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259 results for “Systemic Levels”
Deer grazing drove an assemblage-level evolution of plant dwarfism in an insular system
<p>Plant dwarfism, a syndrome characterised by a significant reduction in plant height and organ size, is a widely observed pattern of stress-tolerant life-form evolution that results from local adaptation to harsh environmental conditions. The drivers of assemblage-level dwarfism have primarily been attributed to abiotic factors, such as low temperature, aridity, poor soil fertility, or frequent fires. While biotic factors such as grazing pressure from herbivores can contribute to the establishment of plant dwarfism, these factors have rarely been tested at assemblage levels. Focusing on a dwarf plant assemblage comprising over 80 taxa on a small continental island in Japan with a high deer density, we hypothesised that historical deer grazing could also be a factor contributing to the large-scale convergent evolution of dwarfism. To test this hypothesis, we measured the size of 1,908 individual plants of 40 taxa-pairs, comprising both palatable and unpalatable pairs from the island and their counterpart taxa from neighbouring regions, and sought to assess which factors (i.e. low solar radiation, estimated divergence time, low nutrient conditions, and grazing pressure from deer) may have contributed to the formation of the dwarf plant assemblage on the island. We also performed genetic analysis to infer the timeframes for the establishment of dwarf taxa. Statistical analyses revealed that plant size was significantly reduced mainly among the palatable taxa growing on the island, with preferential grazing by deer being identified as the most significant factor influencing plant size. Furthermore, genetic analyses revealed that dwarf ecotypes may have evolved over tens of thousands of years.</p> <p><strong>Synthesis:</strong> To the best of our knowledge, this study is the first to demonstrate that interactions with herbivores can shape the assemblage-level convergence of plant dwarfism. These findings enhance our current understanding of the formation of plant functional diversity.</p>
Mean sea-level pressure and related indices from control and tropical relaxation winter seasonal hindcasts using the Met Office GloSea5 system.
<p>© Crown Copyright, Met Office</p> <p>The accompanying data is made available under the terms of the Non-Commercial Government Licence (http://www.nationalarchives.gov.uk/doc/non-commercial-government-licence/version/2/).</p> <p>These data are the results of ensemble modelling simulations using the Met Office GloSea5 numerical seasonal prediction system. Files in (zipped) netcdf format contain winter seasonal-mean mean sea-level pressure (MSLP) fields for each member of specified ensemble and hindcast winter (December-February from 1993-94 to 2015-16). The files are named according to the specification of relaxation towards observational reanalysis in each. HCAST has no relaxation, ALL has tropical (approximately 22.5S to 22.5N) relaxation at all atmospheric heights, TROP is similar to ALL but with relaxation limited to below 18km and STRAT is similar to ALL but with relaxation limited to above 18km. The relaxation is designed to constrain the atmospheric state to be close to that which was observed within the domain over which it is applied. Details of the technique can be found in Maidens et al., 2021* and references therein.</p> <p>An additional text file is provided to give summary statistics of key MSLP-based winter indices.</p> <p> </p> <p>* Maidens, A., Knight, J. R., & Scaife, A. A. (2021). Tropical and stratospheric influences on winter atmospheric circulation patterns in the North Atlantic sector. Environmental Research Letters, 16, 024035. https://doi.org/10.1088/1748-9326/abd8aa</p> <p> </p>
Companion data of Exploiting system level heterogeneity to improve the performance of a GeoStatistics multi-phase task-based application
<p>This is the companion data repository for the paper entitled <strong>Exploiting system level heterogeneity to improve the performance of a GeoStatistics multi-phase task-based application</strong> by Lucas Leandro Nesi, Lucas Mello Schnorr, and Arnaud Legrand. The manuscript has been accepted for publication in the <a href="https://oaciss.uoregon.edu/icpp21/">ICPP 2021</a>.</p>
Dataset of "System-level Impacts of 24/7 Carbon-free Electricity Procurement"
