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3,696 results for “Reference”
Tree species reference samples in southwest of France
<p><strong>Ground tree species reference samples located in southwest of France</strong></p> <p>1 262 tree species references from a temperate forest. Suitable for remote sensing applications.<br> 8 broadleaf species, and 5 coniferous.</p> <p>We also provide the spectral values of Formosat-2 level 2A for each one-year Satellite Image Time Series from 2006 to 2014.</p> <p>Paper related to this dataset : <a href="https://doi.org/10.3390/rs11212512">https://doi.org/10.3390/rs11212512</a></p> <p><strong>For more details, please consult the README.pdf file.</strong></p> <p> </p>
Data From: TERRA-REF, An open reference data set from high resolution genomics, phenomics, and imaging sensors
<p>The ARPA-E funded TERRA-REF project is generating open-access reference datasets for the study of plant sensing, genomics, and phenomics. Sensor data were generated by a field scanner sensing platform that captures color, thermal, hyperspectral, and active flourescence imagery as well as three dimensional structure and associated environmental measurements. This dataset is provided alongside data collected using traditional field methods in order to support calibration and validation of algorithms used to extract plot level phenotypes from these datasets.</p> <p>Data were collected at the University of Arizona Maricopa Agricultural Center in Maricopa, Arizona. <br> This site hosts a large field scanner with fifteen sensors, many of which are capable of capturing mm-scale images and point clouds at daily to weekly intervals.</p> <p>These data are intended to be re-used, and are accessible as a combination of files and databases linked by spatial, temporal, and genomic information. In addition to providing open access data, the entire computational pipeline is open source, and we enable users to access high-performance computing environments.</p> <p>The study has evaluated a sorghum diversity panel, biparental cross populations, and elite lines and hybrids from structured sorghum breeding populations. <br> In addition, a durum wheat diversity panel was grown and evaluated over three winter seasons.<br> The initial release includes derived data from from two seasons in which the sorghum diversity panel was evaluated.<br> Future releases will include data from additional seasons and locations.</p> <p>The TERRA-REF reference dataset can be used to characterize phenotype-to-genotype associations, on a genomic scale, that will enable knowledge-driven breeding and the development of higher-yielding cultivars of sorghum and wheat. <br> The data is also being used to develop new algorithms for machine learning, image analysis, genomics, and optical sensor engineering.</p>
英語版Wikipediaにおける学術文献の参照記述の初出時点データセット (Dataset of First Appears of Scholarly References on English Wikipedia)
<p>概要</p> <p>筑波大学大学院図書館情報メディア研究科に提出準備中の博士論文「Wikipediaにおける学術文献の参照記述に関する研究」の付録とする予定のデータセットです。作者は<a href="https://researchmap.jp/jir_o">吉川次郎</a>です。</p> <p>ごく簡単な説明</p> <ul> <li>博論本体の付録としてドキュメントを書きました (そのドラフトは<a href="https://www.dropbox.com/s/c8h0hkkbu2wb4jm/PhDThesis_Appendix.pdf?dl=0">こちら</a>)</li> <li>英語版Wikipedia上の学術文献の参照記述に関するデータセットです <ul> <li>dataset_doi_links はDOIリンクを対象として特定・抽出し、研究分野の紐付けを行ったものです (詳細は関連論文の1番)</li> <li>dataset_refs はdataset_doi_linksの参照記述群を対象に、誰が、いつ追加したのか? の特定を行ったものです (詳細は関連論文の2番)</li> </ul> </li> <li>いまのところ、ドキュメントは日本語のみです。英語への対応等は今後の課題です;</li> </ul> <p>関連論文</p> <ol> <li>吉川次郎; 高久雅生; 芳鐘冬樹: 「DOIリンクに基づくWikipedia上の参照記述における編集者の分析」, 情報知識学会誌, Vol. 30, No. 1, pp. 21--41, 2020. <a href="https://doi.org/10.2964/jsik_2020_004">https://doi.org/10.2964/jsik_2020_004</a></li> <li>吉川次郎; 高久雅生; 芳鐘冬樹: 「Wikipediaに学術文献の参照記述を追加する編集の特定手法」, 情報知識学会誌, Vol. 30, No. 3,2020 (全20ページ,採録決定).<a href="https://doi.org/10.2964/jsik_2020_033">https://doi.org/10.2964/jsik_2020_033</a></li> <li>吉川次郎; 高久雅生; 芳鐘冬樹: 「Wikipedia上の学術文献の参照記述の追加に関する時系列分析」(投稿中)</li> </ol>
Rare variant replaced Korea reference genome fasta
<p>The rare variants of Korea reference genome fasta were replaced with using 396 Korean vcf information</p>
