Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
403
datasets available to search
ShareScore release 0.7.1
Dataset results
403 results for “Calcification”
Breast Micro-Calcifications Dataset with Precisely Annotated Sequential Mammograms
<p><strong>Dataset Version 3 Update</strong></p> <p><strong>The ground truth images (.jpg) match the dimensions of the corresponding original images (.dcm), ensuring consistency across the dataset.</strong><br><br></p> <p><strong>Breast Micro-Calcifications Dataset with Precisely Annotated Sequential Mammograms</strong></p> <p><strong>Citing the Dataset</strong></p> <p>The dataset is released under a Creative Commons Attribution license, so please cite the dataset if it is used in your work in any form. Published academic papers should use the academic paper citation for our paper. Personal works, such as projects or blog posts, should provide a URL to this Zenodo page, though a reference to our paper would also be appreciated.</p> <p><em>Academic paper citation</em></p> <p>Loizidou, K., Skouroumouni, G., Pitris, C. <em>et al.</em> Digital subtraction of temporally sequential mammograms for improved detection and classification of microcalcifications. <em>Eur Radiol Exp</em> <strong>5, </strong>40 (2021). https://doi.org/10.1186/s41747-021-00238-w</p> <p><em>Personal use citation</em></p> <p>Include a link to this Zenodo page - 10.5281/zenodo.14859694</p> <p><strong>ACKNOWLEDGMENT</strong></p> <p>This research is funded by the European Union’s Horizon 2020 research and innovation program under grant agreement No. 739551 (KIOS CoE) and from the Republic of Cyprus through the Directorate General for European Programs, Coordination and Development.</p> <p><strong>Contact Information</strong></p> <p>If you would like further information about the dataset, or if you experience any issues downloading files, please contact us at cloizi01@ucy.ac.cy.</p> <p><strong>General Information</strong></p> <p>This dataset consists of 100 pairs of mammograms, from two temporally sequential rounds. Specifically, this dataset includes the prior and recent mammograms of CC and MLO view of each patient. This is a complete dataset for the detection and BI-RADS classification of breast micro-calcifications, using digital mammograms. It contains normal (BI-RADS 1), benign (BI-RADS 2), and suspicious (BI-RADS 4-5) cases, and for each mammogram, an image with precise annotation of each individual micro-calcification, by two expert radiologists, is provided. In 32 suspicious cases, the biopsy results are also available.</p> <p><strong>More details are available in the README.txt</strong></p>
Environmental and physiochemical controls on coral calcification along a latitudinal temperature gradient in Western Australia
<p>Supplementary data for: Environmental and physiochemical controls on coral calcification along a latitudinal temperature gradient in Western Australia</p>
Coral calcification mechanisms in a warming ocean and the interactive effects of temperature and light
<p>Ross et al 2022 Supplementary data for coral (<em>Acropora nasuta</em>) temperature and light experiments. </p>
Bioerosion on Fungia pieces and coral recruits, calcification and settlement data on Palmyra Atoll reef.
Coral recruitment and calcium carbonate (CaCO₃) accretion are fundamental processes that help maintain coral reefs. Many reefs worldwide have experienced degradation, including a decrease in coral cover and biodiversity. Successful coral recruitment helps degraded reefs to recover, while CaCO₃ accretion by early successional benthic organisms maintains the topographic complexity of a coral reef system. It is therefore important to understand the processes that affect coral recruitment and CaCO₃ accretion rates in order to understand how coral reefs recover from disturbances. The aim of this thesis was to determine how biophysical forcing factors affect coral recruitment, calcification and bioerosion on a pristine coral reef.
