outset can increase the efficiency and fidelity of knowledge transfer within and across research laboratories. An example GitHub repository based on the above approach is available at https://github.com/rasilab/github_demo., Comment: 13 pages, 6 figures
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- 2024
35. A Partial Near-infrared Guide Star Catalog for Thirty Meter Telescope Operations
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Shah, Sarang, Subramanian, Smitha, K., Avinash C., Andersen, David R., Skidmore, Warren, Anupama, G. C., Delgado, Francisco, Gillies, Kim, Gopinathan, Maheshwar, Ramaprakash, A. N., Reddy, B. E., Sivarani, T., and Subramaniam, Annapurni
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Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
At first light, the Thirty Meter Telescope (TMT) near-infrared (NIR) instruments will be fed by a multiconjugate adaptive optics instrument known as the Narrow Field Infrared Adaptive Optics System (NFIRAOS). NFIRAOS will use six laser guide stars to sense atmospheric turbulence in a volume corresponding to a field of view of 2', but natural guide stars (NGSs) will be required to sense tip/tilt and focus. To achieve high sky coverage (50% at the north Galactic pole), the NFIRAOS client instruments use NIR on-instrument wavefront sensors that take advantage of the sharpening of the stars by NFIRAOS. A catalog of guide stars with NIR magnitudes as faint as 22 mag in the J band (Vega system), covering the TMT-observable sky, will be a critical resource for the efficient operation of NFIRAOS, and no such catalog currently exists. Hence, it is essential to develop such a catalog by computing the expected NIR magnitudes of stellar sources identified in deep optical sky surveys using their optical magnitudes. This paper discusses the generation of a partial NIR Guide Star Catalog (IRGSC), similar to the final IRGSC for TMT operations. The partial catalog is generated by applying stellar atmospheric models to the optical data of stellar sources from the Panoramic Survey Telescope and Rapid Response System (Pan-STARRS) optical data and then computing their expected NIR magnitudes. We validated the computed NIR magnitudes of the sources in some fields by using the available NIR data for those fields. We identified the remaining challenges of this approach. We outlined the path for producing the final IRGSC using the Pan-STARRS data. We have named the Python code to generate the IRGSC as irgsctool, which generates a list of NGS for a field using optical data from the Pan-STARRS 3pi survey and also a list of NGSs having observed NIR data from the UKIRT Infrared Deep Sky Survey if they are available.
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- 2024
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36. Track-MDP: Reinforcement Learning for Target Tracking with Controlled Sensing
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Subramaniam, Adarsh M., Gerogiannis, Argyrios, Hare, James Z., and Veeravalli, Venugopal V.
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Electrical Engineering and Systems Science - Signal Processing ,Statistics - Machine Learning - Abstract
State of the art methods for target tracking with sensor management (or controlled sensing) are model-based and are obtained through solutions to Partially Observable Markov Decision Process (POMDP) formulations. In this paper a Reinforcement Learning (RL) approach to the problem is explored for the setting where the motion model for the object/target to be tracked is unknown to the observer. It is assumed that the target dynamics are stationary in time, the state space and the observation space are discrete, and there is complete observability of the location of the target under certain (a priori unknown) sensor control actions. Then, a novel Markov Decision Process (MDP) rather than POMDP formulation is proposed for the tracking problem with controlled sensing, which is termed as Track-MDP. In contrast to the POMDP formulation, the Track-MDP formulation is amenable to an RL based solution. It is shown that the optimal policy for the Track-MDP formulation, which is approximated through RL, is guaranteed to track all significant target paths with certainty. The Track-MDP method is then compared with the optimal POMDP policy, and it is shown that the infinite horizon tracking reward of the optimal Track-MDP policy is the same as that of the optimal POMDP policy. In simulations it is demonstrated that Track-MDP based RL leads to a policy that can track the target with high accuracy.
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- 2024
37. Equivalence of two component spinor mechanism and four component spinor mechanism in top quark pair production
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Deo, Malvika, Misra, Anuradha, Subramaniam, Sharada, and Vinze, Radhika
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High Energy Physics - Phenomenology ,High Energy Physics - Theory - Abstract
In this article, we calculate the $S$-matrix elements for the process $e^{+} e^{-}\rightarrow t \bar{t}$ mediated by SM photon, $Z$ boson and an additional $Z^{'}$ boson indicating the contribution from new physics. We calculate the amplitude square using two component spinor formalism and four component spinor formalism and show the equivalence of the results using the two formalisms. We also establish the relations between the couplings of $Z^{'}$ boson to fermions in the two component spinor formalism and four component spinor formalism.
