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3,484 results for “plasticity”
Cast-induced plasticity
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Raw data for the submitted manuscript entitled "Mapping and Disposal of Irrigation Pipes for a Sustainable Management of Agricultural Plastic Waste", authors Ileana Blanco, Giuliano Vox, Fabiana Convertino, and Evelia Schettini
<p><span>The file regards the evaluation of plastic indexes and agricultural plastic waste quantities in Apulia region due to the use of irrigation pipes. The data is used to identify the critical areas for plastic waste production due to irrigation pipes.</span></p>
Raw data for the submitted manuscript entitled "Prospective Scenarios for Addressing the Agricultural Plastic Waste Issue: Results of a Territorial Analysis"
<p><span>Agricultural activities have been positively affected by the use of plastic products, but this has resulted in the production of plastic waste and led to an increase in environmental pollution. </span><span>This file concerns plastic waste indices to different crop types and plastic products allowed quantifying and georeferencing actual plastic waste production. Two improved scenarios were considered, the first consisted of extending the lifespan of some plastics, and the second entailed the introduction of some biodegradable alternatives. </span></p>
Gamma dose rate monitoring using a Silicon Photomultiplier-based plastic scintillation detector
<p>Data set in support of the publication "Gamma dose rate monitoring using a Silicon Photomultiplier-based plastic scintillation detector". It contains measurement campaign data, radionuclide sources data, measurement count rate per radionuclide.</p>
The Interplay between Hebbian and homeostatic plasticity in the Adult Visual cortex
<p>Data linked to the article "The interplay between Hebbian and homeostatic plasticity in the adult visual cortex", Journal of Physiology, DOI: <a href="https://doi.org/10.1113/JP287665">https://doi.org/10.1113/JP287665</a></p> <p>Data from binocular rivalry measurements and processed data from EEG Visual Evoked Potentials (VEP) are separated in different files.</p> <p>The ocular dominance index (ODI) files are split in two: the "ODI_values" file contains the raw measurements from participants, and the "change_from_baseline file" contains the same data normalized to baseline for each measurement.</p> <p>In both files, each column refers to a different measurement and condition:</p> <p>noHFS: data measured with the 17Hz HFS block before monocular deprivation<br>HFS: data measured with the 8.6Hz HFS block before monocular deprivation</p> <p>Baseline: Ocular dominance index measured at the start of the session, before any manipulation<br>Post_MD_1: first measurement after 60 minutes monocular deprivation (starting immediately after the end of deprivation)<br>Post_MD_2: second measurement after 60 minutes monocular deprivation (starting 11 minutes after the end of deprivation)<br>Post_MD_3: third measurement after 60 minutes monocular deprivation (starting 22 minutes after the end of deprivation)</p> <p>In VEP files, each column refers to a different condition:</p> <p>HFS: VEP recorded in the high-frequency stimulation condition, no monocular deprivation<br>HFS_MD: VEP recorded in the high-frequency stimulation condition with monocular deprivation<br>noHFS: VEP recorded in the condition where the HFS block was withheld, as a control for its role in our effect</p> <p>pre: first 500 measurements, before the High-Frequency Stimulation (HFS) block<br>post: last 500 measurements, after the HFS block (or after the break in the noHFS condition).</p>
Deep splicing plasticity of the human adenovirus type 5 transcriptome as a driver of virus evolution nanopore data 48hpi
<p>Adenovirus infected MRC5 cells direct RNA sequencing of the mRNA using nanopore. From the paper Deep splicing plasticity of the human adenovirus type 5 transcriptome as a driver of virus evolution. Both the uncorrected fastq files and the lordec corrected files together with the normalised illumina data used to correct the nanpore data are here.</p>
S49 | CPPDBLISTB | Database of Chemicals possibly (List B) associated with Plastic Packaging (CPPdb)
