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11,177 results for “identify”
Fig. 4 in Use of ITS-1 to identify Bactrocera dorsalis and Bactrocera occipitalis (Diptera: Tephritidae): a case study using flies trapped in California from 2008 to 2018
Fig. 4. Image of wing of fly (16V457) with Bactrocera occipitalis ITS‑1 sequence.
Fig. 3 in Use of ITS-1 to identify Bactrocera dorsalis and Bactrocera occipitalis (Diptera: Tephritidae): a case study using flies trapped in California from 2008 to 2018
Fig. 3. Image of first Bactrocera occipitalis trapped in California in 1983.
Natural history specimens collected and/or identified and deposited.
Natural history specimen data collected and/or identified by Simon Grove, <a href="https://orcid.org/0000-0002-4784-5030">https://orcid.org/0000-0002-4784-5030</a>. Claims or attributions were made on Bionomia, <a href="http://bionomia.net">https://bionomia.net</a> using specimen data from the Global Biodiversity Information Facility, <a href="https://gbif.org">https://gbif.org</a>.
Shapefiles showing the locations of long-term climate change refugia and hotspots identified in the FutureMARES report "D6.3, Climate ready strategies for nature-based solutions"
<p>Shapefiles created for the report "D6.3, Climate ready strategies for nature-based solutions", a deliverable report from the Horizon Europe project FutureMARES</p> <p>These shapefiles summarise long-term patterns that emerge from the spatial-meta analysis of physical-biogeochemical and species distribution modelling data, providing an overview of the distribution of climate change refugia and climate change hotspots across six European case study areas between 2026 - 2069, and across the five scenarios considered in the FutureMARES project (Global Sustainability RCP2.6, National Enterprise RCP8.5, World Market RCP8.5, Status Quo RCP2.6 and Status Quo RCP8.5). </p> <p>Filenames refer to the case study area and scenario each set of shapefiles belong to. Details of the modelling datasets used in each of these analyses, the meta-analysis method and shapefile creation can be found in the relevant chapter in the report "D6.3, Climate ready strategies for nature-based solutions".</p>
Sample metadata and supplementary tables for "Genomics identifies koala populations at risk across Eastern Australia"
<p>All metadata for the koala genomes deposited on NCBI under BioProject <span>PRJNA940526. Runs of homozygosity size classes and Gene Ontology terms provided as excel files.</span></p>
Supplementary tables for the paper: "Comprehensive Mapping of the AOP-Wiki Database: Identifying Biological and Disease Gaps"
<p><strong>Supplementary tables for the paper: "Comprehensive Mapping of the AOP-Wiki Database: Identifying Biological and Disease Gaps"</strong></p> <p><em>Original Research Article</em><br><strong>Frontiers in Toxicology</strong>, March 8, 2024<br>Section: Regulatory Toxicology<br><strong>Volume 6 - 2024</strong> | <a href="https://doi.org/10.3389/ftox.2024.1285768" target="_new" rel="noopener">https://doi.org/10.3389/ftox.2024.1285768</a></p> <p><strong>Authors</strong>:<br>Thomas Jaylet, Thibaut Coustillet, Nicola M. Smith, Barbara Viviani, Birgitte Lindeman, Lucia Vergauwen, Oddvar Myhre, Nurettin Yarar, Johanna M. Gostner, Pablo Monfort-Lanzas, Florence Jornod, Henrik Holbech, Xavier Coumoul, Dimosthenis A. Sarigiannis, Philipp Antczak, Anna Bal-Price, Ellen Fritsche, Eliska Kuchovska, Antonios K. Stratidakis, Robert Barouki, Min Ji Kim, Olivier Taboureau, Marcin W. Wojewodzic, Dries Knapen, Karine Audouze</p>
Natural history specimens collected and/or identified and deposited.