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- 2024
38. Discovery of a barium blue straggler star in M67 and sighting of its WD companion*
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Pal, Harshit, Subramaniam, Annapurni, Reddy, Arumalla B. S., and Jadhav, Vikrant V.
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Astrophysics - Solar and Stellar Astrophysics - Abstract
We report the discovery of a barium blue straggler star (BSS) in M67, exhibiting enhancements in slow neutron-capture ($s$-) process elements. Spectroscopic analysis of two BSSs (WOCS\,9005 \& WOCS\,1020) and 4 stars located near the main-sequence turn-off using GALAH spectra, showed that WOCS\,9005 has a significantly high abundance of the s-process elements ([Ba/Fe] = 0.75$\pm$0.08, [Y/Fe] = 1.09$\pm$0.07, [La/Fe] = 0.65$\pm$0.06). The BSS (WOCS\,9005) is a spectroscopic binary with a known period, eccentricity and a suspected white dwarf (WD) companion with a kinematic mass of 0.5 M$_\odot$. The first `sighting' of the WD in this barium BSS is achieved through multi-wavelength spectral energy distribution (SED) with the crucial far-UV data from the UVIT/\textit{AstroSat}. The parameters of the hot and cool companions are derived using binary fits of the SED using two combinations of models, yielding a WD with T$_{eff}$ in the range 9750--15250 K. Considering the kinematic mass limit, the cooling age of the WD is estimated as $\sim$ 60 Myr. The observed enhancements are attributed to a mass transfer (MT) from a companion asymptotic giant branch star, now a WD. We estimate the accreted mass to be 0.15 M$_{\odot}$, through wind accretion, which increased the envelope mass from 0.45 M$_{\odot}$. The detection of chemical enhancement, as well as the sighting of WD in this system have been possible due to the recent MT in this binary, as suggested by the young WD., Comment: Accepted for publication in The Astrophysical Journal Letters. 12 pages, 5 figures
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- 2024
39. Edge AI: A Taxonomy, Systematic Review and Future Directions
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Gill, Sukhpal Singh, Golec, Muhammed, Hu, Jianmin, Xu, Minxian, Du, Junhui, Wu, Huaming, Walia, Guneet Kaur, Murugesan, Subramaniam Subramanian, Ali, Babar, Kumar, Mohit, Ye, Kejiang, Verma, Prabal, Kumar, Surendra, Cuadrado, Felix, and Uhlig, Steve
- Subjects
Computer Science - Distributed, Parallel, and Cluster Computing - Abstract
Edge Artificial Intelligence (AI) incorporates a network of interconnected systems and devices that receive, cache, process, and analyze data in close communication with the location where the data is captured with AI technology. Recent advancements in AI efficiency, the widespread use of Internet of Things (IoT) devices, and the emergence of edge computing have unlocked the enormous scope of Edge AI. Edge AI aims to optimize data processing efficiency and velocity while ensuring data confidentiality and integrity. Despite being a relatively new field of research from 2014 to the present, it has shown significant and rapid development over the last five years. This article presents a systematic literature review for Edge AI to discuss the existing research, recent advancements, and future research directions. We created a collaborative edge AI learning system for cloud and edge computing analysis, including an in-depth study of the architectures that facilitate this mechanism. The taxonomy for Edge AI facilitates the classification and configuration of Edge AI systems while examining its potential influence across many fields through compassing infrastructure, cloud computing, fog computing, services, use cases, ML and deep learning, and resource management. This study highlights the significance of Edge AI in processing real-time data at the edge of the network. Additionally, it emphasizes the research challenges encountered by Edge AI systems, including constraints on resources, vulnerabilities to security threats, and problems with scalability. Finally, this study highlights the potential future research directions that aim to address the current limitations of Edge AI by providing innovative solutions., Comment: Preprint Version Accepted for Publication in Springer Cluster Computing, 2024
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- 2024
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40. Stable Machine-Learning Parameterization of Subgrid Processes with Real Geography and Full-physics Emulation
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Hu, Zeyuan, Subramaniam, Akshay, Kuang, Zhiming, Lin, Jerry, Yu, Sungduk, Hannah, Walter M., Brenowitz, Noah D., Romero, Josh, and Pritchard, Michael S.