<p>This dataset includes three zip files and several other files to replicate the runs. It also includes the load time-series of commercial and industrial electricity usage of each zone of the manuscript. It also includes the full 8760hour time-series of the gross load.</p> <p>1. The file "2030.zip" includes the inputs and outputs from each case run by GenX.</p> <p>2. The file "CompiledResult_upload.zip" includes the compiled results of all cases; in the unzipped folder, there are nine (9) ".csv" files. There are four common columns in these nine files:</p> <ul> <li>case: this is the long case name, can be represented by Scenario, and TechSensitivity</li> <li>year: this is 2030 because of the target year is 2030</li> <li>Scenario: this is the name of each scenario modeled in the study. There are nine scenarios. <ul> <li>10% CI Part, Curt. Tech. = 10% C&I Participation Rate, Current Technology Scenario</li> <li>10% CI Part, Curt. Tech., No Ex. Limit = 10% C&I Participation Rate, Current Technology Scenario, No Excess Limit</li> <li>25% CI Part, Curt. Tech. = 25% C&I Participation Rate, Current Technology Scenario</li> <li>10% CI Part, Adv. Tech. no Comb. = 10% C&I Participation Rate, Advanced Technology no Combustion Scenario</li> <li>10% CI Part, Adv. Tech. no Comb., no Ex. Limit = 10% C&I Participation Rate, Advanced Technology no Combustion Scenario, No Excess Limit</li> <li>25% CI Part, Adv. Tech. no Comb. = 25% C&I Participation Rate, Advanced Technology no Combustion Scenario</li> <li>10% CI Part, Adv. Tech. Full = 10% C&I Participation Rate, Advanced Technology, Full Portfolio</li> <li>10% CI Part, Adv. Tech. Full, no Ex. Limit = 10% C&I Participation Rate, Advanced Technology, Full Portfolio, No Excess Limit</li> <li>25% CI Part, Adv. Tech. Full = 25% C&I Participation Rate, Advanced Technology, Full Portfolio</li> </ul> </li> <li>TechSensitivity: There are eleven cases <ul> <li>Hourly 80%-100%, these are the 24/7 CFE procurement cases with different CFE Score Target</li> <li>Annual 100%: this is the 100% annual matching case</li> <li>No 24x7 Purchase: this is the reference case</li> </ul> </li> </ul> <p>For the rest of the files, see description below</p> <ul> <li>Gen_Output_California.csv: this file includes the annual generation output of California generators. The unit is "MWh"</li> <li>NetImport_California.csv: this file include the annual net imports of California (negative number stands for net exports. The unit is "MWh"</li> <li>tfs_cfe_table.csv: this file includes a table with the following columns: <ul> <li>Policy: this column is all 1 because there is only one 24/7 CFE buyers</li> <li>Shortfall: this column includes the annual grid supply that is not clean. Unit is MWh</li> <li>Excess: this column includes the annual excess. Unit is MWh</li> <li>Shortfall price: this column includes the shadow prices of the CFE target constraint. Unit is $/MWh</li> <li>Excess Price: this column includes the shadow prices of the CFE excess limit constraint. Unit is $/MWh</li> <li>Load: this column includes the annual load of 24/7 participants. Unit is MWh.</li> <li>Storage loss: this column includes the annual storage loss of the 24/7 participating storage. Unit is MWh.</li> <li>Post-Grid CFE Score Local_n_Import: this column includes the final CFE score of the model. Unitless</li> </ul> </li> <li>tfs_gen_capacity_California.csv: this documents the capacity procured by the 24/7 or 100% annual matching participants. Unit is MW</li> <li>tfs_gen_output_California.csv: this documents the energy procured by the 24/7 or 100% annual matching participants. Unit is MWh</li> <li>tfs_gents_table.csv: this documents the time-series of the 24/7 CFE procurement. Unit is MW.</li> <li>tfs_lse_cost.csv: this documents the cost of 24/7 CFE participants in each case. Unit is 2020USD</li> <li>tfs_modified_load.csv: this documents the modified load time-series of the 24/7 CFE participants. Unit is MW</li> <li>tfs_system_emissions.csv: this documents the carbon footprint of the 24/7 CFE participants and the rest of the California load. <ul> <li>participating_load_emission: this is the carbon footprint of the 24/7 CFE participants. Unit is metric tons</li> <li>emission_rest_of_local_w_import: this is the carbon footprint of the rest of the California load. Unit is metric tons</li> <li>emission_local_n_import: this is the carbon footprint of the California load, i.e., the sum of the "participating_load_emission" and "emission_rest_of_local_w_import". Unit is metric tons</li> </ul> </li> </ul> <p>3. GenX_upload.zip: this includes a workable version of GenX that, if installed correctly, can be run with provided inputs to replicate the runs. Please check GenX's github website https://github.com/GenXProject/GenX for the