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3,101 results for “tables”
Supplemental Tables that will be submitted with Hydrothermal Seepage of Altered Crustal Formation Water Seaward of the Middle America Trench, Offshore Costa Rica
<p>This spreadsheet will be submitted to JGR Solid Earth with a manuscrpt titled "Hydrothermal Seepage of Altered Crustal Formation Water Seaward of the Middle America Trench, Offshore Costa Rica" by Parsons et al. Keywords include Ridge flank, hydrothermal, Middle American Trench, hydrogeology, formation water, and pore water. Three short highlights include:</p> <p>Pore water chemical profiles reveal sediment diagenesis and seepage speeds up to 1.7 cm yr<sup>-1</sup> resulting in a net flux of 0.1 L s<sup>-1</sup>.</p> <p>Crustal formation water is warm (~75ºC) and chemically altered, stemming from water-basalt reactions and diffusive exchange with pore water.</p> <p>This ridge-flank hydrothermal system is not hydrologically connected to the ventilated crust to the west or the trench to the east.</p>
Supplementary tables master's thesis Carolin Mattausch 2023
<p>These table contain information about ChIP-seq files from different sources used in Carolin Mattausch's master's thesis "Integration of transcriptome and epigenome for comparative analysis of various chondrocyte subtypes" conducted November 2022 to June 2023 in the Department of Developmental Biology at the Center of Medical Biotechnology, University Duisburg-Essen, under the supervision of Prof. Dr. Andrea Vortkamp, Dr. Manuela Wuelling, and Christoph Neu.</p> <p><strong>Supplementary table 4</strong>: Metadata, experiment, and file accession numbers for ChIP-seq files downloaded from <a href="https://www.encodeproject.org/">ENCODE</a>. These files were used in in comparison of H3K27me3 level between different murine and human tissues.</p> <p><strong>Supplementary table 5</strong>: Metadata, experiment, and file accession numbers for ChIP-seq files downloaded from <a href="https://egg2.wustl.edu/roadmap/web_portal/">Roadmap</a>. These files were used in in comparison of H3K27me3 level between different murine and human tissues.</p> <p><strong>Supplementary table 6</strong>: Metadata, experiment, and file accession numbers for ChIP-seq files downloaded from <a href="https://www.ncbi.nlm.nih.gov/geo/">Gene Expression Omnibus</a>. These files were used in in comparison of H3K27me3 level between different murine and human tissues.</p>
Main and extended tables for the 207-word Swadesh list of Early Sranan and Modern Sranan with parts of speech, semantic categories, source languages and semantic and lexical changes
<p>The dataset was made for the purposes of the author's master thesis, titled <a href="https://repozitorij.uni-lj.si/Dokument.php?id=170462&lang=slv">"Socio-Cultural Motivations for the Acquisition of Lexical Items in Sranan Tongo’s Core Vocabulary"</a>. The dataset includes two worksheets. The first is titled "Main table", and it includes all the data, where each Swadesh gloss (1 to 207) is assigned one ID (No., first column), even if there are multiple Modern Sranan (MSr) equivalents. The second worksheet, titled "Extended table", includes additional IDs (No., first column) by hyphenating, so that each MSr equivalent has its separate ID number (e. g. gloss numbered 2 has 3 MSr equivalents, so these are now numbered 2-1, 2-2, and 2-3, respectively). <br> This allowed the author to also make a clearer distinction according to source languages, as the MSr equivalents for the same gloss sometimes come from different source languages. More about the methodology of the tables and their importance for the research is available in the thesis, available <a href="https://repozitorij.uni-lj.si/Dokument.php?id=170462&lang=slv">at this link</a>. </p>
Figure 5. BEAST chronogram from a data set corresponding with Table 1 in Verifying Australian Nilotanypus Kieffer (Chironomidae) In A Global Perspective: Molecular Phylogenetic And Temporal Analyses, New Species And Emended Generic Diagnoses
Figure 5. BEAST chronogram from a data set corresponding with Table 1. Values at nodes are time to most recent common ancestor (tmrca) with HPD (95% Highest Posterior Density) intervals in parentheses. The time scale is in millions of years before present.