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Physics - Atmospheric and Oceanic Physics - Abstract
Modern climate projections often suffer from inadequate spatial and temporal resolution due to computational limitations, resulting in inaccurate representations of sub-grid processes. A promising technique to address this is the Multiscale Modeling Framework (MMF), which embeds a kilometer-resolution cloud-resolving model within each atmospheric column of a host climate model to replace traditional convection and cloud parameterizations. Machine learning (ML) offers a unique opportunity to make MMF more accessible by emulating the embedded cloud-resolving model and reducing its substantial computational cost. Although many studies have demonstrated proof-of-concept success of achieving stable hybrid simulations, it remains a challenge to achieve near operational-level success with real geography and comprehensive variable emulation that includes, for example, explicit cloud condensate coupling. In this study, we present a stable hybrid model capable of integrating for at least 5 years with near operational-level complexity, including real geography, seasonality, explicit cloud condensate predictions, and land coupling. Our model demonstrates skillful online performance in metrics such as 5-year zonal mean biases compared to previous MMF emulation studies. The monthly error against reference MMF simulations with the same initial condition approaches the fundamental predictability limit. Key factors contributing to our online performance include an expressive U-Net architecture, additional input features that include large-scale forcings and convection memory, and physical thermodynamic constraints for microphysics. With microphysical constraints mitigating unrealistic cloud formation, our work is the first to demonstrate realistic multi-year cloud condensate climatology under the MMF framework. Our work showcases ML parameterization's potential for operational-level climate simulations., Comment: 31 pages, 7 figures in the main text, 4 figures in appendix. This version is a minor editorial update from the previous version 2
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- 2024
41. Revealing Vision-Language Integration in the Brain with Multimodal Networks
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Subramaniam, Vighnesh, Conwell, Colin, Wang, Christopher, Kreiman, Gabriel, Katz, Boris, Cases, Ignacio, and Barbu, Andrei
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Computer Science - Machine Learning ,Computer Science - Artificial Intelligence ,Computer Science - Neural and Evolutionary Computing ,Quantitative Biology - Neurons and Cognition - Abstract
We use (multi)modal deep neural networks (DNNs) to probe for sites of multimodal integration in the human brain by predicting stereoencephalography (SEEG) recordings taken while human subjects watched movies. We operationalize sites of multimodal integration as regions where a multimodal vision-language model predicts recordings better than unimodal language, unimodal vision, or linearly-integrated language-vision models. Our target DNN models span different architectures (e.g., convolutional networks and transformers) and multimodal training techniques (e.g., cross-attention and contrastive learning). As a key enabling step, we first demonstrate that trained vision and language models systematically outperform their randomly initialized counterparts in their ability to predict SEEG signals. We then compare unimodal and multimodal models against one another. Because our target DNN models often have different architectures, number of parameters, and training sets (possibly obscuring those differences attributable to integration), we carry out a controlled comparison of two models (SLIP and SimCLR), which keep all of these attributes the same aside from input modality. Using this approach, we identify a sizable number of neural sites (on average 141 out of 1090 total sites or 12.94%) and brain regions where multimodal integration seems to occur. Additionally, we find that among the variants of multimodal training techniques we assess, CLIP-style training is the best suited for downstream prediction of the neural activity in these sites., Comment: ICML 2024; 23 pages, 11 figures
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- 2024
42. UVIT Study of the MAgellanic Clouds (U-SMAC) I. Recent star formation history and kinematics of the Shell region in the North-Eastern Small Magellanic Cloud
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Hota, Sipra, Subramaniam, Annapurni, Dhanush, S. R., Cioni, Maria-Rosa L., and Subramanian, Smitha
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Astrophysics - Astrophysics of Galaxies - Abstract
The interactions between the Magellanic Clouds significantly affect the shape and distribution of the young stellar population, particularly in the periphery of the Small Magellanic Cloud (SMC). We present the first far-UV (FUV) map of the north-east SMC-Shell region using the Ultra Violet Imaging Telescope (UVIT) onboard AstroSat. The detected FUV stars are combined with Gaia Early Data Release 3 data to create a FUV-optical catalog of ~ 14,400 stars. FUV-optical colour-magnitude diagrams are used along with isochrones to estimate the stellar ages. The detected stars are formed in multiple episodes. We identified two episodes of star formation (~ 60 and ~ 260 Myr ago) where the episode at ~ 260 Myr is linked to the recent interaction with the Large Magellanic Cloud (LMC) and the episode at ~ 60 Myr is linked to the pericentric passage of the SMC around our Galaxy. The median proper motion (PM) and velocity dispersion are found to be similar to the SMC main body, indicating that this region has not experienced significant tidal effects. The FUV stellar surface density and the dispersion in PM suggest an extent of the inner SMC in the north-east direction to be around 2.2 deg. We detect arm-like and arc-like structures in the FUV stellar density map, and their kinematics appear to be similar to the SMC main body. These extended outer features are the spatial stellar overdensities formed over multiple episodes of star formation, but without apparent kinematic distinction., Comment: 14 pages, 11 figures, 1 appendix figure, 3 tables, Accepted for publication in Monthly Notices of the Royal Astronomical Society (MNRAS)