installation guide. However, because GenX (the uploaded one) has been updated since the results were generated, there are a few changes to be made so that GenX can run those slightly outdated files. Use Run_247.jl (uploaded) to run the cases; this 'jl' file will also calculate several other files that are needed for 24/7 analysis; furthermore, this jl file includes the iteration algorithm used for finding grid supply clean share. </p> <p> The necessary changes to the case files include</p> <ul> <li>in Generators_data.csv, add a column of "CapRes_duration_requirement" with entries being 1 for all generators; further, change the Min_Duration and Max_Duration of pumped hydro generators to 1 and 20;</li> <li>Add Capacity_reserve_margin_slack.csv (provided in this zenodo repo) to the case to be run.</li> <li>Add RPSH_MER (uploaded) to the case to be run</li> <li>in RPSH.csv, add three columns <ul> <li>MWhExtraBudget = 0</li> <li>Carbon_Offset_Target = 0</li> <li>Carbon_Offset_Penalty = 0</li> </ul> </li> <li>Add Energy_share_requirement_slack.csv to the cases to be run; if this case is an annual matching case, i.e., the name ends with "cipannual100", copy and paste Energy_share_requirement_slack_annualmatching.csv but rename it to Energy_share_requirement_slack.csv before running.</li> <li>Add a new column in any Maximum_capacity_limit.csv called "PriceCap" with all entries being 1000000 (1 million).</li> <li>in Settings/genx_settings.yml; add three rows <ul> <li> <p>CO2Capture: 1</p> </li> <li> <p>ref_case_id: if a case name begins with p[x]_, put <em>p[x]_ncp</em> in this row; for example, if a case name begins with p1, then put p1_ncp.</p> </li> <li> <p>ref_case_name:</p> <ul> <li> <p>if a case name begins with p2, use <em>currentpolicy_10ci_nocip</em></p> </li> <li> <p>if a case name begins with p3, use currentpolicy_25ci_nocip</p> </li> <li> <p>if a case name begins with p7, use currentpolicy_10ci_adv_nocip</p> </li> <li> <p>if a case name begins with p8, use currentpolicy_25ci_adv_nocip</p> </li> <li> <p>if a case name begins with p12, use currentpolicy_10ci_adv_nocip_noccszcf</p> </li> <li> <p>if a case name begins with p13, use currentpolicy_25ci_adv_nocip_noccszcf</p> </li> <li> <p>if a case name begins with p19, use currentpolicy_10ci_adv_nocip_noccszcf_noexcess</p> </li> <li> <p>if a case name begins with p30, use currentpolicy_10ci_nocip_noexcess</p> </li> <li> <p>if a case name begins with p31, use currentpolicy_10ci_adv_nocip_noexcess</p> </li> </ul> </li> </ul> </li> </ul> <p>4. CI_Load_Formatted_google.csv included the Commercial and Industrial load for each zone; This study uses columns with "current_policy," year = 2030</p> <p>5. Total_Load_Formatted_google.csv included the gross load of each zone; This study uses columns with "current_policy," year = 2030</p>
High-Level and Efficient Stream Parallelism on Multi-core Systems with SPar for Data Compression Applications
<p>The stream processing domain is present in several real-world applications that are running on multi-core systems. In this paper, we focus on data compression applications that are an important sub-set of this domain. Our main goal is to assess the programmability and efficiency of domain-specific language called SPar. It was specially designed for expressing stream parallelism and it promises higher-level parallelism abstractions without significant performance losses. Therefore, we parallelized Lzip and Bzip2 compressors<br> with SPar and compared with state-of-the-art frameworks. The results revealed that SPar is able to efficiently exploit stream parallelism as well as provide suitable abstractions with less code intrusion and code re-factoring.</p>
Dataset for Fish Plasma Cortisol Levels and System DO and pH in Experiments Where Fish were Exposed to Algicide IRI-160AA
<p>This dataset includes two files. The first is the plasma cortisol levels of fish exposed to algicide IRI-160AA, and the second file is the system dissolved oxygen (DO) and pH for fish tanks before and during exposure to the algicide.</p>
Development of the multi-dimensional Mobility Divide Index as a methodology to assess the accessibility level of public transport systems
