Find research datasets worth reusing

opencc-by-3.0-usApr 2023View details →

Structure files of La doped Co spinel

The CIF files for La doped Co spinel at (111) (110) and (100) facets, used for Pourbaix diagram calculation

opencc-by-4.0Apr 2023View details →

Co-manipulation of soft-materials estimating deformation from depth images [Dataset]

The dataset and training results used in the paper "Co-manipulation of soft-materials estimating deformation from depth images" G. Nicola, E. Villagrossi, N.Pedrocchi submitted at Robotics and Computer Integrated Manufacturing.

opencc-by-4.0Dec 2022View details →

Incomplete partitioning of pollinators by Linum suffruticosum and its co-flowering congeners

Data used in the manuscript "Incomplete partitioning of pollinators by Linum suffruticosum and its co-flowering congeners" accepted for publication in American Journal of Botany flower_morphology.csv includes measurements of floral traits Natural_pollen_arrival.csv includes data on pollen arrival on the stigmas and formation of pollen tubes of L. suffruticosum in sympatric and allopatric populations in the Central Pyrenees in Spain and SW Spain Lnarbonense_heterospecific_pollination.csc, Lviscosum_heterospecific_pollination.csv and Ltenue_heterospecific_pollination.csv correspond to the hand-pollination experiments using L. narbonense, L. viscosum and L. tenue as heterospecific pollen donors

opencc-zeroMay 2023View details →

Does a history of population co-occurrence predict plant performance, community productivity, or invasion resistance?

A history of species co-occurrence in plant communities is hypothesized to lead to greater niche differentiation, more efficient resource partitioning, and more productive, resistant communities as a result of evolution in response to biotic interactions. A similar question can be asked of co-occurring populations: do individual species or community responses differ when communities are founded with plants sharing a history of population co-occurrence (sympatric) or originating from different locations (allopatric)? Using shrub, grass, and forb species from six locations in the western Great Basin, USA, we compared establishment, productivity, reproduction, phenology, and resistance to invaders for experimental communities with either sympatric or allopatric population associations. Each community type was planted with six taxa in outdoor mesocosms, measured over three growing seasons, and invaded with the annual grass Bromus tectorum in the final season. For most populations, the allopatric or sympatric status of neighbors was not important. However, in some cases, it was beneficial for some species from some locations to be planted with allopatric neighbors, while others benefited from sympatric neighbors, and some of these responses had large effects. For instance, the Elymus population that benefited the most from allopatry grew 50% larger with allopatric neighbors than in single origin mesocosms. This response affected invasion resistance, as B. tectorum biomass was strongly affected by productivity and phenology of Elymus spp., as well as Poa secunda. Our results demonstrate that while community composition can affect plant performance in semi-arid plant communities, assembling communities from sympatric populations is not sufficient to ensure high productivity and invasion resistance. Instead, we observed an idiosyncratic interaction between sampling effects and evolutionary history, with the potential for seed source of individual populations to have community-level effects.

opencc-by-4.0Oct 2022View details →

Co-seismic slip of the 18 April 2021 Mw 5.9 Genaveh earthquake in the South Dezful Embayment of Zagros (Iran) and its aftershock sequence

This public repository contains INSAR and other processed data for the manuscript : "Co-seismic slip of the 18 April 2021 Mw 5.9 Genaveh earthquake in the South Dezful Embayment of Zagros (Iran) and its aftershock sequence" <ul> <li>InSAR unwrapped and geocoded files, for the ascending track A101 and the descending track D35: <ul> <li>GDM_Asc101_InU_geo_20210414_20210426_sd_4rlks.tiff</li> <li>GDM_Desc35_InU_geo_20210410_20210422_sd_4rlks.tiff</li> </ul> </li> <li>Sampled quadtree data for the ascending and descending data with LOS vector: <ul> <li>a101_okinv_input</li> <li>d35_okinv_input</li> </ul> </li> <li>Slip distribution model for the fault dipping N and the fault dipping S: <ul> <li>SDM_dipN_oksar.dat</li> <li>SDM_dipS_oksar.dat</li> </ul> </li> </ul>

opencc-by-4.0May 2023View details →

Spectra and retrieval data from CO and HCN observations of Jupiter with ALMA (project 2016.1.01235.S)