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- 2024
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43. UOCS. XIV. Uncovering extremely low mass white dwarfs and blue lurkers in NGC 752
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Jadhav, Vikrant V., Subramaniam, Annapurni, and Sagar, Ram
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Astrophysics - Solar and Stellar Astrophysics ,Astrophysics - Astrophysics of Galaxies - Abstract
Evolutionary pathways of binary systems are vastly different from single stellar evolution, and thus, there is a need to quantify their frequency and diversity. Open clusters are the best test-bed to unveil the secrets of binary populations due to their coeval nature. And the availability of multi-wavelength data in recent years has been critical in characterising the binary population. NGC 752 is a solar metallicity, intermediate-age open cluster located at 460 pc. In this work, we aim to identify the optically subluminous white dwarfs in NGC 752 and identify the illusive blue lurkers by association. We used multiwavelength photometry from Astrosat/UVIT, swift/UVOT, Gaia DR3 and other archival surveys to analyse the colour-magnitude diagrams and spectral energy distributions of 37 cluster members. We detected eight white dwarfs as companions to cluster members. Four of the systems are main sequence stars with extremely low mass white dwarfs as their companions. Two are these main sequence stars are also fast rotators. The presence of low mass white dwarfs and high rotation signals a past mass transfer, and we classified the four main sequence stars as blue lurkers. The binary fraction in NGC 752 was estimated to be 50--70%, and it shows that the contribution of optically undetected stars is crucial in quantifying the present-day binary fraction., Comment: 7 pages, 3 figures, accepted in Astronomy & Astrophysics
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- 2024
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44. Population Transformer: Learning Population-level Representations of Neural Activity
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Chau, Geeling, Wang, Christopher, Talukder, Sabera, Subramaniam, Vighnesh, Soedarmadji, Saraswati, Yue, Yisong, Katz, Boris, and Barbu, Andrei
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Computer Science - Machine Learning ,Quantitative Biology - Neurons and Cognition - Abstract
We present a self-supervised framework that learns population-level codes for arbitrary ensembles of neural recordings at scale. We address two key challenges in scaling models with neural time-series data: sparse and variable electrode distribution across subjects and datasets. The Population Transformer (PopT) stacks on top of pretrained representations and enhances downstream decoding by enabling learned aggregation of multiple spatially-sparse data channels. The pretrained PopT lowers the amount of data required for downstream decoding experiments, while increasing accuracy, even on held-out subjects and tasks. Compared to end-to-end methods, this approach is computationally lightweight and more interpretable, while still retaining competitive performance. We further show how our framework is generalizable to multiple time-series embeddings and neural data modalities. Beyond decoding, we interpret the pretrained PopT and fine-tuned models to show how they can be used to extract neuroscience insights from massive amounts of data. We release our code as well as a pretrained PopT to enable off-the-shelf improvements in multi-channel intracranial data decoding and interpretability., Comment: 19 pages, 11 figures, submitted to ICLR 2025
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- 2024
45. Randomized Geometric Algebra Methods for Convex Neural Networks
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Wang, Yifei, Kim, Sungyoon, Chu, Paul, Subramaniam, Indu, and Pilanci, Mert
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Computer Science - Machine Learning ,Mathematics - Optimization and Control ,Statistics - Machine Learning - Abstract
We introduce randomized algorithms to Clifford's Geometric Algebra, generalizing randomized linear algebra to hypercomplex vector spaces. This novel approach has many implications in machine learning, including training neural networks to global optimality via convex optimization. Additionally, we consider fine-tuning large language model (LLM) embeddings as a key application area, exploring the intersection of geometric algebra and modern AI techniques. In particular, we conduct a comparative analysis of the robustness of transfer learning via embeddings, such as OpenAI GPT models and BERT, using traditional methods versus our novel approach based on convex optimization. We test our convex optimization transfer learning method across a variety of case studies, employing different embeddings (GPT-4 and BERT embeddings) and different text classification datasets (IMDb, Amazon Polarity Dataset, and GLUE) with a range of hyperparameter settings. Our results demonstrate that convex optimization and geometric algebra not only enhances the performance of LLMs but also offers a more stable and reliable method of transfer learning via embeddings.