Natural history specimen data collected and/or identified by Matthew Sheik, <a href="https://orcid.org/0000-0002-9496-6898">https://orcid.org/0000-0002-9496-6898</a>. Claims or attributions were made on Bionomia, <a href="http://bionomia.net">https://bionomia.net</a> using specimen data from the Global Biodiversity Information Facility, <a href="https://gbif.org">https://gbif.org</a>.
Data related to Mapping user-related comfort conditions to identify urban planning issues for improved quality of places in cities: The case of Ljubljana, Slovenia
<p>The data consists of parameters including air temperature, noise levels, humidity, and air quality (PM 2.5), measured using a portable ICT device while cycling through the city of Ljubljana between August 1 and August 30, 2022. The data is available as raw CSV files, with each measurement session stored in a separate file. An additional QGIS Project file (qgz) is included, along with maps (in jpg format in ppt) that visually represent the results presented in the article.</p>
Supplementary Material for the paper entitled "Identifying Difficult Environmental Conditions with Scenario-based Hazard and Fault Analysis"
<p>This dataset is a supplementary material for the paper entitled "Identifying Difficult Environmental Conditions with Scenario-based Hazard and Fault Analysis", accepted by SafeComp Workshop SASSUR 2024.</p> <p>The file will be uploaded after a publication process is accomplished.</p> <p>Update: list of triggering conditions is uploaded on 14.10.2024</p>
Identifying routes for transferring spin polarization from parahydrogen to protic solvents
<p>NMR data and MATLAB codes supporting the publication '<strong>Identifying routes for transferring spin polarization from parahydrogen to protic solvents'</strong>. The NMR_data file enables to reconstruct the PTF profiles, the solvent lifetime calculations, and the molar polarization values for each solution. The SABRE_2D data file contains the 2D-OPSY-COSY sequence for elucidation of the catalyst structure 2a-d. The Codes folder contains the MATLAB codes for construction of the PTF profiles and the solvent lifetime plots. The PDF file contains the specific details on which data is used for which figure. </p> <p> </p> <p> </p>
Genome-wide association analysis identifies naturally segregating genetic variation associated with the rapid evolution of diapause in Aedes albopictus, an invasive vector mosquito.
<p>The raw data for genotype calls, the output files from the genotype calls, the code to replicate the analysis, and the output of the analysis.</p>
Code and de-identified datasets for FinaleMe
<pre>FinaleMe is a Java program to predict DNA methylation by fragmentation patterns in deep <br>and low-coverage cell-free DNA genomic sequencing data (e.g., whole-genome sequencing) <br>without other training data.</pre>
Natural history specimens collected and/or identified and deposited.
Natural history specimen data collected and/or identified by Bruce W. Hayward, <a href="https://orcid.org/0000-0003-1302-7686">https://orcid.org/0000-0003-1302-7686</a>. Claims or attributions were made on Bionomia, <a href="https://bionomia.net">https://bionomia.net</a> using specimen data from the Global Biodiversity Information Facility, <a href="https://gbif.org">https://gbif.org</a>.
