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SBE Seedling Matrix Plot Dataset
<div> <h2>Description</h2> <p>This dataset covers a network of stations placed across the south block of the Sabah Biodiversity Experiment (SBE). Two stations were placed in 54 of the SBE plots spanning the range of monocultures, 4-species mixtures, 16-species mixtures and non-planted controls. The stations are a group of three plots placed in a T-formation between the planting lines of the SBE. Each plot in the station are 1 x 1 m where all seedlings were measured for height, diameter at base (5 cm above the soil) and diameter at breast height (1.3 m, if the seedling had sufficient height). Seedlings were identified to species or genus if possible. </p> <h2>Data Access</h2> <p>The dataset is only available upon the approval of Dr. Michael O'Brien (mikey.j.obrien@gmail.com) and Dr. David Burslem (d.burslem@abdn.ac.uk) under the expectation that all authors mentioned here are included as co-authors on any publications that use this dataset.</p> <h2>Notes for users</h2> <p>1. All diameter units are measured in millimeters (mm). We apologize for the wrong units (<em>i.e.</em>, cm) shown in the dataset.</p> <h2>Funding</h2> <p>These data were collected as part of research funded by:</p> <ul> <li>UK Natural Environment Research Council (Standard grant , NE/X000281/1 )</li> <li>Agencia Estatal de Investigación de España; Ramon y Cajal (Standard grant , RYC2021-032049-I )</li> </ul> <p> </p> <p>This dataset is released under the CC-BY 4.0 licence, requiring that you cite the dataset in any outputs, but has the additional condition that you acknowledge the contribution of these funders in any outputs.</p> <h2>Files</h2> <p>This dataset consists of 1 file: SBE_seedling_matrix_data.xlsx</p> <h2>SBE_seedling_matrix_data.xlsx</h2> <p>This file contains dataset metadata and 1 data tables:</p> <h3>SBE Seedling Matrix Plot Dataset</h3> <ul> <li>Worksheet: SBE_seedling_matrix_data</li> <li>Description: This dataset covers a network of stations placed across the south block of the Sabah Biodiversity Experiment (SBE) in July 2024. Two stations were placed ineach of 54 of the SBE plots spanning the range of monocultures, 4-species mixtures, 16-species mixtures (both line and enhanced climber removal) and non-planted controls. The stations are a group of three plots placed in a T-formation between the planting lines of the SBE. Each plot in the station are 1 x 1 m where all seedlings were measured for height, diameter at base (5 cm above the soil) and diameter at breast height (1.3 m, if the seedling had sufficient height). Seedlings were identified to species or genus if possible.</li> <li>Number of fields: 16</li> <li>Number of data rows: 1122</li> <ul> <li>SBE_plot: Plot number of SBE (type: replicate)</li> <li>station: Station number (type: replicate)</li> <li>plot: Plot number of seedling matrix (type: replicate)</li> <li>tag: Tag number of seedling (type: replicate)</li> <li>location: Location used to compare against the gazetteer (type: location)</li> <li>survey_date: Date of survey (type: date)</li> <li>spp_code: Species naming code (type: categorical)</li> <li>genus: Genus of the seedling being measured (type: categorical)</li> <li>species: Species of the seedling being measured (type: categorical)</li> <li>genus_species: The genus and species of seedling combined (type: taxa)</li> <li>survival: Did the seedling survive when measurements were being taken? (type: categorical)</li> <li>height: Measure to the tip of leader shoot (to nearest cm) (type: numeric trait)</li> <li>diam1: Measure diameter of stem base at 5cm from the ground (in mm) (type: numeric trait)</li> <li>diam2: Same as Diam 1 but at right-angle to first measurement (in mm) (type: numeric trait)</li> <li>dbh1: Measure diameter of stem at 130cm from the ground (in mm) (type: numeric trait)</li> <li>dbh2: As with DBH 1 but at right-angle to first measurement (in mm) (type: numeric trait)</li> </ul> </ul> <h2>Extents</h2> <ul> <li>Date range: 2024-07-15 to 2024-08-07</li> <li>Latitudinal extent: 5.07° to 5.09°</li> <li>Longitudinal extent: 117.64° to 117.67°</li> </ul> <h2>Taxonomic coverage</h2> <p>This dataset contains data associated with taxa and these have been validated against appropriate taxonomic authority databases.</p> <h3>GBIF taxa details</h3> <p>The following taxa were validated against the GBIF backbone dataset (version 2023-08-28). If a dataset uses a synonym, the accepted usage is shown followed by the dataset usage in brackets. Taxa that cannot be validated, including new species and other unknown taxa, morphospecies, functional groups and taxonomic levels not used in the GBIF backbone are shown in square brackets.</p> <div> - Plantae<br> -  - Tracheophyta<br> -  -  - Magnoliopsida<br> -  -  -  - Cornales<br> -  -  -  -  - Cornaceae<br> -  -  -  -  -  - <em>Alangium</em><br> -  -  -  -  -  -  - <em>Alangium javanicum</em><br> -  -  -  - Dilleniales<br> -  -  -  -  - Dilleniaceae<br> -  -  -  -  -  - <em>Dillenia</em><br> -  -  -  -  -  -  - <em>Dillenia excelsa</em><br> -  -  -  - Ericales<br> -  -  -  -  - Actinidiaceae<br> -  -  -  -  -  - <em>Saurauia</em><br> -  -  -  -  - Ebenaceae<br> -  -  -  -  -  - <em>Diospyros</em><br> -  -  -  -  - Lecythidaceae<br> -  -  -  -  -  - <em>Barringtonia</em><br> -  -  -  -  -  -  - <em>Barringtonia macrostachya</em><br> -  -  -  -  - Primulaceae<br> -  -  -  -  -  - <em>Ardisia</em><br> -  -  -  -  -  -  - <em>Ardisia macrocarpa</em><br> -  -  -  - Fabales<br> -  -  -  -  - Fabaceae<br> -  -  -  -  -  - <em>Fordia</em><br> -  -  -  -  -  -  - <em>Fordia brachybotrys</em><br> -  -  -  - Gentianales<br> -  -  -  -  - Gentianaceae<br> -  -  -  -  -  - <em>Fagraea</em><br> -  -  -  -  -  - <em>Utania</em><br> -  -  -  -  -  -  - <em>Utania cuspidata</em> (as synonym: <em>Fagraea cuspidata</em>)<br> -  -  -  -  - Rubiaceae<br> -  -  -  -  -  - <em>Ixora</em><br> -  -  -  -  -  -  - <em>Ixora blumei</em><br> -  -  -  -  -  - <em>Urophyllum</em><br> -  -  -  - Laurales<br> -  -  -  -  - Lauraceae<br> -  -  -  -  -  - <em>Dehaasia</em><br> -  -  -  -  -  - <em>Eusideroxylon</em><br> -  -  -  -  -  -  - <em>Eusideroxylon zwageri</em><br> -  -  -  -  -  - <em>Litsea</em><br> -  -  -  - Magnoliales<br> -  -  -  -  - Annonaceae<br> -  -  -  -  -  - <em>Goniothalamus</em><br> -  -  -  -  -  - <em>Orophea</em><br> -  -  -  -  -  -  - <em>Orophea myriantha</em><br> -  -  -  -  -  - <em>Polyalthia</em><br> -  -  -  -  - Myristicaceae<br> -  -  -  -  -  - <em>Knema</em><br> -  -  -  - Malpighiales<br> -  -  -  -  - Achariaceae<br> -  -  -  -  -  - <em>Hydnocarpus</em><br> -  -  -  -  -  -  - <em>Hydnocarpus borneensis</em><br> -  -  -  -  - Calophyllaceae<br> -  -  -  -  -  - <em>Calophyllum</em><br> -  -  -  -  - Chrysobalanaceae<br> -  -  -  -  -  - <em>Parinari</em><br> -  -  -  -  -  -  - <em>Parinari excelsa</em><br> -  -  -  -  - Euphorbiaceae<br> -  -  -  -  -  - <em>Hancea</em><br> -  -  -  -  -  -  - <em>Hancea penangensis</em><br> -  -  -  -  -  - <em>Koilodepas</em><br> -  -  -  -  -  -  - <em>Koilodepas laevigatum</em><br> -  -  -  -  -  -  - <em>Koilodepas longifolium</em><br> -  -  -  -  -  - <em>Macaranga</em><br> -  -  -  -  -  -  - <em>Macaranga pearsonii</em><br> -  -  -  -  -  - <em>Mallotus</em><br> -  -  -  -  -  -  - <em>Mallotus miquelianus</em><br> -  -  -  -  -  - <em>Tritaxis</em><br> -  -  -  -  -  -  - <em>Tritaxis denticulata</em> (as synonym: <em>Dimorphocalyx murinus</em>)<br> -  -  -  -  - Hypericaceae<br> -  -  -  -  -  - <em>Cratoxylum</em><br> -  -  -  -  -  -  - <em>Cratoxylum cochinchinense</em><br> -  -  -  -  - Phyllanthaceae<br> -  -  -  -  -  - <em>Aporosa</em><br> -  -  -  -  -  -  - <em>Aporosa grandistipula</em><br> -  -  -  -  -  - <em>Baccaurea</em><br> -  -  -  -  -  -  - <em>Baccaurea tetrandra</em><br> -  -  -  -  -  - <em>Glochidion</em><br> -  -  -  -  -  -  - <em>Glochidion rubrum</em><br> -  -  -  - Malvales<br> -  -  -  -  - Dipterocarpaceae<br> -  -  -  -  -  - <em>Dipterocarpus</em><br> -  -  -  -  -  -  - <em>Dipterocarpus applanatus</em><br> -  -  -  -  -  - <em>Dryobalanops</em><br> -  -  -  -  -  -  - <em>Dryobalanops lanceolata</em><br> -  -  -  -  -  - <em>Hopea</em><br> -  -  -  -  -  -  - <em>Hopea ferruginea</em><br> -  -  -  -  -  -  - <em>Hopea nervosa</em><br> -  -  -  -  -  - <em>Parashorea</em><br> -  -  -  -  -  -  - <em>Parashorea malaanonan</em><br> -  -  -  -  -  -  - <em>Parashorea warburgii</em> (as synonym: <em>Parashorea tomentella</em>)<br> -  -  -  -  -  - <em>Shorea</em><br> -  -  -  -  -  -  - <em>Shorea fallax</em><br> -  -  -  -  -  -  - <em>Shorea johorensis</em><br> -  -  -  -  -  -  - <em>Shorea leprosula</em><br> -  -  -  -  -  -  - <em>Shorea parvifolia</em><br> -  -  -  -  -  -  - <em>Shorea pauciflora</em><br> -  -  -  -  -  - <em>Vatica</em><br> -  -  -  -  - Malvaceae<br> -  -  -  -  -  - <em>Brownlowia</em><br> -  -  -  -  -  -  - <em>Brownlowia peltata</em><br> -  -  -  -  -  - <em>Microcos</em><br> -  -  -  -  -  - <em>Pentace</em><br> -  -  -  -  -  -  - <em>Pentace borneensis</em> (as synonym: <em>Pentace laxiflora</em>)<br> -  -  -  -  -  - <em>Pterospermum</em><br> -  -  -  -  -  -  - <em>Pterospermum subpeltatum</em><br> -  -  -  - Myrtales<br> -  -  -  -  - Myrtaceae<br> -  -  -  -  -  - <em>Syzygium</em><br> -  -  -  -  -  -  - <em>Syzygium christmannii</em><br> -  -  -  - Rosales<br> -  -  -  -  - Moraceae<br> -  -  -  -  -  - <em>Ficus</em><br> -  -  -  -  - Rhamnaceae<br> -  -  -  -  -  - <em>Ziziphus</em><br> -  -  -  -  -  -  - <em>Ziziphus angustifolia</em><br> -  -  -  - Sapindales<br> -  -  -  -  - Anacardiaceae<br> -  -  -  -  -  - <em>Mangifera</em><br> -  -  -  -  - Burseraceae<br> -  -  -  -  -  - <em>Canarium</em><br> -  -  -  -  -  -  - <em>Canarium denticulatum</em><br> -  -  -  -  - Meliaceae<br> -  -  -  -  -  - <em>Aglaia</em><br> -  -  -  -  -  -  - <em>Aglaia silvestris</em><br> -  -  -  -  -  - <em>Chisocheton</em><br> -  -  -  -  - Sapindaceae<br> -  -  -  -  -  - <em>Dimocarpus</em><br> -  -  -  -  -  -  - <em>Dimocarpus dentatus</em><br> -  -  -  -  -  - <em>Nephelium</em><br> -  -  -  -  -  -  - <em>Nephelium ramboutan-ake</em><br> -  -  -  -  -  - <em>Paranephelium</em><br> -  -  -  -  -  -  - <em>Paranephelium xestophyllum</em><br> -  -  -  - Vitales<br> -  -  -  -  - Vitaceae<br> -  -  -  -  -  - <em>Leea</em><br> -  -  -  -  -  -  - <em>Leea aculeata</em><br> -  -  -  -  -  -  - <em>Leea indica</em></div> </div>