<p>This is the collection associated with list S49 CPPDBLISTB on the NORMAN Suspect List Exchange.</p> <p><a href="https://www.norman-network.com/nds/SLE/">https://www.norman-network.com/nds/SLE/</a></p> <p>S49 | CPPDBLISTB | <strong>Database of Chemicals associated with Plastic Packaging (CPPdb)</strong></p> <p>A database of chemicals likely (List A, 903 - in another upload) and possibly (List B, 3353 - this upload) associated with plastic packaging, with hazard data, from Groh et al 2019 DOI: <a href="https://doi.org/10.1016/j.scitotenv.2018.10.015">10.1016/j.scitotenv.2018.10.015</a>. Mapped to structures by CAS/Name by K. Groh & E. Schymanski. 2025: added new CSV file with duplicate headers renamed. </p> <p>Latest version of original data (last update Oct 2018): DOI: <a href="http://doi.org/10.5281/zenodo.1287773">10.5281/zenodo.1287773</a></p>
Data from: Visual pigment chromophore usage in Nicaraguan Midas cichlids: Phenotypic plasticity and genetic assimilation of cyp27c1 expression
<p>Code and Data associated with "Visual pigment chromophore usage in Nicaraguan Midas cichlids: Phenotypic plasticity and genetic assimilation of <em>cyp27c1</em> expression"</p> <h2><span>Abstract</span></h2> <p><span>The wide-ranging photic conditions found across aquatic habitats may act as selective pressures potentially driving rapid evolution and diversity in the visual system of teleost fishes. Fine-tuning of visual sensitivities in many fish species relies on regulating the two components of visual pigments, the opsin protein and the chromophore. Many studies have focused on opsin gene expression or opsin sequence divergence in fishes inhabiting contrasting habitats. However, variation in chromophore usage across photic habitats has received less attention. Species from the Nicaraguan Midas cichlid complex, <em>Amphilophus </em>cf <em>citrinellus </em>[Günther 1864], have independently colonized seven isolated crater lakes of varying photic conditions resulting in repeated examples of small adaptive radiations. Here, we investigate variation in <em>cyp27c1</em>, the main enzyme involved in chromophore exchange, in response to photic environments in the wild, we measure its genetic component using laboratory-reared fish and test the effect of different rearing light conditions on <em>cyp27c1</em> expression. We found that photic environments significantly predict variation in <em>cyp27c1</em> expression in wild populations and that this variation seems to be genetically assimilated in two populations. We found that light-induced <em>cyp27c1</em> expression is variable across populations (i.e., genotype-by-environment interactions) and correlated with local photic conditions thus highlighting <em>cyp27c1</em> as a key factor of visual ecology in cichlid fishes.</span></p> <p><span>Keywords: <em>cyp27c1 </em>gene expression, sensory ecology, visual plasticity, Neotropical cichlids </span></p>
S91| CECTOYS | Chemicals of Emerging Concern (CECs) in plastic toys
<p>This is the collection associated with list S91 CECTOYS, List of Chemicals of Emerging Concern (CECs) found in plastic toys on the NORMAN Suspect List Exchange.</p> <p><a href="https://www.norman-network.com/nds/SLE/">https://www.norman-network.com/nds/SLE/</a></p> <p> </p> <p>A compiled list of 126 Chemicals of Emerging Concern (CECs) found in plastic toys described in Aurisano et. al DOI: 10.1016/j.envint.2020.106194. The list is categorized into four (as seen in CECTOYS_notes.txt) based on being included in regulatory lists of concern as well as reported hazard index (HI) and child cancer risk (CCR) based criteria.</p> <p>Structural identifiers and mapping to DTXSID provided by ECI.</p> <p> </p>
Data from: Effects of plastic fragments on plant performance are mediated by soil properties and drought