Spectra and retrieval data from: Title: Evidence for auroral influence on Jupiter's nitrogen and oxygen chemistry revealed by ALMA Authors: T. Cavalié, L. Rezac, R. Moreno, E. Lellouch, T. Fouchet, B. Benmahi, T. K. Greathouse,          J. A. Sinclair, V. Hue, P. Hartogh, M. Dobrijevic, N. Carrasco, Z. Perrin Journal: Nature Astronomy Year: 2023 ######################## # Description of files # ######################## CO_data/    latitudes_CO.dat: planetocentric latitudes of the 540 pointings from which the CO spectra have been extracted    spectrum_*.dat : CO spectra, one per pointing. Frequency in GHz and continuum-subtracted flux density in Jy/beam    profiles_*.dat : vertical profiles, one per pointing. Pressure in mbar, temperature in K (local average, see paper for details), and retrieved CO volume mixing ratio HCN_data/    latitudes_HCN.dat: planetocentric latitudes of the 557 pointings from which the HCN spectra have been extracted    spectrum_*.dat : HCN spectra, one per pointing. Frequency in GHz and continuum-subtracted flux density in Jy/beam    profiles_*.dat : vertical profiles, one per pointing. Pressure in mbar, temperature in K (local average, see paper for details), and retrieved HCN volume mixing ratio

opencc-zeroMay 2023View details →

Ontogeny of immunity and potential implications for co-infection

Immunity changes through ontogeny and can mediate facilitative and inhibitory interactions among co-infecting parasite species. In amphibians, most immune memory is not carried through metamorphosis, leading to variation in the complexity of immune responses across life stages. To test if the ontogeny of host immunity might drive interactions among co-infecting parasites, we simultaneously exposed Cuban treefrogs (Osteopilus septentrionalis) to a fungus (Bactrachochytrium dendrobaditis) and a nematode (Aplectana hamatospicula) at tadpole, metamorphic, and post-metamorphic life stages. We measured metrics of host immunity, host health, and parasite abundance. We predicted facilitative interactions between co-infecting parasites as the different immune responses hosts mount to combat these infectious are energetically challenging to mount simultaneously. We found ontogenetic differences in IgY levels and cellular immunity but no evidence that metamorphic frogs were more immunosuppressed than tadpoles. There was also little evidence that these parasites facilitated one another and no evidence that A. hamatospicula infection altered host immunity or health. However, Bd, which is known to be immunosuppressive, decreased immunity in metamorphic frogs. This made metamorphic frogs both less resistant and less tolerant of Bd infection than the other life stages. These findings indicate that changes in immunity altered host responses to parasite exposures throughout ontogeny.

opencc-by-4.0May 2023View details →

Additional raw data in `Cell-type-specific co-expression inference from single cell RNA-sequencing data'.

This repository holds the additional raw data used to generate figures in the publication "Cell-type-specific co-expression inference from single cell RNA-sequencing data" (preprint version: <a href="http://source%20code%20repo%20for%20%60cell-type-specific%20co-expression%20inference%20from%20single%20cell%20rna-sequencing%20data%27./">https://www.biorxiv.org/content/10.1101/2022.12.13.520181v1</a>). Table of contents: <ul> <li>Figure_1B.rds:  <ul> <li>raw data of Figure 1B </li> <li>co-expression estimates of 500*499/2 gene pairs across 100 replicates for 7 methods under two settings of sequencing detph variations</li> </ul> </li> <li>Supplementary_Figure_1B.rds:  <ul> <li>raw data of Supplementary Figure 1B </li> <li>co-expression estimates of 500*499/2 gene pairs across 100 replicates for 7 methods under two settings of sequencing detph variations</li> </ul> </li> <li>Supplementary_Figure_2.rds:  <ul> <li>raw data of Supplementary Figure 2 </li> <li>empirical power evaluated for 4999 gene pairs and 6 methods</li> </ul> </li> <li>Figure_3B.rds:  <ul> <li>raw data of Figure 3B</li> <li>co-expression estimates of a network of 500 genes for 9 methods across 100 replicates</li> </ul> </li> <li>Additional_Raw_Data.xlsx <ul> <li>raw data of Figure 3A: (geometric mean expression levels, co-expression estimates) for 4999 gene pairs and 11 methods</li> <li>raw data of Figure 3C: running times for 11 methods</li> <li>raw data of Supplementary Figure 3: (geometric mean expression levels, co-expression estimates) for 4999 gene pairs and 11 methods under two settings of sequencing detph variations</li> </ul> </li> </ul>

opencc-zeroJun 2023View details →

Data from: Widespread amphibian Perkinsea infections associated with Ranidae hosts, cooler months, and Ranavirus co-infection