A chromosome-scale reference genome and genome-wide genetic variations elucidate adaptation in yak
<p>Yak is an important livestock for the people who lived in harsh and oxygen-deprived Qinghai-Tibetan Plateau and Hindu-Kush Himalayan Mountains. Although there is a yak genome be sequenced in 2012, the assembly is quite fragmented due to the limitation of Illumina sequencing technology. An accurate and complete reference genome is critical for studying genetic variation of a specie. Long-read sequences are more complete than short-read ones, and they have been successfully used for high-quality genome assembly in several species. Here, we present a high-quality assembly of the yak genome (PB_v1.0) at chromosome scale, which was constructed using long-read sequencing technology assisted by chromatin interaction technology. Compared to the previous yak genome assembly (BosGru_v2.0), the PB_v1.0 assembly has substantially improved chromosome sequence continuity, minimized repetitive structure ambiguity, and achieved gene model completeness. To intensively characterize genetic variation of yak, we generated de novo genome assemblies based on Illumina short reads of seven recognized domestic yak breeds from Tibet and Sichuan as well as one wild yak from Hoh Xil. By comparing these eight assemblies to the PB_v1.0 genome, we obtained a comprehensive map of yak genetic diversity at whole genome level and identified a few protein-coding genes that were absent from the PB_v1.0 assembly. Although wild yak suffered bottleneck effect, the genetic diversity of wild yak is still higher than that of domestic yak. By whole genome alignment, we identified breed-specific sequences and genes, this will help the breeds identification of yak.</p>
Data set with reference scenarios
<p>Data set with reference scenarios. As it is not possible to include the entire dataset in this report, we only include two Tables on final energy demand. Table 1 shows the Final Energy Demand projections per industrial subsector and EU28 country in the Reference Scenario and Table 2 the Final Energy Demand projections per industrial subsector and EU28 country in the Frozen Efficiency Scenario. The full dataset, including physical production (in ktonnes) and fuel and electricity demand (in TJ) per industrial sub-sector, per fuel type and per EU 28 country is available upon request to the project coordinator.</p>
Data set on Energy Efficiency potentials on top of reference scenarios
<p>As it is not possible to include the entire dataset in this report, we only include the Energy Efficiency potentials for Austria. The full dataset, showing the savings potentials for all EU27 (and UK) countries, is available upon request to the project coordinator.</p>
References to Earthquakes in VOC Archives
<p>This csv-file contains references to 172 earthquakes or similar events in the VOC-archives dating from 1674 to 1786. These events mostly occured in the former Dutch East Indies. The data is gathered from automatic transcriptions (Transkribus platform) from the scans of the VOC archives: https://www.nationaalarchief.nl/onderzoeken/archief/1.04.02/invnr/%40Deel%20I?query=1.04.02&search-type=inventory</p> <p>The csv file has the following columns:</p> <ul> <li>File name of online scan</li> <li>Year</li> <li>Date</li> <li>location</li> <li>Damage</li> <li>Additional information</li> </ul> <p> </p> <p> </p>
Neurogenomic divergence during speciation by reinforcement of mating behaviors in chorus frogs (Pseudacris) – De novo reference transcriptome raw data, contigs and gene annotations
<p>RNA-Seq raw data used in the assembly and annotation of a reference transcriptome for the Upland Chorus Frog, <em>Pseudacris feriarum</em>. Raw data were obtained by sequencing of four tissue types: Brain, eyes, testis, and somatic. Assembled contigs (Trinity) and gene annotations (Trinotate) are also provided.</p>
Dataset for "Study on Reference Frames and Geographic Scale"