<p>In recent years, the effects of plastic contamination on soil and plants have received growing attention. Plastic can affect soil water content and thus may interact with the effects of drought on soil and plants. However, the effects of plastic on soil are highly context-dependent, and interactions with drought have been hardly tested. We conducted two greenhouse experiments to test the combined effects of plastic fragments (of varying size and concentration), water availability and soil texture, on soil water content and performance of the plant <em>Arabidopsis thaliana</em>. Plastic fragments had stronger negative effects on soil water content in low water availability, and the shape of this response (linear <em>vs.</em> unimodal) was mediated by soil texture. Conversely, increasing concentration of plastic had positive effects on plant growth. We suggest that plastic fragments introduce fracture points within soil aggregates. This increases number and size of soil pores favoring water loss but also facilitating root growth. Our results suggest complex interactive effects of plastic and drought, that may lead to a decoupling of plant and soil response. These processes should be taken into account in ecological studies and agricultural practices.</p>
Marine plastics alter the organic matter composition of the air-sea boundary layer, with influences on CO2 exchange: a large-scale analysis method to explore future ocean scenarios
<p>Microplastics are substrates for microbial activity and can influence biomass production. This has potentially important implications in the sea-surface microlayer, the marine boundary layer that controls gas exchange with the atmosphere and where biologically produced organic compounds can accumulate. In the present study, we used six large scale mesocosms to simulate future ocean scenarios of high plastic concentration. Each mesocosm was filled with 3 m3 of seawater from the oligotrophic Sea of Crete, in the Eastern Mediterranean Sea. A known amount of standard polystyrene microbeads of 30 μm diameter was added to three replicate mesocosms, while maintaining the remaining three as plastic-free controls. Over the course of a 12-day experiment, we explored microbial organic matter dynamics in the sea-surface microlayer in the presence and absence of microplastic contamination of the underlying water. Our study shows that microplastics increased both biomass production and enrichment of carbohydrate-like and proteinaceous marine gel compounds in the sea-surface microlayer. Importantly, this resulted in a 3 % reduction in the concentration of dissolved CO2 in the underlying water. This reduction was associated to both direct and indirect impacts of microplastic pollution on the uptake of CO2 within the marine carbon cycle, by modifying the biogenic composition of the sea's boundary layer with the atmosphere.</p>
Agricultural plastic uses in Europe
<p><span>For each European country, it is considered waste produced mainly from plastic used for: films for crop protection; nets; low tunnel films; soil mulching, solarization and direct covering; bags and containers for pesticides, fertilizers and other agrochemicals; silage bags; irrigation pipes; ropes and strings. Descriptions of different plastic application is given in this dataset.</span></p>
Genotyping-by-sequencing (GBS) dataset for genome wide associations of growth, phenology and plasticity traits in willow (Salix viminalis (L.))
<p>These vcf-files constitute underlying raw data material for the manuscript "Genome wide associations of growth, phenology and plasticity traits in willow (Salix viminalis (L.))". For more detailed information please consult the README file in the repository.</p>
S48 | CPPDBLISTA | Database of Chemicals likely (List A) associated with Plastic Packaging (CPPdb)
<p>This is the collection associated with list S48 CPPDBLISTA on the NORMAN Suspect List Exchange.</p> <p><a href="https://www.norman-network.com/nds/SLE/">https://www.norman-network.com/nds/SLE/</a></p> <p>S48 | CPPDBLISTA | <strong>Database of Chemicals associated with Plastic Packaging (CPPdb)</strong></p> <p>CPPdb Original File (List A and B) <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/CPPdb_ListA_ListB_181009_ZenodoV1.xlsx">XLSX</a> (06/03/2019)<br> Mapped Files (06/03/2019):<br> Table 2 from Groh et al as <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/Table2_Groh_etal_stoten_mapped.xlsx">XLSX</a>, <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/Table2_Groh_etal_stoten_mapped.csv">CSV</a> <br> CPPdb List A <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/CPPdb_ListA_Mapped_06032019.xlsx">XLSX</a>, <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/CPPdb_ListA_Mapped_06032019.csv">CSV</a> <br> CPPdb List B <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/CPPdb_ListB_Mapped_06032019.xlsx">XLSX</a>, <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/CPPdb_ListB_Mapped_06032019.csv">CSV</a></p> <p>Table 