Amphibians suffer from large-scale population declines globally, and emerging infectious diseases contribute heavily to these declines. Amphibian Perkinsea (Pr) is a worldwide anuran pathogen associated with mass mortality events, yet little is known about its epidemiological patterns, especially in comparison to the body of literature on amphibian chytridiomycosis and ranavirosis. Here, we establish Pr infection patterns in natural anuran populations and identify important covariates including climate, host attributes, and co-infection with Ranavirus (Rv). We used quantitative (q)PCR to determine the presence and intensity of Pr and Rv across 1234 individuals sampled throughout central Florida in 2017-2019. We then implemented random forest ensemble learning models to predict infection with both pathogens based on physiological and environmental characteristics. Perkinsea infected 32% of all sampled anurans, and Pr prevalence was significantly elevated in Ranidae frogs, cooler months, metamorphosed individuals, and frogs co-infected with Rv, while Pr intensity was significantly higher in ranid frogs and individuals collected dead. Ranavirus prevalence was 17% overall and was significantly higher in Ranidae frogs, metamorphosed individuals, locations with higher average temperatures, and individuals co-infected with Pr. Perkinsea prevalence was significantly higher than Rv prevalence across months, regions, life stages, and species. Among locations, Pr prevalence was negatively associated with crayfish prevalence and positively associated with relative abundance of microhylids, but Rv prevalence did not associate with any tested co-variates. Co-infections were significantly more common than single infections for both pathogens, and we propose that Pr infections may propel Rv infections because seasonal Rv infection peaks followed Pr infection peaks and random forest models found Pr intensity was a leading factor explaining Rv infections. Our study elucidates epidemiological patterns of Pr in Florida and suggests that Pr may be under-recognized as a cause of anuran declines, especially in the context of pathogen co-infection.

The Aedes aegypti RNA interference response against Zika virus in the context of co-infection with dengue and chikungunya viruses

This is the corresponding data of the Publication in Plos Neglected tropical diseases. Zika virus (ZIKV) is a mosquito-borne human-pathogenic arbovirus of the Flaviviridae family, genus Flavivirus. Other arboviruses, including dengue (DENV) or chikungunya (CHIKV) virus, can occur in the same regions as ZIKV and are also transmitted by Aedes aegypti. Notably, it has been shown that these viruses can co-infect this mosquito, andco-transmission occurs. Such processes may add to the serious public health issues already linked to those pathogens. Arbovirus infections in mosquitoes are controlled through an immune response called RNA interference (RNAi). It is however unknown whether immune responses changs when a mosquito is exposed to a co-infection of ZIKV with either DENV or CHIKV. In this study, we provide evidence that ZIKV co-infections with CHIKV or DENV are similarly well controlled by RNAi as single infections. These findings give new insights into the dynamics of arboviral co-infections in mosquito vectors that increase our understanding of co-infection scenarios during arbovirus outbreaks.

Entangled Ecologies. Interactive Documentary between Living Archive, Responsible Witnessing and Relational Co-Creation

The videoessay is also accessible: <a href="https://trametrami.avinus.org/publikationen/3-2023">https://trametrami.avinus.org/publikationen/3-2023</a> Recent re-conceptualizations of participation as well as theories of digital transformation culture have shifted the notion of the archive seeing not so much as a static, institutional body but rather as a dynamic, living epistemic environments. Building on these approaches, this presentation discusses emerging phenomena in interactive documentary focusing on ecological emergency – seeing this crisis itself as a complex ecology of issues where images and conceptualization past, present and future meet. Taking paradigmatic projects addressing the issue of climate change – The Shore Line (2017) and Climate Witness Project (2019) – I suggest tentative answers to the question in which way i-docs can contribute to tackle complex change. Are there images from the past which help us to better cope with the present and to envision a more sustainable future? How can one raise awareness of immanent ecological risks when menace is almost invisible, unprecedented and un-imaginable? Is there a way to negotiate multifaceted entanglements through documentaries which are neither paralyzing ecodystopian narratives nor naive ecotopian success-stories? The hypothesis underlying my approach is that one possible solution resides in documentaries which are built on principles of pluri-perspectivity and polyphony to transcend dualisms and to build bridges leading from history to the forthcoming. Discourses from various traditions are brought into dialogue: theories of documentary film meet ecocriticism; network theory encounters reflections on the epistemic dimension of non-fiction; and concepts of co-creation and intervention are related to processes of witnessing, doing documentary and responsible action-taking.   more information: <a href="https://did.avinus.org/">https://did.avinus.org/</a> and <a href="https://trametrami.avinus.org/publikationen">https://trametrami.avinus.org/publikationen </a>

opencc-zeroJun 2023View details →

Transient acetaldehyde production by SO2 producing S. cerevisiae promotes survival of Oenococcus oeni during co-fermentation