<p>This paper presents the development of a multi-dimensional Mobility Divide Index (MDI) for assessing the accessibility of public transport developed using a co-design approach, directly involving end-users in the index design process. The index measures the gap that persons with disabilities feel they need to over-come to use public transport in the same way non-disabled citizens do. The MDI covers six accessibility-related dimensions: 1) safety, 2) convenience, 3) comfort, 4) affordability, 5) travel time, 6) autonomy. The method paper describes the step-by-step approach to create the MDI as a set of indicators to be rated by people with different access needs to a) provide evidence of the main criticalities to be addressed through the design and implementation of new inclusive mobility solutions, b) guide the design of new inclusive mobility solutions and measure their impacts and c) inform the transport sector encouraging positive changes in transport by providing recommendations for policy-making, new directions for service innovation, improvements and practical advice or highlighting investment priorities to pave the way for a more inclusive mobility. We present our findings in ways that can inform universal design and provide actionable information to researchers, policymakers, transport and urban planners, operators and stakeholders’ representatives to promote inclusive and equitable mobility solutions for all. Finally, we suggest follow up research and innovation, as well as recommendations for its uptake and utilisation in the pursuit of European accessibility standards and requirements for products and services in the mobility sector. </p>
Cytoscape files - Systems-level analyses of protein-protein interaction network dysfunctions via epichaperomics identify cancer-specific mechanisms of stress adaptation
<p>Cytoscape files of pathway enrichment analyses and PPI mapping associated with manuscript https://www.nature.com/articles/s41467-023-39241-7</p> <p><strong>Systems-level analyses of protein-protein interaction network dysfunctions via epichaperomics</strong> <strong>identify cancer-specific mechanisms of stress adaptation </strong></p> <p>Anna Rodina<sup>1,11</sup>, Chao Xu<sup>1,11</sup>, Chander S. Digwal<sup>1,11</sup>, Suhasini Joshi<sup>1,11</sup>, Anand R. Santhaseela<sup>1</sup>, Sadik Bay<sup>1</sup>, Swathi Merugu<sup>1</sup>, Aftab Alam<sup>1</sup>, Pengrong Yan<sup>1</sup>, Chenghua Yang<sup>1,12</sup>, Tanaya Roychowdhury<sup>1</sup>, Palak Panchal<sup>1</sup>, Liza Shrestha<sup>1</sup>, Yanlong Kang<sup>1</sup>, Sahil Sharma<sup>1</sup>, Yogita Patel<sup>2</sup>, Justina Almadovar<sup>1</sup>, Adriana Corben<sup>3,13</sup>, Mary Alpaugh<sup>1,14</sup>, Shanu Modi<sup>4</sup>, Monica L. Guzman<sup>5</sup>, Teng Fei<sup>6</sup>, Tony Taldone<sup>1</sup>, Stephen D. Ginsberg<sup>7,8</sup>, Hediye Erdjument-Bromage<sup>9</sup>, Thomas A. Neubert<sup>9</sup>, Katia Manova-Todorova<sup>10</sup>, Jason C. Young<sup>2</sup>,<strong> </strong>Meng-Fu Bryan Tsou<sup>10</sup><strong>, </strong>Tai Wang<sup>1,*</sup>, Gabriela Chiosis<sup>1,4,*</sup></p> <p><strong>Abstract </strong></p> <p>Systems-level assessments of protein-protein interaction (PPI) network dysfunctions are currently out-of-reach because approaches enabling proteome-wide identification, analysis, and modulation of context-specific PPI changes in native (unengineered) cells and tissues are lacking. Herein, we take advantage of first-in-class chemical binders of maladaptive scaffolding structures termed epichaperomes and develop an epichaperome-based ‘omics platform, epichaperomics, to identify PPI alterations in disease. We provide multiple lines of evidence, at both biochemical and functional levels, demonstrating the importance of these probes to identify and study PPI network dysfunctions and provide mechanistically and therapeutically relevant proteome-wide insights. As proof-of-principle, we derive systems-level insight into PPI dysfunctions of cancer cells which enabled the discovery of a context-dependent mechanism by which cancer cells enhance the fitness of mitotic protein networks. Importantly, our systems levels analyses support the use of epichaperome chemical binders as therapeutic strategies aimed at normalizing PPI networks. </p>
Radiative transfer model and datasets for Li et al. (2023), 'Wintertime low-level clouds over sea ice cool the Arctic climate system'
<p>Source code for the radiative transfer model (RAPRAD) and cloud radiative flux data used in the study Li et al. (2022).</p>
Identification of system-level features in HIV migration within a host