2 Groh et al. <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/Table2_Groh_etal_InChIKeys.txt">InChIKeys</a><br> CPPdb List A <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/CPPdb_ListA_InChIKeys.txt">InChIKeys</a><br> CPPdb List B <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/CPPdb_ListB_InChIKeys.txt">InChIKeys</a><br> (all 06/03/2019)</p> <p>A database of chemicals likely (List A, 903) and possibly (List B, 3353 - in another upload) associated with plastic packaging, with hazard data, from Groh et al 2019 DOI: <a href="https://doi.org/10.1016/j.scitotenv.2018.10.015">10.1016/j.scitotenv.2018.10.015</a>. Mapped to structures by CAS/Name by K. Groh & E. Schymanski.</p> <p>Latest version of original data (last update Oct 2018): DOI: <a href="http://doi.org/10.5281/zenodo.1287773">10.5281/zenodo.1287773</a></p> <p> </p>
S47 | ECHAPLASTICS | A list from the Plastic Additives Initiative Mapping Exercise by ECHA
<p>This is the collection associated with list S47 ECHAPLASTICS on the NORMAN Suspect List Exchange.</p> <p><a href="https://www.norman-network.com/?q=suspect-list-exchange">https://www.norman-network.com/?q=suspect-list-exchange</a></p> <p>S47</p> <p>ECHAPLASTICS</p> <p><strong>A list from the Plastic Additives Initiative Mapping Exercise by ECHA</strong></p> <p>Merged ECHA Plastic Additives with Structures <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/ECHA_PlasticAdditivesInitiative_06032019.xlsx">XLSX</a>, <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/ECHA_PlasticAdditivesInitiative_06032019.csv">CSV</a> (06/03/2019)</p> <p>ECHA Plastic Additives <a href="https://www.norman-network.com/sites/default/files/files/suspectListExchange/220319Update/ECHA_Plastics_InChIKeys.txt">InChIKeys</a> (06/03/2019)</p> <p>List with several categories released on <a href="https://echa.europa.eu/mapping-exercise-plastic-additives-initiative">https://echa.europa.eu/mapping-exercise-plastic-additives-initiative</a> and mapped to structures by CAS and Name by E. Schymanski. </p>
Adipose tissue plasticity in pheochromocytoma patients reveals a key role of the splicing machinery in human adipose browning
<p>RNA-sequencing counts data from omental adipose tissue from control individuals (C1-3) and patients with pheochromocytoma (P1-4) for whole genes (genes-counts.tsv) and individual isoforms (isoform-counts.tsv). Additional details regarding recruited individuals are available in the associated manuscript.</p> <p>Tissue fragments (~150 mg) of adipose biopsies from controls and pheochromocytoma patients were homogenized using a metal bead-based mechanical procedure in a TissueLyser® (QIAGEN, Düsseldorf, Germany). Total RNA was isolated from tissue homogenates using a NucleoSpin® RNA kit (Macherey-Nagel, Dueren, Germany) following the manufacturer’s protocol. mRNA was purified from 2 μg of total RNA using oligo-dT beads; it was then fragmented, retrotranscribed with random primers, and subjected to second-strand synthesis to create double-stranded cDNA fragments. Adaptor ligation, purification of 200-base pair cDNA fragments, amplification of the purified fragments, and library preparation were performed as previously reported by our laboratory. Before sequencing, the RNA integrity number (RIN) of each sample was determined using an Agilent Bioanalyzer 2100; samples with RIN ≥ 7.5 were used for RNA-sequencing. The cDNA library quality and quantity were further analyzed as previously described. Libraries yielding satisfactory results were sequenced on an Illumina HiSeq 2000 sequencer (DNAvision, Charleroi, Belgium). The average reads per sample was 45 million; this level of coverage was previously shown to provide sufficient sequencing depth for gene expression quantification and transcript detection. Quality control of reads was performed using FastQC (version 0.11.8; bioinformatics.babraham.ac.uk/projects/fastqc). Gene expression was quantified using Salmon version 1.1.0 with the additional parameters “– seqBias – gcBias – validateMappings”. GENCODE version 31 (GRCh38.p12) was used as the reference genome and indexed using default parameters; this resulted in 175,775 transcripts corresponding to 35,183 genes.</p>
Selection for phenotypic plasticity in Rana sylvatica tadpoles, 1998.
