Miracle-dz/UniFAR-FTUs huggingface dataset:
Target-based coverage extension of 802.11 MANETs via constrained UAV mobility

approved: Ben Lee MANETs are known to be useful in situations where mobile nodes need to communicate and coordinate in dynamic environments with no access to fixed network infrastructure. However, connectivity problems can occur when sub-groups within a MANET move out of communication range from one another. The increasingly prolific use of UAVs in military and civilian contexts suggests that UAVs may be very useful for facilitating connectivity between otherwise disconnected mobile nodes. Network Centric Warfare (NCW) theory makes heavy use of MANETs, and UAVs also fit well into the NCW theory; this paper describes the work involved in integrating network enabled UAVs into a previouslydeveloped simulation of ground troop mobility called UMOMM. Specifically, we created a simple decision model for constrained, constant-radius UAV movements, and developed a target-based method by which UAVs can distribute themselves in order to improve the connectivity of the ground members of the MANET. c ©Copyright by Taylor N. Johnson June 11, 2012 All Rights Reserved Target-Based Coverage Extension of 802.11 MANETs Via Constrained UAV Mobility
Nanoparticles in Medicine: Current Status in Cancer Treatment

Cancer is still a leading cause of deaths worldwide, especially due to those cases diagnosed at late stages with metastases that are still considered untreatable and are managed in such a way that a lengthy chronic state is achieved. Nanotechnology has been acknowledged as one possible solution to improve existing cancer treatments, but also as an innovative approach to developing new therapeutic solutions that will lower systemic toxicity and increase targeted action on tumors and metastatic tumor cells. In particular, the nanoparticles studied in the context of cancer treatment include organic and inorganic particles whose role may often be expanded into diagnostic applications. Some of the best studied nanoparticles include metallic gold and silver nanoparticles, quantum dots, polymeric nanoparticles, carbon nanotubes and graphene, with diverse mechanisms of action such as, for example, the increased induction of reactive oxygen species, increased cellular uptake and functionalization properties for improved targeted delivery. Recently, novel nanoparticles for improved cancer cell targeting also include nanobubbles, which have already demonstrated increased localization of anticancer molecules in tumor tissues. In this review, we will accordingly present and discuss state-of-the-art nanoparticles and nano-formulations for cancer treatment and limitations for their application in a clinical setting.
Growth factor-induced desialylation for the fast control of endocytosis

It is commonly assumed that the glycan makeup of glycoproteins that reach the cell surface is final and static. Here, we challenge this notion by the discovery of a molecular switch that induces acute and reversible changes of glycans on the plasma membrane. We demonstrate that within minutes, the epidermal growth factor triggers the galectin-driven endocytosis of cell surface glycoproteins, such as integrins, that are key regulators of cell adhesion and migration. The onset of this process, mediated by the Na+/H+ antiporter NHE-1 and the neuraminidases Neu1/3, requires the pH-triggered enzymatic removal of sialic acids whose presence otherwise prevents galectin binding. Desialylated glycoproteins are then retrogradely transported to the Golgi apparatus where their glycan makeup is reset, and their function is repurposed to regulate EGF-dependent invasive cell migration. Glycosylation at the cell surface thereby emerges as a dynamic and reversible regulatory post-translational modification that controls a highly adaptable trafficking pathway.
Dynamic Inference by Model Reduction

How do we infer which one of several targets another agent is following? And how are we capable of grasping an object on the fly? Reducing a model as complex as the surrounding dynamic environment into a small set of simpler hypotheses is a reasonable cognitive solution, but how can the brain compare and choose among dynamic hypotheses? Recent advances in Bayesian Model Reduction have led to innovative solutions to actively infer the state of affairs of the world and perform discrete planning with continuous signals, but dealing with highly dynamic contexts is a difficult matter. We propose that choosing among flexible hypotheses is possible by using reduced priors sampled from the dynamics of a generative model. Each reduced prior corresponds to an alternative future world constantly generated from the current observations, which the agent can use to accumulate evidence for a discrete hypothesis. We tested the approach on two everyday tasks: inferring a dynamic trajectory and grasping a moving object, which the model solved with high accuracy. Our study may thus shed light on how agents can smoothly generate and infer static intentions that result in dynamic behaviors, and on the specific role of intention precisions in motor learning.
Cross-species conservation in the regulation of parvalbumin by perineuronal nets