Supplementary tables for: Dependent variable selection in phylogenetic generalized least squares regression analysis under Pagel's lambda model
<p class="MsoNormal"><span>Phylogenetic generalized least squares (PGLS) regression is widely used to detect evolutionary correlations. In contrast to the equal treatment of analyzed traits in conventional correlation methods such as Pearson and Spearman's rank tests, we must designate one trait as the independent variable and the other as the dependent variable. However, in our PGLS regression analyses (using Pagel's <em>λ</em> model) of both empirical and simulated datasets, switching independent and dependent variables yielded many conflicting results. A serious problem with PGLS regression that has not been noticed before is that selecting an inappropriate trait as the dependent variable will often result in an error. To assess correlations in simulated data, we established a gold standard by analyzing changes in traits along phylogenetic branches. Next, we tested seven potential criteria for dependent variable selection: log-likelihood, Akaike information criterion, <em>R</em><sup>2</sup>, <em>p</em>-value, Pagel's <em>λ</em>, Blomberg et al.'s <em>K</em>, and the estimated <em>λ</em> in <a name="_Hlk136010442"></a>Pagel's <em>λ</em> model. We determined that the last three criteria performed equally well in selecting the dependent variable and were superior to the other four. For practicality, we suggest using the trait with a higher <em>λ</em></span><span> or <em>K</em> </span><span>value as the dependent variable in future PGLS regressions. In analyzing the evolutionary relationship between two traits, we should designate the trait with a stronger phylogenetic signal as the dependent variable even if it could logically assume the cause in the relationship.</span></p>
Three Thousand Dishes on a Georgian Table, 1788-1813 - Dataset
<p>This dataset makes accessible the uniquely comprehensive dining records of King George III, Queen Charlotte, the Prince Regent, and their households during the declining years of the King (1788-1813). It includes a transcription and structuring of two volumes that outline day-by-day what members of the royal households were fed at each meal. It includes details of more than 40,000 plates of food from over 3,000 distinct recipes, recorded by the kitchen staff as part of their financial accountability, but offering historians a rich glimpse into the culture and consumption of two royal palaces, as well as the rich multicultural influences on eighteenth century cooking.</p> <p>The dataset includes a spreadsheet of all dishes, and an accompanying appendix that outlines our methodology and some suggestions for using the material effectively.</p> <p>Additional context and information about the records is available in: Adam Crymble; Sarah Fox; Rachel Rich; Lisa Smith, ‘Three Thousand Dishes on a Georgian Table: The Data of Royal Eating in England, 1788-1813’, <em>Food & History</em>, vol 21, no 2 (2023).</p> <p><strong>License</strong></p> <p><strong> </strong></p> <p>We release the following documents under a creative commons ‘CC-BY 4.0’ license</p> <p>● Appendices</p> <p>● Three Thousand Dishes on a Georgian Table - Dataset, Version 1.0 (.xlsx file)<strong> </strong></p> <p> </p> <p>© Images of the 'Kew Ledger' reproduced by permission of The National Archives, London, England. These images are NOT released under a CC license. Until 2027, copies of the 'Kew Ledger' images can be found at https://www.migrants.adamcrymble.org/menus/, after which our license to share them will expire. The National Archives give no warranty as to the accuracy, completeness or fitness for the purpose of the information provided. Images may be used only for purposes of research, private study or education. Applications for any other use should be made to <a href="http://www.nationalarchives.gov.uk/imagelibrary/">The National Archives Image Library</a>, Kew, Richmond, Surrey TW9 4DU, Tel: 020 8392 5225 Fax: 020 8392 5266.</p> <p>Images of the menu book of the Prince Regent are available via the Royal Archives 'Georgian Papers' website: https://gpp.rct.uk/Record.aspx?src=CalmView.Catalog&id=GEO_MENUS%2f1.</p> <p><strong>Citation</strong></p> <p>Anyone publishing academically or commercially based on research conducted with this dataset in whole or in part is asked to credit the authors with the following citation:</p> <ul> <li><strong>Adam Crymble; Sarah Fox; Rachel Rich; Lisa Smith, ‘Three Thousand Dishes on a Georgian Table: The Data of Royal Eating in England, 1788-1813’, <em>Food & History</em>, vol 21, no. 2 (2023).</strong></li> </ul> <p>This dataset is provided as-is. Anyone conducting research or making use of the dataset for any purpose whatsoever is encouraged to use their own judgment when deciding whether or not to accept the interpretations of the authors.</p> <p>Data creation occurred between 2015 and 2023.</p> <p>These data were compiled with the financial support of the British Academy "Tackling the UK’s International Challenges Programme 2019" (IC4/100235) and of the School of Cultural Studies and Humanities, Leeds Beckett University.</p> <p>The original materials are held as the ‘Kew Ledger’ at the National Archives in the United Kingdom:</p> <ul> <li>‘Kew Ledger’ The National Archives (TNA), LS/9/226.</li> </ul> <p>The original materials are held as the ‘Menu Book for the Prince Regent and his Household, principally relating to Carlton House, 1812-1813’ at the Royal Archives in the United Kingdom:</p> <ul> <li>‘Menu book for the Prince Regent and his Household, principally relating to Carlton House’ The Royal Archives, MRH/MRHF/MENUS/MAIN/MIXED/1.</li> </ul> <p> </p>