The hypothesis that phenotypic plasticity is an adaptation to environmental variation rests on the two assumptions that plasticity improves the performance of individuals that possess it, and that it evolved in response to selection imposed in heterogeneous environments. The first assumption has been upheld by studies showing the beneficial nature of plasticity. The second assumption is difficult to test since it requires knowing about selection acting in the past. However, it can be tested in its general form by asking whether natural selection currently acts to maintain phenotypic plasticity. We adopted this approach in a study of plastic morphological traits in larvae of the wood frog, Rana sylvatica. First we reared tadpoles in artificial ponds for 18 days, in either the presence or absence of Anax dragonfly larvae (confined within cages to prevent them from killing the tadpoles). These conditioning treatments produced dramatic differences in size and shape: tadpoles from ponds with predators were smaller and had relatively short bodies and deep tail fins. We estimated selection by Anax on the two kinds of tadpoles by testing for non-random mortality in overnight predation trials. Dragonflies imposed strong selection by preferentially killing individuals with relatively shallow and short tail fins, and narrow tail muscles. The same traits that exhibited the strongest plasticity were under the strongest selection, except that tail muscle width exhibited no plasticity but experienced strong increasing selection. A laboratory competition experiment, testing for selection in the absence of predators, showed that tadpoles with deep tail fins grew relatively slowly. In the cattle tanks, where there were also no free predators, the predator-induced phenotype survived more poorly and developed slowly, but this cost was apparently not associated with particular morphological traits. These results indicate that selection is currently promoting morphological plasticity in
CAT snacks functional plasticity
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Undirected Node Attributed Social Network Graph of Twitter Users interested in plastic pollution - created in the framework of the PlasticTwist project
<p>This dataset has been created in the framework of the Plastic Twist project (<a href="https://ptwist.eu/">Ptwist</a>) and more specifically using the Ptwist crowdsourcing application (<a href="https://crowdsourcing.plastictwist.com/">crowdsourcing.plastictwist.com/</a>). We are sharing the edge list and specific node attributes (hashtags) of Twitter users posting about plastic pollution. The dataset can be used for community detection,clustering, node importance, influence maximization tasks, etc. Each user is represented by a unique integer which has nothing to do with the official Twitter user ID. The dataset contains three (3) files: </p> <ul> <li>ptwist.edgelist: A list containing all the 1,362,863 edges between the users. When loaded they create an undirected graph of 800K+ users.</li> <li>node_attributes.txt: This file contains information about the hashtags used by each user. (e.g. "652003": ["SingleUsePlastic"] -> user 6529003 has used the hashtag SingleUsePlastic) </li> <li>annotated_graph: A pickle file which, when loaded, returns a <a href="https://networkx.github.io/">NetworkX</a> node attributed undirected graph.</li> </ul> <p> </p> <p> </p>
Logical model for Model checking to assess T-helper cell plasticity
<p>Logical modeling has proven suitable for the dynamical analysis of large signaling and transcriptional regulatory networks. In this context, signaling input components are generally meant to convey external stimuli, or environmental cues. In response to such external signals, cells acquire specific gene expression patterns modeled in terms of attractors (e.g. stable states). The capacity for cells to alter or reprogram their differentiated states upon changes in environmental conditions is referred to as cell plasticity.</p> <p>In <a href="https://dx.doi.org/10.3389/fbioe.2014.00086">[1]</a>, it is presented an extended version of a published logical model of T-helper cell differentiation and plasticity, which accounts for novel cellular subtypes. The model encompasses 20 signaling pathways, a dozen of transcription factors, and about 30 cytokines, amounting to 101 components in total.</p> <p>Computational methods recently developed to efficiently analyze large models <a href="http://ginsim.org/node/185#ref1">[1]</a> are first used to study static properties of the model (i.e. stables states). Symbolic model checking is then applied to get further insights into reachability properties between Th canonical subtypes upon changes of specific prototypic environmental cues.</p> <p>The model reproduces novel reported Th subtypes (Tfh, Th9, Th22) and predicts additional Th hybrid subtypes in term of stables states. Using the model checker NuSMV-ARCTL, an abstract view of the dynamics, called reprograming graph, is produced providing a global and synthetic view of Th plasticity. The model is consistent with experimental data showing the polarization of naïve Th cells into the canonical Th subtypes. The model further predicts substancial plasticity of Th subtypes depending on the signalling environment.</p>
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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.