Parvalbumin (PV) neurons play an integral role in regulating neural dynamics and plasticity. Therefore, understanding the factors that regulate PV expression is important for revealing modulators of brain function. While the contribution of PV neurons to neural processes has been studied in mammals, relatively little is known about PV function in non-mammalian species, and discerning similarities in the regulation of PV across species can provide insight into evolutionary conservation in the role of PV neurons. Here we investigated factors that affect the abundance of PV in PV neurons in sensory and motor circuits of songbirds and rodents. In particular, we examined the degree to which perineuronal nets (PNNs), extracellular matrices that preferentially surround PV neurons, modulate PV abundance as well as how the relationship between PV and PNN expression differs across brain areas and species and changes over development. We generally found that cortical PV neurons that are surrounded by PNNs (PV+PNN neurons) are more enriched with PV than PV neurons without PNNs (PV-PNN neurons) across both rodents and songbirds. Interestingly, the relationship between PV and PNN expression in the vocal portion of the basal ganglia of songbirds (Area X) differed from that in other areas, with PV+PNN neurons having lower PV expression compared to PV-PNN neurons. These relationships remained consistent across development in vocal motor circuits of the songbird brain. Finally, we discovered a causal contribution of PNNs to PV expression in songbirds because degradation of PNNs led to a diminution of PV expression in PV neurons. These findings in reveal a conserved relationship between PV and PNN expression in sensory and motor cortices and across songbirds and rodents and suggest that PV neurons could modulate plasticity and neural dynamics in similar ways across songbirds and rodents.
Etude de l'atténuation des ondes ultrasonores

La simulation de la propagation ultrasonore est un enjeu important du controle non destructif des soudures multipasses en acier inoxydable austenitique, specifiques des tuyauteries de centrale nucleaire. Ces soudures anisotropes heterogenes causent une diffusion des ultrasons aux joints de grains entrainant une forte attenuation, fonction de l’orientation des grains. La mesure de cette attenuation est complexe. La methode mise en œuvre permet de prendre en compte la realite physique des faisceaux et l’anisotropie du materiau. La propagation ultrasonore a travers les echantillons est modelisee a l’aide des coefficients de transmission calcules en incidence quelconque sur un materiau triclinique. Cette methode permet d’aboutir a une attenuation croissante en fonction de l’orientation des grains. Pour la premiere fois, les coefficients d’attenuation mesures ont ete integres a un code de simulation qui a permis leur validation par la comparaison avec l’experience.
Ancient origin of the rod bipolar cell pathway in the vertebrate retina

Vertebrates rely on rod photoreceptors for vision in low-light conditions1. Mammals have a specialized downstream circuit for rod signaling called the primary rod pathway, which comprises specific cell types and wiring patterns that are thought to be unique to this lineage2–6. Thus, it has been long assumed that the primary rod pathway evolved in mammals3, 5–7. Here, we challenge this view by demonstrating that the mammalian primary rod pathway is conserved in zebrafish, which diverged from extant mammals ∼400 million years ago. Using single-cell RNA-sequencing, we identified two bipolar cell (BC) types in zebrafish that are related to mammalian rod BCs (RBCs) of the primary rod pathway. By combining electrophysiology, histology, and ultrastructural reconstruction of the zebrafish RBCs, we found that, like mammalian RBCs8, both zebrafish RBC types connect with all rods and red-cones in their dendritic territory, and provide output largely onto amacrine cells. The wiring pattern of the amacrine cells post-synaptic to one RBC type is strikingly similar to that of mammalian RBCs. This suggests that the cell types and circuit design of the primary rod pathway may have emerged before the divergence of teleost fish and amniotes (mammals, bird, reptiles). The second RBC type in zebrafish, which forms separate pathways from the first RBC type, is either lost in mammals or emerged in fish to serve yet unknown roles. Highlights - Zebrafish have two rod bipolar cell types (RBC1/2). - Synaptic connectivity of RBC1 resembles that of the mammalian RBCs. - The primary rod pathway therefore probably evolved more than 400 million years ago. - The second zebrafish RBC type, RBC2, forms a separate pathway from RBC1.
A Clinical Comparison of Variable-Damping and Mechanically Passive Prosthetic Knee Devices

Johansson JL, Sherrill DM, Riley PO, Bonato P, Herr H: A clinical comparison of variabledamping and mechanically passive prosthetic knee devices. Am J Phys Med Rehabil 2005; 84:000–000. Objective: Although variable-damping knee prostheses offer some improvements over mechanically passive prostheses to transfemoral amputees, there is insufficient evidence that such prostheses provide advantages at self-selected walking speeds. In this investigation, we address this question by comparing two variable-damping knees, the hydraulic-based Otto Bock C-leg and the magnetorheological-based Össur Rheo, with the mechanically passive, hydraulic-based Mauch SNS. Design: For each prosthesis, metabolic data were collected on eight unilateral amputees walking at self-selected speeds across an indoor track. Furthermore, kinetic, kinematic, and electromyographic data were collected while walking at self-selected speeds across a 10-m walkway in
Occurrence of Lymphangiogenesis in Peripheral Nerve Autografts Contrasts Schwann Cell-Induced Apoptosis of Lymphatic Endothelial Cells In Vitro