MCR LTER: Coral Reef: Conspecific aggregation mitigation of OA on calcification of the coral Pocillopora verrucosa, JEXBIO 2017
The study was conducted in April 2015 in Moorea, French Polynesia, using colonies of Pocillopora verrucosa (~ 4 cm in planar diameter) collected from the outer reef of the north shore at 10–12 m depth. Corals were collected from multiple sites separated by 100-200 m on the outer reef to maximize the likelihood that the selected coral colonies were genetically unique, and transferred directly to an acclimation tank. The experiment used a sequential design, in which corals first were incubated under 130 ambient or elevated pCO2 in flow-through tanks, and then were incubated in a recirculating flume under the same pCO2 crossed with a contrast of two colony densities (Fig. S1). Two response variables were measured in the light (calcification and net photosynthesis at a single irradiance), two response variables were measured in the dark (aerobic respiration and calcification), and two response variables were calculated from these values (gross 135 photosynthesis, and calcification integrated over 24 h). Aerobic respiration was measured as oxygen uptake, and net photosynthesis was measured as the flux of oxygen at a constant irradiance, and in both cases, oxygen uptake was given a negative notation and oxygen evolution a positive notation; gross photosynthesis was obtained by subtracting respiration from net photosynthesis. Daily calcification was calculated by integrating calcification in the 140 light over 12 h, calcification in the dark over 12 h, and summing the two values assuming each day consisted of 12 h of light at a constant intensity. The six response variables were measured for aggregates of a fixed number (n = 12) of similar-sized colonies placed in the flume in either high or low density arrays. With this design, it was not possible to measure the physiology of individual colonies in each aggregate, and therefore our results describe the 145 performance corals averaged across each aggregate. These data support the publication Evensen & Edmunds, 'Conspecific
MCR LTER: Coral Reef: Scleractinia calcification data in support of Ginther, et al., JEMBE 2020
This study explored the effects of variation in seawater pCO2 on coral calcification using experiments conducted over one month between 9 April 2018 and 18 May 2018. Branches (~4-cm long) of Acropora retusa were sampled from colonies at 10-m depth on the fore reef of Mo'orea, French Polynesia (17° 28′ 53.9004" S, 149° 49′ 50.5992" W). We tested the hypothesis that depressed calcification caused by elevated pCO2 (~1000 μatm) is relaxed (i.e., calcification increases) upon return to ambient pCO2 (~400 μatm). Corals first were incubated in ambient or elevated pCO2 for 19 days, with the result that calcification integrated over this period was reduced by 31% under elevated pCO2. The same corals were then incubated at ambient pCO2 for 11 days, during which calcification was independent of the experimental pCO2 exposure history. This material is based upon work supported by the U.S. National Science Foundation under Grant No. OCE 16-37396 (and earlier awards) as well as a generous gift from the Gordon and Betty Moore Foundation. Research was completed under permits issued by the French Polynesian Government (Délégation à la Recherche) and the Haut-commissariat de la République en Polynésie Francaise (DTRT) (Protocole d'Accueil 2005-2020). This work represents a contribution of the Moorea Coral Reef (MCR) LTER Site.
Sodium [18F]Fluoride PET Can Efficiently Monitor In Vivo Atherosclerotic Plaque Calcification Progression and Treatment
<p>Dataset for the research article entitled "Sodium [<sup>18</sup>F]Fluoride PET Can Efficiently Monitor <em>In Vivo </em>Atherosclerotic Plaque Calcification Progression and Treatment" published in the MDPI journal Cells.</p>
Research data supporting "Raman spectroscopy imaging reveals interplay between atherosclerosis and medial calcification in human aorta"
<p>Research data supporting the publication:</p> <p>You, A. Y. F. <em>et al.</em>, 2017, "Raman spectroscopy imaging reveals interplay between atherosclerosis and medial calcification in human aorta", Science Advances, DOI: 10.1126/sciadv.1701156.</p>
Figure A3 in Carcinoecium-Forming Sea Anemone Stylobates calcifer sp. nov. (Cnidaria, Actiniaria, Actiniidae) from the Japanese Deep-Sea Floor: A Taxonomical Description with Its Ecological Observations
Figure A3. Size distribution of the cnidae of Stylobates calcifer sp. nov. (paratype: NSMT-Co 1796). (i) indicates the examined positions of the sea anemone and the corresponding scatter diagrams (A–E). (ii) indicates the measured parameters of the cnidae.
Figure 6 in Carcinoecium-Forming Sea Anemone Stylobates calcifer sp. nov. (Cnidaria, Actiniaria, Actiniidae) from the Japanese Deep-Sea Floor: A Taxonomical Description with Its Ecological Observations
Figure 6. Size distribution of the cnidae of Stylobates calcifer sp. nov. (holotype: NSMT-Co 1794). (i) The examined positions of the sea anemone and the corresponding scatter diagrams (A–E). (ii) The measured parameters of the cnidae.