RNA-Seq analysis to identify differentially expressed genes in top and bottom leaves under Alternaria brassicicola infection
<p>The broccoli plants were infected with Alternaria brassicicola and RNA samples were extracted for control and inoculated plants at 10 days post inoculation. </p>
Data from: Forecasting potential emergence of zoonotic diseases in Southeast Asia: network analysis identifies key rodent hosts
1. Within complex ecological systems, identifying animal species likely to play a key role in the emergence of infectious zoonotic diseases remains a major challenge. One approach consists of using information on current ecological and parasitological similarities among host species in order to predict the most likely pathways for future pathogen spillover. 2. Using field data acquired from 15 sympatric rodent species in various habitats in Thailand, Cambodia and Laos, we built networks based on shared parasites (17 helminth and 15 microparasite species) and shared habitats among rodent species and humans. We investigated the architectures of bipartite and unipartite networks using modularity, subgroups partitioning or node centrality, to assess the relative epidemiological importance of particular rodent species. 3. Our results showed that Rattus tanezumi, Bandicota savilei and R. exulans were consistently found to be members of subgroups that included humans in unipartite and bipartite networks on zoonotic agents and shared habitats. High values of centrality in shared zoonotic agents were found for the same three rodent species, whereas high values of shared habitats were observed for two of them. Although phylogenetically related rodent species likely shared both habitats and parasites, a lack of habitat specialisation was associated with increased zoonotic parasite sharing. 4. Our results emphasize the disproportionate importance of these three rodent species, through their high degree of connectivity with humans, which may represent a high risk for direct zoonotic spillover. Moreover, due to its high centrality in habitats, R. tanezumi may also play a key role as a bridge host. 5. The recent discovery of new arenaviruses in rodents in Southeast Asia, with associated disease in humans in Cambodia, provides an opportunity to test this empirically. The three rodent species identified using our network approach are some of the potential maintenance hosts for these new emerging arenaviruses. 6. Synthesis and applications. Our results on rodents and their pathogens in Southeast Asia show that network analysis has a high potential to improve the surveillance of emerging zoonotic pathogens by targeting key host species and potential "emerging' pathogen–rodent interactions in complex and heterogeneous landscapes.
Data from: Genome-wide CRISPR synthetic lethality screen identifies a role for the ADP-ribosyltransferase PARP14 in replication fork stability controlled by ATR
<p>The DNA damage response is essential to maintain genomic stability, suppress replication stress, and protect against carcinogenesis. The ATR-CHK1 pathway is an essential component of this response, which regulates cell cycle progression in the face of replication stress. PARP14 is an ADP-ribosyltransferase with multiple roles in transcription, signaling, and DNA repair. To understand the biological functions of PARP14, we catalogued the genetic components that impact cellular viability upon loss of PARP14 by performing an unbiased, comprehensive, genome-wide CRISPR knockout genetic screen in PARP14-deficient cells. We uncovered the ATR-CHK1 pathway as essential for viability of PARP14-deficient cells, and identified regulation of DNA replication dynamics as an important mechanistic contributor to the synthetic lethality observed. Our work shows that PARP14 is an important modulator of the response to ATR-CHK1 pathway inhibitors.</p>
Development of tools to rapidly identify cryptic species and characterize their genetic diversity in different European kelp species