Peripheral nerve injuries pose a major clinical concern world-wide, and functional recovery after segmental peripheral nerve injury is often unsatisfactory, even in cases of autografting. Although it is well established that angiogenesis plays a pivotal role during nerve regeneration, the influence of lymphangiogenesis is strongly under-investigated. In this study, we analyzed the presence of lymphatic vasculature in healthy and regenerated murine peripheral nerves, revealing that nerve autografts contained increased numbers of lymphatic vessels after segmental damage. This led us to elucidate the interaction between lymphatic endothelial cells (LECs) and Schwann cells (SCs) in vitro. We show that SC and LEC secretomes did not influence the respective other cell types’ migration and proliferation in 2D scratch assay experiments. Furthermore, we successfully created lymphatic microvascular structures in SC-embedded 3D fibrin hydrogels, in the presence of supporting cells; whereas SCs seemed to exert anti-lymphangiogenic effects when cultured with LECs alone. Here, we describe, for the first time, increased lymphangiogenesis after peripheral nerve injury and repair. Furthermore, our findings indicate a potential lymph-repellent property of SCs, thereby providing a possible explanation for the lack of lymphatic vessels in the healthy endoneurium. Our results highlight the importance of elucidating the molecular mechanisms of SC–LEC interaction.
Expandable N-Legged Converter to Drive Closely Spaced Multitransmitter Wireless Power Transfer Systems for Dynamic Charging

Expandable and flexible wireless power transfer (WPT) systems have been in demand in numerous industry applications, especially for dynamic chargers in electric vehicles. Those systems, however, bring about certain technical issues such as modulation technique and topology of the transmitter side, and transferred power profile of the transmitters. In this article, a new converter topology to drive closely spaced segmented dynamic wireless power transfer (DWPT) systems is proposed. The proposed converter can be expanded to cater for different number of transmitters, and it can provide a uniform transferred power profile throughout the path of transmitter coils, known as track. Furthermore, this article focuses on analyzing the operation of the converter and the effect of closely spaced transmitters over its operation. To show the effectiveness of the proposed topology and its modulation technique, the converter is simulated and experimentally tested using a laboratory prototype. The results are compared and analyzed, and their close agreement shows the validity of the proposed technique.
On the Rotational Structure in Neural Data

Spatiotemporal properties of the activity of neuronal populations in cortical motor areas have been the subject of many experimental and theoretical investigations, which generated numerous inter-pretations regarding the mechanisms of preparing and executing limb movements. Two competing models, namely representational and dynamical models, strive to explain the temporal course of neuronal activity and its relationship to different parameters of movements. One proposed dynamical model employs the jPCA method, a dimensionality reduction technique, to holistically characterize oscillatory activity in a population of neurons by maximizing rotational dynamics that are present in the data. Different interpretations have been proposed for the rotational dynamics revealed with jPCA approach in various brain areas. Yet, the nature of such dynamics remains poorly understood. Here we conducted a comprehensive analysis of several neuronal-population datasets. We found that rotational dynamics were consistently accounted for by a travelling wave pattern. To quantify the rotation strength, we developed a complex-valued measure termed the gyration number. Additionally, we identified the parameters influencing the extent of rotation in the data. Overall, our findings suggest that rotational dynamics and travelling waves are the same phenomena, which requires reevaluation of the previous interpretations where they were considered as separate entities.
Identification of a human hematopoietic stem cell subset that retains memory of inflammatory stress

Inflammation activates many blood cell types, driving aging and malignancy. Yet, hematopoietic stem cells (HSCs) survive a lifetime of infection to sustain life-long blood production. To understand HSC adaptation to inflammation, we developed xenograft inflammation-recovery models and performed single cell multiomics on isolated human HSC. Two transcriptionally and epigenetically distinct HSC subsets expressing canonical HSC programs were identified. Only one showed sustained transcriptional and epigenetic changes after recovery from inflammatory treatments. This HSC inflammatory memory (HSC-iM) program is enriched in memory T cells and HSCs from recovered COVID-19 patients. Importantly, HSC-iM accumulates with age and with clonal hematopoiesis. Overall, heritable molecular alterations in a subset of human HSCs, an adaptation to long-term inflammatory stress, may predispose to heightened age-related risk of blood cancer and infection. One-Sentence Summary Inflammation across a lifetime rewires human HSCs to produce a distinct HSC subset with both beneficial and deleterious fitness consequences.
Probing learning through the lens of changes in circuit dynamics