Stuck or sluggish malolactic fermentation (MLF) can be problematic in limiting wine conditions, particularly white and sparkling base musts / wines. In these cases, knowledge of yeast-bacteria strain compatibility and the amount of sulfur dioxide (SO2) a yeast strain produces are important considerations for successful MLF. Here, the effects of yeast-derived SO2 production on O. oeni survival was investigated in laboratory- and pilot-scale co-fermentations in Chardonnay. Further to the S. cerevisiae strain affecting O. oeni survival and MLF, we show that SO2 production by yeast (to approximately 65 mg/L) can be uncoupled from O. oeni survival in early stages of co-fermentation. Bacterial survival with certain SO2-producing yeast strains was correlated with early, transient formation of a high concentration of acetaldehyde. Upon co-inoculation, an extremely low concentration range (approximately 1–44 µg/L) of calculated molecular SO2 is indicated to regulate O. oeni survival. Possible strain-dependent sensitivity of O. oeni to bound SO2 may also occur, although the extent and nature of such inhibition by the SO2 adduct itself during co-fermentation remains unclear. Choice of co-inoculation yeast strain also influenced wine diacetyl concentration, which was only detected in wines co-inoculated with high-SO2-producing S. cerevisiae strains. These wines also had comparatively high citation frequency for a buttery sensory attribute. Both the SO2 and acetaldehyde production capacity of yeasts are therefore seen as meaningful co-inoculation selection criteria. The range of yeast strains suitable for MLF induction by co-inoculation could be widened to include SO2-producing strains which transiently produce an early, high concentration of acetaldehyde. Reliance on total / bound SO2 concentration may also potentially provide an inaccurate measure of SO2 toxicity towards O. oeni, particularly for co-inoculation, and the impact of low, equilibrium concentrations of molecular SO2 should also be considered.

opencc-by-4.0Jul 2023View details →

Data to Deliverable 3.4 - Co-creation process for innovative planning and governance able to facilitate the transition to a water circular economy

Transcription of co-creation workshops; Worksheets filled by groups of the co-creation workshops; and final worksheets filled of the co-creation workshops.

opencc-zeroJul 2023View details →

Evolutionary history and climate co-determine the geographical variation in pollination modes of angiosperms in China

Aim: Pollination is an essential stage of angiosperm reproduction and the mode of pollination plays a major role in driving evolutionary and ecological responses of plants to environmental changes. However, the effects of climate, evolutionary history and floral traits (i.e. plant sexual systems) on pollination mode variation remain unclear. Here, we explored the biogeographic patterns in pollination mode frequency, and tested the hypothesis that insect pollination prevails in warm humid regions with old floras due to high pollinator dependence, whereas wind pollination is more frequent in arid regions with younger floras and is more strongly associated with dioecy. Location: China Time period: Since the Last Glacial Maximum Major taxa studied: Angiosperms Methods: Using data on pollination modes and geographic ranges of 29,719 angiosperm species in China, we mapped the biogeographic pattern of pollination mode frequency. Phylogenetic logistic regressions and generalized linear mixed models were employed to evaluate the relative importance of climate, evolutionary history (represented by phylogenetic conservatism and grid-level mean genus age) and sexual systems on variations in pollination modes across species and space. Results: Evolutionary history was the strongest correlate of pollination mode variation across species and space. The proportion of insect-pollinated species was higher in warm humid regions with old floras, but lower in arid regions with young floras. Evolutionary history and temperature dominated variations in pollination mode frequency in warm humid areas, while precipitation dominated in arid areas. Climate mainly influenced geographic patterns in pollination mode frequency indirectly via its effects on species richness and plant sexual systems. Main conclusions: Our results showed that geographic pattern in angiosperm pollination mode frequency is dominated by evolutionary history followed by climate, which extended previous findings of climate-driven mechanisms. Our findings demonstrate the importance to incorporate evolutionary history in understanding the mechanisms underlying the functional biogeography of plant traits.

opencc-by-4.0Aug 2023View details →

Corona Haikus - Poetics of compassion. Visual poetry and co-creation in virtual opening spaces as self-care and community-care