Data and code for "Turning tables: food availability shapes dynamic aggressive behaviour among asynchronously hatching siblings in red kites Milvus milvus"
<p><strong>Abstract</strong></p> <p>Aggression represents the backbone of dominance acquisition in several animal societies, where the decision to interact is dictated by its relative cost. Among siblings, such costs are weighted in the light of inclusive fitness, but how this translates to aggression patterns in response to changing external and internal conditions remains unclear. Using a null-model-based approach, we investigate how day-to-day changes in food provisioning affect aggression networks and food allocation in growing red kite (<em>Milvus milvus</em>) nestlings, whose dominance rank is largely dictated by age. We show that older siblings, irrespective of age, change from targeting only close-aged peers (close-competitor pattern) when food provisioning is low, to uniformly attacking all other peers (downward heuristic pattern) as food conditions improve. While food allocation was generally skewed towards the older siblings, the youngest sibling in the nest increased its probability of accessing food as more was provisioned and as downward heuristic patterns became more prominent, suggesting that different aggression patterns allow for catch-up growth after periods of low food. Our results indicate that dynamic aggression patterns within the nest modulate environmental effects on juvenile development by influencing the process of dominance acquisition and potentially impacting the fledging body condition, with far-reaching fitness consequences.</p>
GO Tables from/for: Oligogalactolipid production during cold challenge is conserved in early diverging lineages
<p>Severe cold, defined as a damaging cold beyond acclimation temperatures, has unique responses, but the signaling and evolution of these responses are not well understood. Production of oligogalactolipids, which is triggered by cytosolic acidification in Arabidopsis (<em>Arabidopsis</em> <em>thaliana</em>), contributes to survival in severe cold. Here, we investigated oligogalactolipid production in species from bryophytes to angiosperms. Production of oligogalactolipids differed within each clade, suggesting multiple evolutionary origins of severe cold tolerance. We also observed greater oligogalactolipid production in control samples instead of temperature-challenged samples of some species. Further examination of representative species revealed a tight association between temperature, damage, and oligogalactolipid production that scaled with the cold tolerance of each species. Based on oligogalactolipid production and transcript changes, multiple species share a signal of oligogalactolipid production initially described in Arabidopsis, cytosolic acidification. Together, these data suggest that oligogalactolipid production is a severe cold response that originated from an ancestral damage response that remains in many land plant lineages and that cytosolic acidification is a common signaling mechanism for its activation. </p>
Supplementary Tables - Re-analysis of hepatitis B virus integration sites reveals potential new loci associated with oncogenesis in hepatocellular carcinoma
<p>------------------------------------------------------------</p> <p><strong>Supplementary Tables</strong></p> <p>supplementary_table.xlsx</p> <ul> <li>T2T-CHM13_human</li> <li>T2T-CHM13_hbv</li> <li>GRCh38_human</li> <li>GRCh38_hbv</li> <li>GRCh_human_annotation</li> <li>meta</li> </ul> <p>------------------------------------------------------------</p> <p><strong>Re-analysis of hepatitis B virus integration sites reveals potential new loci associated with oncogenesis in hepatocellular carcinoma</strong><br> <a href="https://doi.org/10.5501/wjv.v12.i3.209">https://doi.org/10.5501/wjv.v12.i3.209</a></p><br> <p><strong>BACKGROUND</strong></p> <p>Hepatitis B virus (HBV) is a major cause of hepatocellular carcinoma (HCC). HBV DNA can get integrated into the hepatocyte genome to promote carcinogenesis. However, the precise mechanism by which the integrated HBV genome promotes HCC has not been elucidated.</p> <p><strong>AIM</strong></p> <p>To analyze the features of HBV integration in HCC using a new reference database and integration detection method.</p> <p><strong>METHODS</strong></p> <p>Published data, consisting of 426 Liver tumor samples and 426 paired adjacent non-tumor samples, were re-analyzed to identify the integration sites. Genome Reference Consortium Human Build 38 (GRCh38) and Telomere-to-Telomere Consortium CHM13 (T2T-CHM13 (v2.0)) were used as the human reference genomes. In contrast, human genome 19 (hg19) was used in the original study. In addition, GRIDSS VIRUSBreakend was used to detect HBV integration sites, whereas high-throughput viral integration detection (HIVID) was applied in the original study (HIVID-hg19).