<p>The analysis code was written in RStudio.</p> <p>The user data folder contains six .csv flies:</p> <ul> <li>Separate_pointing_errors.csv: participants' performance in the onsite pointing task</li> <li>Pre-Questionnaire.csv: participants' responses to the pre-questionnaire</li> <li>Post_Questionnaire.csv: participants' responses to the post-questionnaire</li> <li>Reference_frame_preference.csv: categorizing participants based on their reference frame proclivities</li> <li>LookingDirection_seperate.csv: participants' looking directions during maze learning</li> <li>Separate_time_data.csv: participants' time spent at each location in the virtual maze</li> </ul> <p> </p>
Data from: Hare pseudo-reference genome from: the genomic impact of historical hybridization with massive mitochondrial DNA introgression
<p><b>Background:</b> The extent to which selection determines interspecific patterns of genetic exchanges enlightens the role of adaptation in evolution and speciation. Often reported extensive interspecific introgression could be selection-driven, but also result from demographic processes, especially in cases of invasive species replacements, which can promote introgression at their front. Because invasion and selective sweeps similarly mold variation, population genetics evidence for selection can only be gathered in an explicit demographic framework. The Iberian hare, <i>Lepus granatensis</i>, displays in its northern range extensive mitochondrial DNA introgression from <i>L. timidus</i>, an arctic/boreal species that it replaced locally after the last glacial maximum. We use whole-genome sequencing to infer geographic and genomic patterns of nuclear introgression and fit a neutral model of species replacement with hybridization, allowing us to evaluate how selection influenced introgression genome-wide, including for mtDNA.</p> <p><b>Results:</b> Although the average nuclear and mtDNA introgression patterns are strongly contrasted, they fit a single neutral model of post-glacial invasive replacement of <i>timidus</i> by <i>granatensis</i>. Outliers of elevated introgression include several genes related to immunity, spermatogenesis, and mitochondrial metabolism. Introgression is reduced on the X-chromosome and in low recombining regions.</p> <p><b>Conclusion:</b> General nuclear and mtDNA patterns of introgression can be explained by purely demographic processes. Hybrid incompatibilities and interplay between selection and recombination locally modulate levels of nuclear introgression. Selection promoted introgression of some genes involved in conflicts, either interspecific (parasites) or possibly cytonuclear. In the latter case, nuclear introgression could mitigate the potential negative effects of alien mtDNA on mitochondrial metabolism and male-specific traits.</p>
Data from: Diversity and evolution of the transposable element repertoire in arthropods with particular reference to insects
Background: Transposable elements (TEs) are a major component of metazoan genomes and are associated with a variety of mechanisms that shape genome architecture and evolution. Despite the ever-growing number of insect genomes sequenced to date, our understanding of the diversity and evolution of insect TEs remains poor. Results: Here, we present a standardized characterization and an order-level comparison of arthropod TE repertoires, encompassing 62 insect and 11 outgroup species. The insect TE repertoire contains TEs of almost every class previously described, and in some cases even TEs previously reported only from vertebrates and plants. Additionally, we identified a large fraction of unclassifiable TEs. We found high variation in TE content, ranging from less than 6 % in the antarctic midge (Diptera), the honey bee and the turnip sawfly (Hymenoptera) to more than 58 % in the malaria mosquito (Diptera) and the migratory locust (Orthoptera), and a possible relationship between the content and diversity of TEs and the genome size. Conclusion: While most insect orders exhibit a characteristic TE composition, we also observed intraordinal differences, e.g., in Diptera, Hymenoptera, and Hemiptera. Our findings shed light on common patterns and reveal lineage-specific differences in content and evolution of TEs in insects. We anticipate our study to provide the basis for future comparative research on the insect TE repertoire.