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- 2024
46. Outcomes following laparoscopic adrenalectomy: Experience of more than two decades at a tertiary care centre
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Bansal, Virinder Kumar, Asuri, Krishna, Singh, Deepti, Agarwal, Keshav, Dixit, Raghunandan, Prakash, Om, Kumar, Subodh, Subramaniam, Rajeshwari, Ramachandran, Rashmi, Tandon, Nikhil, and Misra, M. C.
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Health aspects ,Laparoscopy -- Health aspects ,Laparoscopic surgery -- Health aspects - Abstract
Author(s): Virinder Kumar Bansal (corresponding author) [1]; Krishna Asuri [1]; Deepti Singh [1]; Keshav Agarwal [2]; Raghunandan Dixit [1]; Om Prakash [1]; Subodh Kumar [1]; Rajeshwari Subramaniam [3]; Rashmi Ramachandran [...], Introduction: Laparoscopic transperitoneal adrenalectomy was first described by Gagner M et al. Here, we present our experience of more than two decades of laparoscopic adrenalectomy performed in a single surgical unit at a tertiary care centre. Patients and Methods: A prospectively collected database of patients undergoing laparoscopic adrenalectomy from December 1994 to May 2020 was analysed retrospectively. The demographic profile, details of clinical workup and laboratory parameters were recorded in a pre-structured pro forma. Functional workup and anatomical imaging were performed for all the patients. Patients were taken up for surgery after adequate pre-operative optimisation using a multidisciplinary approach. All the patients were operated by a single surgical team of experienced laparoscopic surgeons. Results: A total of 158 patients underwent laparoscopic transperitoneal adrenalectomy. The majority patients were females (64.5). The median tumour size was 5 cm (range, 1-18 cm). The diagnosis in the majority of the patients was pheochromocytoma (56.3). The mean operative time was 80 min (range: 45-210 min). The most common complication was bleeding in 6 (3.7) patients, which required laparotomy. The median duration of post-operative hospital stay was 3 days (range: 1-13). There was no 30-day mortality. The mean follow-up period was 15 months (range: 6-72 months), during which two patients developed local recurrence. Conclusion: The advantages of laparoscopic surgery are well established and have been extensively explored for the management of adrenal lesions. A multidisciplinary approach to management, consisting of endocrinologists, surgeons and anaesthesiologists is preferred. Pre-operative evaluation, optimisation and accurate selection of patients are crucial for successful laparoscopic adrenalectomy. Keywords: Adrenalectomy, laparoscopic, pheochromocytoma
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- 2025
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47. Device Engineering of a Novel Lead-Free Solar Cell Architecture Utilizing Inorganic CsSnCl3 and CsSnI3 Perovskite-Based Dual Absorbers for Sustainable Powering of Wireless Networks: Device Engineering of a Novel Lead-Free Solar Cell Architecture Utilizing Inorganic CsSnCl3…
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Borah, Janmoni, Baruah, Smriti, and Rajasekaran, Subramaniam
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- 2025
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48. Crop rotation increases Tibetan barley yield and soil quality on the Tibetan Plateau
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Wu, Hui, Liu, Enke, Jin, Tao, Liu, Buchun, Gopalakrishnan, Subramaniam, Zhou, Jie, Shao, Guodong, Mei, Xurong, Delaplace, Pierre, and De Clerck, Caroline
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- 2025
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49. Study on the Influence of Nanofiller Additives in Enhancing Electrical Insulation Performance and Thermal Properties of Biodegradable Oils for Electrical Insulation Applications
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Siddharthan, Sangamithirai and Subramaniam, Chandrasekar
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- 2025
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50. Electrospun Nanofibers of Purple Rice Bran-Derived Soluble Dietary Fiber and Polyethylene Oxide for Enhanced Alpha-Tocopherol Encapsulation and Controlled Release
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Li, Juan, Chotiko, Arranee, Chouljenko, Alexander, Durage, Tharindu Trishan Dapana, and Sathivel, Subramaniam
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- 2025
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