Halimeda tuna (Bryopsidales, Ulvophyceae) calcification on the depth transect in the northern Adriatic Sea; carbonate production on the microscale of individual segments
<p>Raw data relevant to the submission of the manuscript: Halimeda tuna (Bryopsidales, Ulvophyceae) calcification on the depth transect in the northern Adriatic Sea; carbonate production on the microscale of individual segments.</p> <p>Table S1. Landmark and semilandmark coordinates of Halimeda tuna segment outlines.</p> <p>Table S2. External characteristics of H. tuna segments and associated abiotic factors.</p>
Figure A1 in Carcinoecium-Forming Sea Anemone Stylobates calcifer sp. nov. (Cnidaria, Actiniaria, Actiniidae) from the Japanese Deep-Sea Floor: A Taxonomical Description with Its Ecological Observations
Figure A1. Time sequencing of the behavioral observations (S1 and S2) on the symbiotic relationship between the hermit crab Pagurodofleinia doederleini and the sea anemone Stylobates calcifer sp. nov.
Figure 4 in Carcinoecium-Forming Sea Anemone Stylobates calcifer sp. nov. (Cnidaria, Actiniaria, Actiniidae) from the Japanese Deep-Sea Floor: A Taxonomical Description with Its Ecological Observations
Figure 4. Histological section of a column of Stylobates calcifer sp. nov. (paratype: CMNH-ZG09775). (A) The entire transverse serial section of the actinopharynx. The cycle of mesenteries is indicated by numbers (asterisk indicates directive mesentery). (i) The upper transverse section near the tentacles and mouth. (ii) The transverse section of the middle of the column. (B) The full view of the ventral directives (first mesenteries), diffuse longitudinal muscles, and siphonoglyph. (C) The enlarged view of the second and third mesenteries and diffuse longitudinal muscles. (D) The parieto-basilar muscle of the second mesenteries. a, actinopharynx; dm, directive mesentery; mf, mesenterial filament; mo, matured ovary cyst; pbm, pariental basilar muscle; rm, retractor muscle; s, siphonoglyph.
Figure 7 in Carcinoecium-Forming Sea Anemone Stylobates calcifer sp. nov. (Cnidaria, Actiniaria, Actiniidae) from the Japanese Deep-Sea Floor: A Taxonomical Description with Its Ecological Observations
Figure 7. Maximum likelihood (ML) phylogenetic tree of Actiniidae, including Stylobates calcifer sp. nov., based on the combined data of the 18S, 28S, 16S rDNA, 12S rDNA, and COXIII genes. The numbers written with slashes above or below the branches indicate the ML bootstrap support values followed by Bayesian inference (BI) posterior probabilities of each node. Those without slashes indicate only the ML bootstrap support values. Green and pink spaces indicate the species of superfamily Actiniodea and the genusof Stylobates, respectively. The position of S. calcifer sp. nov. is indicated in red. The valuesless than 50 ofbootstrap supportor 0.50 of posterior probabilityareshown by a dash. The numbers after S. calcifer sp. nov., 1 (CMNH-ZG09764), 2 (CMNH-ZG09765), 3 (CMNH-ZG09771), and 4 (NSMT-Co 1796), correspond to the registration numbers of the specimens.
Figure 2 in Carcinoecium-Forming Sea Anemone Stylobates calcifer sp. nov. (Cnidaria, Actiniaria, Actiniidae) from the Japanese Deep-Sea Floor: A Taxonomical Description with Its Ecological Observations
Figure 2. External morphology of Stylobates calcifer sp. nov. (holotype: NSMT-Co 1794) with host hermit crab Pagurodofleinia doederleini. The upper (A) and posterior (B) views and the marginal views of the right and left sides (C, D, respectively) of the living specimen. The upper and marginal views (E, F, respectively) of the preserved specimen. Scale bars = 5 mm.
Figure 3 in Carcinoecium-Forming Sea Anemone Stylobates calcifer sp. nov. (Cnidaria, Actiniaria, Actiniidae) from the Japanese Deep-Sea Floor: A Taxonomical Description with Its Ecological Observations
Figure 3. Internal anatomy of Stylobates calcifer sp. nov. (holotype: NSMT-Co 1794; paratype: NSMT-Co 1796). (A) The longitudinal section of the marginal sphincter muscle of the holotype (NSMT-Co 1794). (B) The longitudinal section of the marginal sphincter muscle of the paratype (NSMT-Co 1796). (C) The transverse section of a mesenterial filament of the holotype (NSMT-Co 1794). (D) The transverse section of the tentacle (i) and longitudinal section of a tentacle tip (ii) of the holotype (NSMT-Co 1794). The transverse section of a column with a well-developed siphonoglyph (E) and one with diffuse longitudinal muscles on the fifth mesenteries (F) of the holotype (NSMT-Co 1794). a, actinopharynx; mf, mesenterial filament; mt, matured testis cyst; rm, retractor muscle; s, siphonoglyph; sm, sphincter muscle; tcm, tentacular circular muscle; tlm, tentacular longitudinal muscle.