Dataset used in the paper "EEG SIGNAL PROCESSING IN MI-BCI APPLICATIONS WITH IMPROVED COVARIANCE MATRIX ESTIMATORS"
<pre>This material is associated with the PhD Thesis of Javier Olias (which is supervised by Sergio Cruces & Ruben Martin) and the paper: <br>J. Olias, R. Martín-Clemente, M. A. Sarmiento-Vega and S. Cruces, "EEG Signal Processing in MI-BCI Applications With Improved Covariance Matrix Estimators," in <em>IEEE Transactions on Neural Systems and Rehabilitation Engineering</em>, vol. 27, no. 5, pp. 895-904, May 2019, doi: 10.1109/TNSRE.2019.2905894.<br> </pre> <div> <div> <div> <div> <p>The paper can be downloaded in open-access format from the following websites:</p> <p>https://hdl.handle.net/11441/154861</p> </div> </div> </div> </div> <div> <div> <div>https://ieeexplore.ieee.org/document/8688582</div> </div> </div>
Video of the metadata matrix: year navigation by keyword, from webQDA.
<p>Part of the thesis of Sonia Verdugo Castro (USAL, Spain). <br> Title of the article: "The gender gap in STEM higher education studies: visualisation of literature".<br> Authors of the publication: Sonia Verdugo-Castro, Mª Cruz Sánchez-Gómez, Alicia García-Holgado, Francisco J. García-Peñalvo</p>
Small extracellular vesicles from malignant ascites of patients with advanced ovarian cancer provide insights into the dynamics of the extracellular matrix
<p>Small extracellular vesicles isolated from ascites of advanced ovarian cancer patients and assessed with a combination of imaging, proteomic profiling, and protein expression analyses.</p>
Approximation quality for matrix lnsp3937
<p>Approximation quality for matrix lnsp3937. The left y-axis refers to the approximation errors <span class="math-tex">\(e^*\)</span> divided by <span class="math-tex">\(‖A‖_F\)</span> , where <span class="math-tex">\(e^*\)</span> denotes either <span class="math-tex">\(e_{rand}\)</span> (3), <span class="math-tex">\(e_{det}\)</span> (5), or the smallest error possible by the TSVD. The right y-axis refers to the error indicators <span class="math-tex">\(E^*\)</span> divided by <span class="math-tex">\(‖A‖_F\)</span> , where <span class="math-tex">\(E^*\)</span> denotes either <span class="math-tex">\(E_{rand}\)</span> (4) or <span class="math-tex">\(E_{det}\)</span> (10). As mentioned in Section II-A2, the error<br> indicator for RandQB_EI fails in double precision floating point arithmetic for approximation qualities smaller than <span class="math-tex">\(2.1\cdot 10^{-7}\)</span>.</p>
Printing matrix for pharmacy advertising
Printing matrix for an advertisement of a pharmacy store of Jadwiga Sikorska-Klemensiewicz Zinc matrix for printing advertisements. Jadwiga Sikorska-Klemensiewicz's pharmacy in Krakow. Jadwiga Sikorska-Klemensiewicz (1871–1963) was one of the first three pharmacy students at the Faculty of Philosophy of the Jagiellonian University. She obtained a Master's Degree in Pharmacy in 1898. ID no.: KGZ 4916 Time of creation: ca. 1903 Museum: The Museum of Pharmacy at the Jagiellonian University Medical College in Kraków https://muzea.malopolska.pl/en/objects-list/1970 Digitalisation: RDW MIC, Virtual Małopolska project Source: Objaverse 1.0 / Sketchfab