<p><strong>Objective</strong>: Identify system-level features in HIV migration within a host across body tissues. Evaluate heterogeneity in the presence and magnitude of these features across hosts. </p> <p><strong>Method</strong>: Using HIV DNA deep sequencing data generated across multiple tissues from 8 people with HIV, we represent the complex dependencies of HIV migration among tissues as a network and model these networks using the family of exponential random graph models (ERGMs). ERGMs allow for the statistical assessment of whether network features occur more (or less) frequently in viral migration than might be expected by chance. The analysis investigates ve potential features of the viral migration network: (1) bi-directional ow between tissues; (2) preferential migration among tissues in the same biological system; (3) heterogeneity in the level of viral migration related to HIV reservoir size; (4) hierarchical structure of migration; and (5) cyclical migration among several tissues. We calculate the Cohran's Q statistic to assess heterogeneity in the magnitude of the presence of these features across hosts. The analysis adjusts for missing data on body tissues. </p> <p><strong>Results</strong>: We observe strong evidence for bi-directional ow between tissues; migration among tissues in the same biological system; and hierarchical structure of the viral migration network. This analysis shows no evidence for differential level of viral migration with respect to the HIV reservoir size of a tissue. There is evidence that cyclical migration among three tissues occurs less frequently than expected given the amount of viral migration. The analysis also provides evidence for heterogeneity in the magnitude that these features are present across hosts. Adjusting for missing tissue data identifies system-level features within a host as well as heterogeneity in the presence of these features across hosts that are not detected when the analysis only considers the observed data. </p> <p><strong>Discussion</strong>: Identification of common features in viral migration may increase the efficiency of HIV cure efforts as it enables targeting specific processes.</p>
SYSTEMS LEVEL IDENTIFICATION OF A MATRISOME-ASSOCIATED MACROPHAGE POLARIZATION STATE IN MULTI-ORGAN FIBROSIS
<p>This Zenodo repository contains the processed Seurat objects for "SYSTEMS LEVEL IDENTIFICATION OF A MATRISOME-ASSOCIATED MACROPHAGE POLARIZATION STATE IN MULTI-ORGAN FIBROSIS".</p> <p>The Seurat objects include:</p> <ul> <li>Tissue-specific monocytes / macrophages (used in Figure 1,3,4) <ul> <li>endo.rds: Endometrium monocytes / macrophages</li> <li>heart.rds: Heart monocytes / macrophages</li> <li>kidney.rds: Kidney monocytes / macrophages</li> <li>liver.rds: Liver monocytes / macrophages</li> <li>lung.rds: Lung monocytes / macrophages</li> <li>skin.rds: Skin monocytes / macrophages</li> </ul> </li> <li>SPP1 macrophages across all six tissues (used in Figure 2,3,4,5) <ul> <li>SPP1seu.rds</li> </ul> </li> </ul> <p>Code for generating these objects can be found at: https://github.com/the-ouyang-lab/mam-reproducibility</p>
Dataset for "System-level Impacts of Voluntary Carbon-free Electricity Procurement Strategies"
<p>This is the full dataset for "System-level Impacts of Voluntary Carbon-free Electricity Procurement Strategies." It includes zip files containing model input and results data for all cases referenced in the paper. Cases are named under the following conventions:</p> <ul> <li>The case name begins with either "CA" or "WYCO", indicating that it focuses on participating voluntary demand in the California region or the Wyoming & Colorado region, respectively.</li> <li>Cases containing "_ncp_" are baseline cases with no participation in voluntary carbon-free electricity procurement. </li> <li>Cases containing "_100apa_" model 100% volumetric matching. </li> <li>Cases containing "_100s_" model 100% emissions matching. </li> <li>Cases containing "_##h_" model ##% temporal matching. </li> <li>Cases containing "_##ci_" model ##% of local C&I demand participating in the given voluntary procurement strategy.</li> <li>Cases containing "adv" and "noccszcf" are those with "Advanced Technologies, No Combustion"</li> <li>Cases containing "adv" but not "noccszcf" are those with "Advanced Technologies, Full Portfolio"</li> <li>Cases containing neither "adv" nor "noccszcf" are those with "Established Technologies"</li> <li>Cases containing "noexcess" are those where no excess sales are permitted</li> <li>Cases containing "unlimex" are those where unlimited excess sales are permitted</li> <li>Cases containing "CES80" are those with a system-wide 80% clean electricity standard</li> </ul> <p>In addition to input and results files, this dataset also includes the source code for the version of the GenX electricity system optimization model used to run the cases. Finally, it includes csv files containing the 8760-hour profiles for total demand and C&I demand before time domain reduction was applied.</p>