The COVID-19 lockdowns and the maxim of social distancing have not only been accompanied by an upheaval of all so far assumed certainties and our complex socio-cultural infrastructures – they have also brought along deep permutation in our personal, intimate lives. As closeness and connectivity are essential in times of cataclysm, and as the preservation and negotiation of the effects of crises and its consequences is one element in deal with stress and anxieties, the impulse to document and reflect one's experiences, to reset one's focus and to regain agency through (co-)creative practices and mutual care have gained momentum. This might be one reason why during the lockdown many virtual communities emerged, e.g. social media initiatives with a documentary impetus, as well as collaborative web-projects. The motives for engaging in such networks are various – and often, one and the same project serves different needs at the same time for different user-participants. Apart from the impulse to document unprecedented times as a coping strategy to face personal uncertainties, and apart from the impetus to share one's experiences with others and thus to create a feeling of connectivity, these projects are also means for mediated self-care: they are spaces to self-reflexively cope with a slow-downed and often also isolated lifestyle and to make social distancing more bearable. This contribution examines the potentials of co-creative documentary poetry/poetic documentary in times of crises, taking the participatory project Corona Haikus as an example – a project, which launched during the first lockdown in March 2020 as an artistic experiment repurposing the facebook platform and which later metamorphosed into a curated website. I will investigate which community needs have existed during the crisis, and how the collaborative project Corona Haikus answered them. The focus of the presentation lies on co-creation as a form of self- and community-care, on the visual haiku as a poetic and therapeutic form and meditative practice of creation, as well as the use of networked media, to create 'open spaces' (sensu Zimmermann & De Michiel 2018), to foster communicative connectivity and to inspire creativity – thus making social media networks social in the proper sense of the word. Conceptualizations of co-creation, participation, mediated mindfulness and the healing potential of creativity – especially visual poetry – will be supplemented by reflections on community building, agency in co-creative projects and media ethics. In this sense, the contribution is meant as an analytic investigation of the status quo but also as a glimpse on the potential quo vadis of collaborative, interactive documentary and its (new) functions a means for self-care and community-care. Corona Haikus curated website: <a href="https://coronahaikus.com">https://coronahaikus.com</a> Corona Haikus facebook group: <a href="https://www.facebook.com/groups/226094118756231">https://www.facebook.com/groups/226094118756231</a>  Interview / Podcast with Sandra Gaudenzi and Sandra Tabares Duque on Kammerfilmmern & Mediales Rauschen: <a href="https://kammerflimmern.podigee.io/b10-corona-haikus">https://kammerflimmern.podigee.io/b10-corona-haikus</a> Published in: <a href="https://trametrami.avinus.org/publikationen/8-2023">https://trametrami.avinus.org/publikationen/8-2023</a>

Fig. 8 in Sex-ratio and body size plasticity in two cold-adapted ground beetles co-occurring in a periglacial area of the European Alps (Coleoptera: Carabidae)

Fig. 8 – Linear regression graph between elytra width of Nebria castanea females and the soil pH.

Fig. 1 in Sex-ratio and body size plasticity in two cold-adapted ground beetles co-occurring in a periglacial area of the European Alps (Coleoptera: Carabidae)

Fig. 1 – Sampling plan: distribution of pitfall traps at the Lazaunkar site.

opencc-by-4.0Aug 2023View details →

Quantum mechanical modeling of the on-grain formation of acetaldehyde on H2O:CO dirty ice surfaces

This Supporting Material contains: <ul> <li>Cartesian coordinates of HF-3c optimized minima and transition state for the reaction in gas phase, in .xyz format, computed using <a href="https://gaussian.com/">Gaussian16</a> code;</li> <li>Fractional coordinates of HF-3c optimized minima and trasition state structures for crystalline periodic models in <a href="https://www.moldraw.unito.it/_sgg/m1m1s43_1.htm">.mol</a> format, editable with <a href="http://www.moldraw.unito.it/">MOLDRAW</a>, computed using <a href="http://www.crystal.unito.it/">CRYSTAL17</a> computer code.</li> </ul>

opencc-by-4.0Aug 2023View details →

Supplementary Data for "Co-occurrence of climate-change induced and anthropogenic pressures in Central American key biodiversity areas"

Supplementary Data for the article "Co-occurrence of climate-change induced and anthropogenic pressures in Central American key biodiversity areas" This includes the pressure score maps for all climate scenarios / SSPs for the historical and future time periods as well as the script used for preparing the anthropogenic pressure maps (human footprint mapping).