Quality matrix for all possible assembly of 100 electric motor
<p>To genertaed this dataset, a surrogate model in literature (Khezri et al., 2023) was deployed to investigate the assembly conformity of 100 housings, 100 bodies, and 100 shafts with varying key dimensions. These dimensions depend on the production capability in meeting the nominal specifications. To calculate all possible assembly conformities and generate the quality matrix, the initial dimension information and surrogate model were uploaded on a private high-performance computer (HPC). The calculated conformities were then stored in a *.npy format, which is a standard binary file format in NumPy for persisting a single arbitrary NumPy array on disk. This dataset represents the quality matrix, where column {0} indicates the housing label, column {4} represents the body label, and column {7} shows the shaft label. Columns {1, 2, 3} store the dimensions {HD1, HD2, HD3} associated with each housing, columns {5, 6} store the dimensions {BD1, BD2} associated with each body, and columns {8, 9, 10} store the dimensions {SD1, SD2, SD3} related to each shaft. The final column, column {11} saves the conformity rate for each assembly at each row.</p>
Supplementary Data for Paper "Efficient Modeling of Water Adsorption in MOFs Using Interpolated Transition Matrix Monte Carlo"
<p>This dataset contains data needed to reproduce all calculations and plots published in paper "Efficient Modeling of Water Adsorption in MOFs Using Interpolated Transition Matrix Monte Carlo", B. Mazur, L. Firlej, and B. Kuchta, 2024, ACS Appl. Mater. Interfaces, DOI: 10.1021/acsami.4c02616. </p>
Chlorine Determination in Cement Paste Samples Using Laser-Induced Breakdown Spectroscopy and Non-Matching Matrix Calibration Samples – JAAS – Dataset
<p>The dataset provided contains measurements for an article in The Journal of Analytical Atomic Spectrometry (JAAS).</p>
EBAII n1 scRNAseq : TD3A raw count matrix
<ul> <li>This dataset corresponds to the <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM4861194">GSM4861194</a> sample from the <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE160135">GSE160135</a> dataset.</li> <li>Data taken from <a href="https://pubmed.ncbi.nlm.nih.gov/30187694/">Paiva et al, FEBS J. 2018</a></li> </ul>
Pairwise encoded protein identity matrix of Caprine arthritis-encephalitis virus strains
<p>Figure S1: Pairwise Env protein identity matrix of Caprine arthritis-encephalitis virus strains, Figure S2: Pairwise Gag protein identity matrix of Caprine arthritis-encephalitis virus strains, Figure S3: Pairwise Pol protein identity matrix of Caprine arthritis-encephalitis virus strains, Figure S4: Pairwise Rev protein identity matrix of Caprine arthritis-encephalitis virus strains, Figure S5: Pairwise Tat protein identity matrix of Caprine arthritis-encephalitis virus strains, Figure S6: Pairwise Vif protein identity matrix of Caprine arthritis-encephalitis virus strains, Figure S7: Analysis of the optimal <em>K</em> for the Caprine arthritis-encephalitis virus population structure, Table S1: List of Caprine arthritis arthritis-encephalitis virus strains used in the genome analysis.</p>
K-mer matrix for R-gene enrichment data of wheat Watkins diversity panel.