</p> <p><strong>RESULTS</strong></p> <p>A total of 5361 integration sites were detected using T2T-CHM13. In the tumor samples, integration hotspots in the cancer driver genes, such as TERT and KMT2B, were consistent with those in the original study. GRIDSS VIRUSBreakend detected integrations in more samples than by HIVID-hg19. Enrichment of integration was observed at chromosome 11q13.3, including the CCND1 pro-moter, in tumor samples. Recurrent integration sites were observed in mitochondrial genes.</p> <p><strong>CONCLUSION</strong></p> <p>GRIDSS VIRUSBreakend using T2T-CHM13 is accurate and sensitive in detecting HBV integration. Re-analysis provides new insights into the regions of HBV integration and their potential roles in HCC development.</p>
Twenty years of Salix height in response to experimental manipulation of browsing and water table, northern range of Yellowstone National Park
<p>This respository contains multiple datasets collected during a 20 year investigation of the responses of willow (<em>Salix </em>spp.) communities in Yellowstone National Park after the restoration of large carnivores. The study sought to understand whether the restoration of wolves to the food web cause a change in the state of willow communities that occured while wolves were absent. Each dataset has a corresonding file of metadata. </p>
Full Table 2
<p>The <i>full Table 2</i> dataset presents the full list of those asigmatic forms that we considered not to be false positives in the article Korkiakangas, Timo & Alho, Tommi, "Asigmatic non-standard plurals in 8th- and 9th-century Tuscian charters?", to be published in <i>Varietate delectamur</i>: Multifarious Approaches to Synchronic and Diachronic Variation in Latin - Selected Papers from the 14th International Colloquium on Late and Vulgar Latin (Ghent, 2022), Turnhout: Brepols.</p>
Kinematic Evolution of the Tangra Yumco Rift, South-Central Tibet: Supplementary Data Tables
<h4>We investigate rifting during continental collision in southern Tibet by testing kinematic models for two classes of rifts: Tibetan rifts are defined as >150 km in length and crosscut the Lhasa Terrane, and Gangdese rifts are <150 km long and isolated within the high topography of the Gangdese Range. Discerning rift kinematics is a crucial step towards understanding rift behavior and evolution that has been historically limited. We evaluate spatiotemporal trends in fault displacement and extension onset in the Tangra Yumco (TYC) rift and several nearby Gangdese rifts, and examine how contraction and rift exhumation relate to evolution of the Gangdese drainage divide. Igneous U-Pb and zircon (U-Th)/He (ZHe) results indicate rift footwall crystallization between ~59-49 Ma and cooling between ~60-4 Ma, respectively, with ZHe ages correlating with sample latitude. Samples from Gangdese latitudes (~29.4-29.8°N) yield predominantly Oligocene-early Miocene ages, whereas samples north of ~29.8°N yield both late Miocene-Pliocene ages and Paleocene-Eocene ages. Thermal history models indicate two-stage cooling, with initially slow cooling followed by accelerated cooling during late Miocene-Pliocene time. From spatial distributions of ZHe ages we interpret: (1) ~28-16 Ma ages from Gangdese latitudes reflect exhumation along contractional structures, (2) ~8-4 Ma ages reflect rift-related exhumation, and (3) ~60-48 Ma ages indicate these samples experienced lesser rift exhumation. Our data are consistent with a segment linkage evolution model for the TYC rift, withinteractions between rifts and contractional structures likely influencing the evolution of topography and location of the Gangdese drainage divide since Miocene time.</h4>
TTSwing: Table Tennis Swing and racket kinematics analysis
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Extended data tables to Haering and Habermann, F1000Res, RNfuzzyApp: an R shiny RNA-seq data analysis app for visualisation, differential expression analysis, time-series clustering and enrichment analysis
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Annual plant competition experiment results and associated mycobiome ASV tables
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Supplementary tables for: Dependent variable selection in phylogenetic generalized least squares regression analysis under Pagel’s lambda model
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Data and code for: Nonlinear life table response analysis: Decomposing nonlinear and nonadditive population growth responses to changes in environmental drivers
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A simplified method for comprehensive capture of the Staphylococcus aureus proteome: S. aureus proteome data table
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Twenty years of Salix height in response to experimental manipulation of browsing and water table, northern range of Yellowstone National Park
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GO Tables from/for: Oligogalactolipid production during cold challenge is conserved in early diverging lineages
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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.