<p>Marine ecosystems formed by kelp forests are severely threatened by global change and local coastline disturbances in many regions. In order to take appropriate conservation, mitigation and restoration actions, it is crucial to identify the most diverse populations which could serve as a "reservoir" of genetic diversity. This requires the development of specific tools, such as microsatellite markers to investigate the level and spatial distribution of genetic diversity. Here, we tested new polymorphic microsatellite loci from the genome of the kelp, <i>Lamina</i><i>ria digitata,</i> and tested them for cross-amplification and polymorphism in four closely related congeneric species (<i>Laminaria hyperborea, Laminaria ochroleuca, Laminaria rodriguezii and Laminaria pallida</i>). Adding these 20 new microsatellite loci to the ten <i>L. digitata</i> loci previously developed by Billot et al. (1998) and Brenan et al. (2014) and to the ten <i>L. ochroleuca</i> loci previously developed by Coelho et al. (2014), we retained a total of 30 polymorphic loci for <i>L. digitata</i>, 19 for <i>L. hyperborea</i>, 16 for <i>L ochroleuca</i>, 19 for<i> L. rodriguezii</i> and 12 for<i> L. pallida</i>. These markers have been tested for the first time in the last two species. As predicted, the proportion of markers that cross-amplified between species decreased with increasing genetic distance. In addition, as problems of species identification were reported in this genus, mainly between <i>L. digitata </i>and <i>Hedophyllum nigripes</i>,<i> </i>but also between <i>L. digitata, L. hyperborea </i>and<i> L. ochroleuca </i>in areas where their range distributions overlap, we report a rapid PCR identification method based on species-specific cox1 mitochondrial primers that allows these four species of kelp to be rapidly distinguished.</p>
Genome-wide association study identifies 18 novel loci associated with left atrial volume and function
<p><strong>README</strong></p> <p>Publication: Genome-wide association study identifies 18 novel loci associated with left atrial volume and function</p> <p>Ahlberg and Andreasen et al.</p> <p>Published: 29 July 2021, doi: <a href="https://doi.org/10.1093/eurheartj/ehab466">https://doi.org/10.1093/eurheartj/ehab466</a></p> <p>summary statistics for LAmax: rntrn_ilamax.bgen.stats.betastd.tsv.gz <br> summary statistics for LAmin: rntrn_ilamin.bgen.stats.betastd.tsv.gz <br> summary statistics for LAAEF: rntrn_laaef.bgen.stats.betastd.tsv.gz <br> summary statistics for LAPEF: rntrn_lapef.bgen.stats.betastd.tsv.gz <br> summary statistics for LATEF: rntrn_latef.bgen.stats.betastd.tsv.gz </p> <p> </p> <p>Description:</p> <p>SNP: rs number or ID string<br> CHR: chromosome<br> BP: physical (base pair) position<br> GENPOS: genetic position either from bim file or interpolated from genetic map<br> ALLELE1: first allele in bim file (usually the minor allele), used as the effect allele<br> ALLELE0: second allele in bim file, used as the reference allele<br> A1FREQ: frequency of first allele<br> F_MISS: fraction of individuals with missing genotype at this SNP<br> BETA: effect size from BOLT-LMM approximation to infinitesimal mixed model<br> SE: standard error of effect size<br> P_BOLT_LMM_INF: infinitesimal mixed model association test p-value<br> P_BOLT_LMM: non-infinitesimal mixed model association test p-value<br> N: sample size <br> bstd: standardized effect size from BOLT-LMM <br> sestd: standardized standard error of effect size</p>
Machine readable code lists for an algorithm to identify incident non-small cell lung cancer (NSCLC) in United States healthcare claims data
<p>Machine readable code lists for an algorithm to identify incident non-small cell lung cancer (NSCLC) in United States healthcare claims data</p>
RNASeq fastq files associated with the manuscript entitled 'Interspecies transcriptome analyses identify genes that control the development and evolution of limb skeletal proportion'
<p>This next-generation sequencing dataset is associated with the research manuscript entitled ‘<em>Interspecies transcriptome analyses identify genes that control the development and evolution of limb skeletal proportion</em>’ (https://www.biorxiv.org/content/10.1101/754002v2).</p> <p>The folder ‘<strong>Zenodo_Saxena_etal_2021_RNASeq_FastqFiles</strong>’ contains raw/unprocessed RNASeq Fatsq read files for postnatal day 5 (P5) mouse (Mus) and jerboa (Jac) cartilage samples (Metatarsal = MT; Radius/Ulna = RU).</p> <p>> The <strong>Jac_P5</strong> subfolder contains single-end reads (R1) for five jerboa metatarsals (MT1-5) and radius/ulna (RU1-5) biological replicates. Jac_MT1-3 and Jac_RU1-3 were used in the primary differential expression analysis (n=3). Jac_MT4-5 and Jac_RU4-5 were used for independent validation (n=2) of the the primary analysis. </p> <p>> The <strong>Mus_P5</strong> subfolder contains single-end reads (R1) for five mouse metatarsals (MT1-5) and radius/ulna (RU1-5) biological replicates. Mus_MT1-3 and Mus_RU1,3 & 4 were used in the primary differential expression analysis (n=3). Mus_MT4-5 and Mus_RU4 & 5 were used for independent validation (n=2) of the the primary analysis. </p>
ScienceDex guides
Understand access before you commit
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.