<p>K-mer matrix for RenSeq data of wheat lines including 300 wheat landraces from Watkins collection. The matrix is divided into 40 parts. The file “watkins_matrix_header.txt” contains the accession names and also specifies the order in which presence/absence of a k-mer is scored in the presence/absence matrix. </p>
Figure 1 from: Gandhi K, Epstein M, Koehle J, Purrington F (2011) A quarter of a century succession of epigaeic beetle assemblages in remnant habitats in an urbanized matrix (Coleoptera, Carabidae). ZooKeys 147: 667-689. https://doi.org/10.3897/zookeys.147.1954
Figure 1 - Location of study sites in Ramsey County and major cities in Minnesota, USA.
Figure 3 from: Cerretti P, Tschorsnig H, Lopresti M, Di Giovanni F (2012) MOSCHweb — a matrix-based interactive key to the genera of the Palaearctic Tachinidae (Insecta, Diptera). ZooKeys 205: 5-18. https://doi.org/10.3897/zookeys.205.3409
Figure 3 - Example of TXT export data file.
Figure 1 from: Cerretti P, Tschorsnig H, Lopresti M, Di Giovanni F (2012) MOSCHweb — a matrix-based interactive key to the genera of the Palaearctic Tachinidae (Insecta, Diptera). ZooKeys 205: 5-18. https://doi.org/10.3897/zookeys.205.3409
Figure 1 - Interactive key main page.
Figure 2 from: Cerretti P, Tschorsnig H, Lopresti M, Di Giovanni F (2012) MOSCHweb — a matrix-based interactive key to the genera of the Palaearctic Tachinidae (Insecta, Diptera). ZooKeys 205: 5-18. https://doi.org/10.3897/zookeys.205.3409
Figure 2 - Interactive image window for morphology, chaetotaxy and terminology.
Figure 1 from: Rousse P, van Noort S (2014) Afrotropical Ophioninae (Hymenoptera, Ichneumonidae): an update of Gauld and Mitchell's revision, including two new species and an interactive matrix identification key. ZooKeys 456: 59-73. https://doi.org/10.3897/zookeys.456.8140
Figure 1 - Wing venation terminology and alar indices (after Gauld and Mitchell 1978).
Initial camera matrix values for AWI CANON aerial imaging system
<p>The file contains a camera matrix in Agisoft Metashape's format that can be used as initial parameters for a multi view reconstruction of aerial sea ice images recorded with the AWI CANON 14mm wide-angle camera (sensor.awi.de ID 4430). </p>
Figure S1. Spearman correlation matrix representing the relationships of each essential trace elements between biological matrices
<p>Blue represents a positive correlation, while red represents a negative correlation. Color intensity is proportional to the correlation strength. Strikethrough values represent insignificant/negligible associations (p>0.05). FF, follicular fluid; P, plasma; U, urine.</p>
A large scale photonic matrix processor enabled by charge accumulation
<p>Integrated neuromorphic photonic circuits aim to power complex artificial neural networks (ANNs) in an energy and time efficient way by exploiting the large bandwidth and the low loss of photonic structures. However, scaling photonic circuits to match the requirements of modern ANNs still remains challenging. In this perspective, we give an overview over the usual sizes of matrices processed in ANNs and compare them with the capability of existing photonic matrix processors. To address shortcomings of existing architectures, we propose a time multiplexed matrix processing scheme which virtually increases the size of a physical photonic crossbar array without requiring any additional electrical post-processing. We investigate the underlying process of time multiplexed incoherent optical accumulation and achieve accumulation accuracy of 98.9% with 1 ns pulses. Assuming state of the art active components and a reasonable crossbar array size, this processor architecture would enable matrix vector multiplications with 16,000 × 64 matrices all optically on an estimated area of 51.2 mm<sup>2</sup>, while performing more than 110 trillion multiply and accumulate operations per second.</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.