Figure 1 in Carcinoecium-Forming Sea Anemone Stylobates calcifer sp. nov. (Cnidaria, Actiniaria, Actiniidae) from the Japanese Deep-Sea Floor: A Taxonomical Description with Its Ecological Observations
Figure 1. Sampling locations of Stylobates calcifer sp. nov. Locations included the areas sampled with the deep-sea trawling net by R/V Seisuimaru, Mie University (November 17, 2017) (star); the fishing trawlers; the area where the fisheries were conducted (filled circles); and the location of the fishing ports (open circles).
Data from: Temperature amplifies the effect of high CO2 on the photosynthesis, respiration and calcification of the coralline algae Phymatolithon lusitanicum
The combination of ocean acidification (OA) and global warming is expected to have a significant effect on the diversity and functioning of marine ecosystems, particularly on calcifying algae such as rhodoliths (maërl) that form extensive beds worldwide, from polar to tropical regions. In addition, the increasing frequency of extreme events, such as heatwaves, threaten coastal ecosystems and may affect their capacity to fix blue carbon. The few studies where the simultaneous effects of both temperature and CO2 were investigated have revealed contradictory results. To assess the effect that high temperature spells can have on the maërl beds under OA, we tested the short-time effects of temperature and CO2 on the net photosynthesis, respiration and calcification of the recently described species Phymatolithon lusitanicum, the most common maërl species of southern Portugal. Photosynthesis, calcification and respiration increased with temperature, and the differences among treatments were enhanced under high CO2. We found that in the short term, the metabolic rates of Phymatolithon lusitanicum will increase with CO2 and temperature as will the coupling between calcification and photosynthesis. However, under high CO2, this coupling will favor photosynthesis over calcification, which, in the long term, can have a negative effect on the blue carbon fixing capacity of the maërl beds from southern Portugal.
Data from: Transcriptomic differences between day and night in Acropora millepora provide new insights into metabolite exchange and light-enhanced calcification in corals
The evolutionary success of reef-building corals is often attributed to their symbiotic relationship with photosynthetic dinoflagellates of the genus Symbiodinium, but metabolic interactions between the partners and the molecular bases of light-enhanced calcification (LEC) are not well understood. Here, the metabolic bases of the interaction between the coral Acropora millepora and its dinoflagellate symbiont were investigated by comparing gene expression levels under light and dark conditions at the whole transcriptome level. Among the 497 differentially expressed genes identified, a suite of genes involved in cholesterol transport was found to be upregulated under light conditions, confirming the significance of this compound in the coral symbiosis. Although ion transporters likely to have roles in calcification were not differentially expressed in this study, expression levels of many genes associated with skeletal organic matrix composition and organization were higher in light conditions. This implies that the rate of organic matrix synthesis is one factor limiting calcification at night. Thus, LEC during the day is likely to be a consequence of increases in both matrix synthesis and the supply of precursor molecules as a result of photosynthetic activity.
Mid-Late Holocene coral calcification dynamics: Deciphering climatic and environmental effects
<p><span>Over the past four decades, a marked decrease in coral calcification has occurred across the world's tropical reefs, closely linked to climate change and human-activity impacts. However, how natural and human-induced factors influence coral calcification remains unclear due to limited understanding of the geological past. This study addresses this gap by investigating the calcification parameters of 82 <em>Porites</em> corals from the northern South China Sea, with growth periods covering distinct climatic epochs during the Mid-Late Holocene, including the Holocene Climate Optimum, 4.2 ka BP event, Medieval Climate Anomaly, Little Ice Age, and Current Warm Period. Our findings show a gradual increase in coral skeletal density towards the present, and varied linear extension and calcification rates between warm and cold phases and between pre- and post-industrial periods. This suggests that temperature plays a pivotal role in controlling coral calcification, with contingent influences from volcanic activity and solar radiation. Notably, the linear extension and calcification rates were significantly reduced during the Current Warm Period, suggesting a surpassing impact of contemporary human activities over the natural variability on coral calcification. This raises concerns about the future prospects of coral reefs in the face of ongoing climate change and increasing human-activity impacts.</span></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.