Community composition and photosynthetic physiology of phytoplankton in the western subarctic Pacific near the Kuril Islands with special reference to iron availability
<p class="Abstract">The western subarctic Pacific (WSP) is known as one of the most productive regions among the world's oceans in spring. However, its oceanic waters are also known as a High Nutrient, Low Chlorophyll (HNLC) region during summer due to low iron (Fe) availability in seawater. Indeed, recent studies have demonstrated that the distribution of Fe in the WSP is complex and heterogeneous. This study thus investigated the effects of Fe availability on the community composition and photophysiology of surface phytoplankton from coastal to offshore waters in the WSP in the summer of 2014. Although relatively high concentrations (>2 mg m<sup>–3</sup>) of chlorophyll (chl) <i>a</i> were found in the Sea of Okhotsk and some coastal waters, low chl <i>a</i> concentrations (<1 mg m<sup>–3</sup>) were commonly observed. Based on dissolved Fe and macronutrient concentrations, we deduced that low Fe availability limited phytoplankton growth in offshore waters, whereas low silicate and/or nitrate levels limited growth in the shelf areas. Scanning electron microscopy also revealed that the centric diatom <i>Chaetoceros</i> exclusively dominated the diatom assemblages in the shelf<i> </i>and coexisted with pennate diatoms in offshore waters, respectively<i>.</i> Primary productivity in surface waters was negatively correlated with the bottom of the euphotic layer or the light saturation index of the photosynthesis–irradiance curve, which indicates that the phytoplankton assemblages were well acclimated to <i>in situ</i> light conditions regardless of the water masses.</p>
Cetacean? Tooth Block - quick scan for reference
A concretion containing a number of possibly cetacean teeth. The line on top is 5cm. Source: Objaverse 1.0 / Sketchfab
ArXiv reference data from Paperscape
<p>This dataset contains reference data for the arXiv online repository of scientific papers (http://arxiv.org) as extracted by the Paperscape project (http://paperscape.org). It spans from the beginning of the arXiv (1991) to the end of 2013.</p> <p>The file format is CSV i.e. one line per entry, with 7 fields separated by semicolons:</p> <p>arxiv-id;comma-separated-arxiv-categories;num-found-refs;num-total-refs;comma-separated-refs;comma-separated-authors;title</p> <p>If you use this data please give credit to Damien P. George and Rob Knegjens, Paperscape, and link to the DOI:10.5281/zenodo.10052.</p>
NanoPUZZLES list of evaluated references: Zenodo copy
<p>*If any corrections are required to this file, the latest version can be accessed via figshare.com: https://figshare.com/articles/NanoPUZZLES_list_of_evaluated_references/2015466*</p> <p>This file is a ZIP archive which contains a spreadsheet of evaluated references prepared within the NanoPUZZLES EU project [http://www.nanopuzzles.eu], along with a README file documenting this spreadsheet.</p> <p>Disclaimers:</p> <p>(1) this work has not undergone peer review</p> <p>(2) no endorsement by third parties should be inferred</p> <p>(3) *You are strongly advised to read the "Important Caveats" section of the README file.*</p> <p>In light of these key caveats, the annotations in this spreadsheet should only be taken to be indicative of the (meta)data availability corresponding to a given reference.</p> <p>The research leading to these results has received funding from the European Union Seventh Framework Programme (FP7/ 2007-2013) under grant agreement no. 309837 (NanoPUZZLES project).</p> <p> </p>
SARWIND LG-Mod (v4.01) output data with reference to the Sentinel-1A (2014/12/07, Camargue), EW, GRD, MR, VV-polarized, descending orbit, SNAP pre-processed data (+ the additional SKYRON reference wind)