Systems-level analyses dissociate genetic regulators of reactive oxygen species and energy production
<p>Dataset associated with publication "Systems-level analyses dissociate genetic regulators of reactive oxygen species and energy production"</p>
Effect of Artificial Tears on Radioiodine Levels in the Nasolacrimal Duct System
ClinicalTrials.gov study NCT04327999. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Data from: DNA damage signaling in Drosophila macrophages modulates systemic cytokine levels in response to oxidative stress
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Identification of system-level features in HIV migration within a host
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Data from: Light-level geolocators and species distribution modeling reveal that the vulnerable Sporophila cinnamomea (Chestnut Seedeater) migrates through the Paraná-Paraguay System to Central Brazil
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Deer grazing drove an assemblage-level evolution of plant dwarfism in an insular system
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Data from: Responses of aerial insectivorous bats to local and landscape-level features of coffee agroforestry systems in Western Ghats, India
Shade coffee has shown great promise in providing crucial habitats for biodiversity outside formal protected areas. Insectivorous bats have been understudied in coffee, although they may provide pest control services. We investigated the influence of local and landscape-level features of coffee farms on aerial insectivorous bats in Chikmagalur district in the Western Ghats biodiversity hotspot, India. Bats were monitored in 20 farm sites using ultrasound detectors, and the response of bat species richness and activity to changes in tree density, proportion of built-up area in the neighborhood, and distance of farm from forest areas quantified. We examined if models built to explain the species richness and activity could also predict them in nine additional sites. We detected nine phonic types/species in the study area. The quantified predictors had no effect on assemblage-level species richness and activity of bats. Responses of edge-space and cluttered-space forager guilds mirrored those of the overall assemblage, but some species vulnerable to forest conversion like *Rhinolophus beddomei* were detected rarely. Best models explained up to 20% and 15% variation in assemblage-level species richness and activity respectively, and were poor predictors of both response variables. We conclude that coffee farms in our study area offer an important commuting space for insectivorous bats across a gradient of shade management. Further research should include species-specific responses to management decisions for at-risk species and quantification of ecosystem services like natural pest control to inform biodiversity conservation initiatives in the Western Ghats coffee landscapes.
R-code for: A systems level analysis of epileptogenesis-associated proteome alterations
<p>Despite intense research efforts, the knowledge about the mechanisms of epileptogenesis and epilepsy is still considered incomplete and limited. However, an in-depth understanding of molecular pathophysiological processes is crucial for the rational selection of innovative biomarkers and target candidates.</p> <p>Here, we subjected proteomic data from different phases of a chronic rat epileptogenesis model to a comprehensive systems level analysis. Weighted Gene Co-expression Network analysis identified several modules of interconnected protein groups reflecting distinct molecular aspects of epileptogenesis in the hippocampus and the parahippocampal cortex. Characterization of these modules did not only further validate the data but also revealed regulation of molecular processes not described previously in the context of epilepsy development. The data sets also provide valuable information about temporal patterns, which should be taken into account for development of preventive strategies in particular when it comes to multi-targeting network pharmacology approaches.</p> <p>In addition, principal component analysis suggests candidate biomarkers, which might inform the design of novel molecular imaging approaches aiming to predict epileptogenesis during different phases or confirm epilepsy manifestation. Further studies are necessary to distinguish between molecular alterations, which correlate with epileptogenesis versus those reflecting a mere consequence of the status epilepticus.</p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.