Despite the success of dynamical systems as accounts of circuit computation and observed behavior, our understanding of how dynamical systems evolve over learning is very limited. Here we develop a computational framework for extracting core dynamical systems features of recurrent circuits across learning and analyze the properties of these meta-dynamics in model analogues of several brain-relevant tasks. Across learning algorithms and tasks we find a stereotyped path to task mastery, which involves the creation of dynamical systems features and their refinement to a stable solution. This learning universality reveals common principles in the organization of recurrent neural networks in service to function and highlights some of the challenges in reverse engineering learning principles from chronic population recordings of neural activity.
Early-Stage Neural Processing Reveals Distinctive Responses to Saliency-Differentiated Colors in Various Types of Color Vision

People with protan or deutan color vision are expected to have reduced chromatic sensitivity on the red-green color axis due to altered cone sensitivities; however, complemented sensitivities have been reported in some studies. The mechanism involved in the enhanced sensitivity is considered to encompass a broad spectrum of psychophysiological processes. Nonetheless, the specific details remain unknown. This study investigated the differences in attention-related neural activities between common trichromats and deuteranomalous trichromats during the observation of chromatically identical colors that differ in saliency. Global field power and event-related potentials were analyzed to elucidate how higher cognitive process, particularly attention, manifests in the temporal domain of neural processes in response to stimuli saliency, across color vision types. The finding revealed increased neural activity toward less salient color stimuli in both color vision groups, reflecting a heightened attentional level. Notably, distinct activity patterns were observed at different time frames: common trichromats exhibited at later positive component (P3), and deuteranomalous trichromats exhibited at earlier positive component (P2). Surprisingly, despite their diminished chromatic sensitivity, deuteranomalous trichromats responded quicker to the saliency differences. The result suggests that temporal characteristics play a crucial role in complementary mechanisms in chromatic sensitivities in individuals with diverse color vision.
Cell4D: a general purpose spatial stochastic simulator for cellular pathways

Background With the generation of vast compendia of biological datasets, the challenge is how best to interpret ‘omics data alongside biochemical and other small-scale experiments to gain meaningful biological insights. Key to this challenge are computational methods that enable domain-users to generate novel hypotheses that can be used to guide future experiments. Of particular interest are flexible modeling platforms, capable of simulating a diverse range of biological systems with low barriers of adoption to those with limited computational expertise. Results We introduce Cell4D, a spatial-temporal modeling platform combining a robust simulation engine with integrated graphics visualization, a model design editor, and an underlying XML data model capable of capturing a variety of cellular functions. Cell4D provides an interactive visualization mode, allowing intuitive feedback on model behavior and exploration of novel hypotheses, together with a non-graphics mode, compatible with high performance cloud compute solutions, to facilitate generation of statistical data. To demonstrate the flexibility and effectiveness of Cell4D, we investigate the dynamics of CEACAM1 localization in T-cell activation. We confirm the importance of Ca^2+ microdomains in activating calmodulin and highlight a key role of activated calmodulin on the surface expression of CEACAM1. We further show how lymphocyte-specific protein tyrosine kinase can help regulate this cell surface expression and exploit spatial modeling features of Cell4D to test the hypothesis that lipid rafts regulate clustering of CEACAM1 to promote trans-binding to neighbouring cells. Conclusions Through demonstrating its ability to test and generate hypotheses, Cell4D represents an effective tool to help integrate knowledge across diverse, large and small-scale datasets.
Improving antibody affinity using laboratory data with language model guided design

Protein design involves navigating vast sequence spaces to discover sequences with desired traits. Language models (LMs) pretrained on universal protein datasets have shown potential to make this search space tractable. However, LMs trained solely on natural sequences have limitations in creating proteins with novel functions. In this work, we used a combination of methods to finetune pretrained LMs on laboratory data collected in an anti-CD40L single domain antibody library campaign to develop an ensemble scoring function to model the fitness landscape and guide the design of new antibodies. Laboratory experiments confirmed improved CD40L affinity in the designed antibodies. Notably, the designs improved the affinities of four antibodies, originally ranging from 1 nanomolar to 100 picomolar, all to below 25 picomolar, approaching the limit of detection. This work is a promising step towards realizing the potential of LMs to leverage laboratory data to develop improved treatments for diseases.