<p>A zipped folder containing SARWIND LG-Mod (v4.01) output data obtained by processing the Sentinel-1A (2014/12/07, Camargue), EW, GRD, MR, VV-polarized, descending orbit, SNAP pre-processed data (+ the additional SKYRON reference wind).</p> <p>Pre-processed data derived from the Sentinel-1 SAR image have been obtained by using the Sentinel Application Platform (SNAP), ver. 3.0.3, distributed by the European Space Agency (ESA). The reference wind components have been provided by the Numerical Weather Model (NWM) SKYRON.</p> <p>These Earth Observation (EO) data have been used as inputs to the SARWIND LGMod algorithm, ver. 4.01, developed by Rana Fabio Michele (2014-2016) for the sea surface wind field retrieval.</p> <p>The available Sentinel-1, Extra Wide Swath Mode, Ground Range, Multi-look, Detected, Medium Resolution, Vertical polarisation on transmit, Vertical polarisation on receive, Descending orbit, C-band SAR image, has been acquired on the 7th Dec 2014, 05:51:54.</p>
Sentinel-1A (2014/12/07, Camargue), EW, GRD, MR, VV-polarized, descending orbit, SNAP pre-processed data (+ additional SKYRON reference wind) for SARWIND LG-Mod (v4.01)
<p>A zipped folder containing pre-processed data from a Sentinel-1 SAR image by using the Sentinel Application Platform (SNAP), ver. 3.0.3, distributed by the European Space Agency (ESA). The reference wind components provided by the Numerical Weather Model (NWM) SKYRON is also added in the folder.</p> <p>These Earth Observation (EO) data can be used as inputs to the SARWIND LGMod algorithm, ver. 4.01, developed by Rana Fabio Michele (2014-2016), with the aim at retrieving the sea surface wind field by exploiting the single co-polarized Sentinel-1 image available.</p> <p>In particular, the latter is the Sentinel-1, Extra Wide Swath Mode, Ground Range, Multi-look, Detected, Medium Resolution, Vertical polarisation on transmit, Vertical polarisation on receive, Descending orbit, C-band SAR image, acquired on the 7th Dec 2014, 05:51:54</p>
Sentinel-1A (2014/12/31, Camargue), EW, GRD, MR, VV-polarized, descending orbit, SNAP pre-processed data (+ additional SKYRON reference wind) for SARWIND LG-Mod (v4.01)
<p>A zipped folder containing pre-processed data from a Sentinel-1 SAR image by using the Sentinel Application Platform (SNAP), ver. 3.0.3, distributed by the European Space Agency (ESA). The reference wind components provided by the Numerical Weather Model (NWM) SKYRON is also added in the folder.</p> <p>These Earth Observation (EO) data can be used as inputs to the SARWIND LGMod algorithm, ver. 4.01, developed by Rana Fabio Michele (2014-2016), with the aim at retrieving the sea surface wind field by exploiting the single co-polarized Sentinel-1 image available.</p> <p>In particular, the latter is the Sentinel-1, Extra Wide Swath Mode, Ground Range, Multi-look, Detected, Medium Resolution, Vertical polarisation on transmit, Vertical polarisation on receive, Descending orbit, C-band SAR image, acquired on the 31st Dec 2014, 05:51:53.</p>
SARWIND LG-Mod (v4.01) output data with reference to the Sentinel-1A (2014/12/31, Camargue), EW, GRD, MR, VV-polarized, descending orbit, SNAP pre-processed data (+ the additional SKYRON reference wind)
<p>A zipped folder containing SARWIND LG-Mod (v4.01) output data obtained by processing the Sentinel-1A (2014/12/31, Camargue), EW, GRD, MR, VV-polarized, descending orbit, SNAP pre-processed data (+ the additional SKYRON reference wind).</p> <p>Pre-processed data derived from the Sentinel-1 SAR image have been obtained by using the Sentinel Application Platform (SNAP), ver. 3.0.3, distributed by the European Space Agency (ESA). The reference wind components have been provided by the Numerical Weather Model (NWM) SKYRON.</p> <p>These Earth Observation (EO) data have been used as inputs to the SARWIND LGMod algorithm, ver. 4.01, developed by Rana Fabio Michele (2014-2016) for the sea surface wind field retrieval.</p> <p>The available Sentinel-1, Extra Wide Swath Mode, Ground Range, Multi-look, Detected, Medium Resolution, Vertical polarisation on transmit, Vertical polarisation on receive, Descending orbit, C-band SAR image, has been acquired on the 31st Dec 2014, 05:51:53.</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.