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zenodo40/100

BIR-MicroED: selected area electron diffraction datasets from tilting microcrystals, with multiple sweeps of data collected on each crystal (Zn(II)-histidine) at 200 keV

This deposition contains a series zip files each containing electron diffraction datasets in .mrc file format. Each folder collects data acquired from crystals of a particular compound under the same conditions (electron energy, temperature). For each crystal, multiple subsequent sweeps (passes) at the same incident flux covering the same angular range are given. Zip files are named according to the format: "CompoundName_multipass_RotationSpeed_FrameRate_SpotSize_tiltseries_Temperature.zip" Where spot size 11 = 0.01 electrons per square Angstrom per second incident flux, and spot size 10 = 0.03 electrons per square Angstrom per second incident flux Diffraction datasets within each folder are named according to the format: "CompoundName_tiltseries_AcceleratingVoltage_Temperature_IncidentFlux_crystal#sweep#.mrc" Where crystal1sweep1 and crystal1sweep2 indicate the first and second sweep of data acquired on the same crystal, respectively.

opencc-by-4.0Apr 2024View details →

zenodo40/100

Fig. 4 in First report of successful Naegleria detection from environmental resources of some selected areas of Rawlakot, Azad Jammu and Kashmir, Pakistan

Fig. 4. (A) Primary sequence alignment was obtained with reference sequences already available in Gen Bank. Neighbour joining phylogenetic relationship between the partial sequences of 18S rRNA of Naegleria from isolates obtained in this study and reference sequences present in Gen Bank. (B). Neighbour joining phylogenetic relationship between the partial sequences of 18S rRNA of Naegleria from isolates obtained in this study and reference sequences present in Gen Bank. The tree was generated in CLC Main Workbench version 6.6.2 using 1000 bootstrap replications. Branch length is proportional to the calculated genetic distance (scale shown).

opencc-by-4.0Feb 2022View details →

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Fig. 3 in First report of successful Naegleria detection from environmental resources of some selected areas of Rawlakot, Azad Jammu and Kashmir, Pakistan

Fig. 3. To confirm the incidence of Naegleria populations in water and soil samples, DNA were extracted from amoebae retrieved from NNA plates with 2 weeks time and utilized for PCR examination as demonstrated in methods section. PCR products were obtained in all DNA samples verifying the existence of Naegleria. Lane 1: 250 bp DNA ladder; Lane 2: RAW STW4; Lane 3: RAW LW1; Lane 4: RAW PW8; Lane 5: RAW DS1; Lane 6: RAW STW7; Lane 7: RAW TW3; Lane 8: RAW DS2; Lane 9: RAW DS3; Lane 10: RAW DS4; Lane 11: RAW DS5; Lane 12: RAW DS6; Lane 13: RAW DS7; Lane 14: RAW DS8; Lane 15: RAW DS9; Lane 16: RAW DS10; Lane 17: +ve control; Lane 18: -ve control.

opencc-by-4.0Feb 2022View details →

zenodo40/100

Fig. 2 in First report of successful Naegleria detection from environmental resources of some selected areas of Rawlakot, Azad Jammu and Kashmir, Pakistan

Fig. 2. Naegleria cysts detection on NNA under inverted microscope (×400). Water and soil samples were filtered and pored respectively and inoculated on NNA plate seeded with E. coli as demonstrated in methods section. Plates were monitored for amoebic outgrowth up to two weeks, and images were taken. Only representative samples of water (a) RAW STW7 and soil (b) RAW DS7 are shown here.

opencc-by-4.0Feb 2022View details →

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BIR-MicroED: selected area electron diffraction datasets from tilting microcrystals, with multiple sweeps of data collected on each crystal (biotin, Zn(II)-methionine) at 200 keV

opencc-by-4.0Apr 2024View details →

zenodo40/100

BIR-MicroED: selected area electron diffraction datasets from slowly rotating (0.09 degrees/second) microcrystals (biotin, Zn(II)-methionine, and Co(II)-porphyrin) at 200 keV

This deposition contains a series zip files each containing electron diffraction datasets in .mrc file format. Each folder collects data acquired from crystals of a particular compound under the same conditions (electron energy, temperature). Zip files are named according to the format: "CompoundName_slowrotation_0pp09dps_tiltseries_Temperature.zip" Diffraction datasets within each folder are named according to the format: "CompoundName_slowrotation_0p09dps_tiltseries_AcceleratingVoltage_Temperature_series#.mrc"

opencc-by-4.0Apr 2024View details →

zenodo40/100

BIR-MicroED: selected area electron diffraction datasets from static microcrystals on extra thick carbon support films (biotin, Zn(II)-methionine, Zn(II)-histidine) at 300 keV

This deposition contains a series zip files each containing electron diffraction datasets in .tvips file format. Each folder collects data acquired from crystals of a particular compound under the same conditions (electron energy, temperature). Zip files are named according to the format: "CompoundName_AcceleratingVoltage_Temperature.zip" Diffraction datasets within each folder are named according to the format: CompoundName_static_diffraction_AcceleratingVoltage_Temperature_series#.tvips

opencc-by-4.0Apr 2024View details →

zenodo40/100

BIR-MicroED: selected area electron diffraction datasets from static microcrystals (Zn(II)-histidine, Co(II) meso-tetraphenyl porphyrin, AVAAGA) at 300 keV

opencc-by-4.0Apr 2024View details →

zenodo40/100

BIR-MicroED: selected area electron diffraction datasets from static microcrystals (AVAAGA, thiostrepton, proteinase K) at 200 keV

This deposition contains a series zip files each containing electron diffraction datasets in .mrc file format. Each folder collects data acquired from crystals of a particular compound under the same conditions (electron energy, temperature). Zip files are named according to the format: "CompoundName_AcceleratingVoltage_Temperature.zip" Diffraction datasets within each folder are named according to the format: CompoundName_static_diffraction_AcceleratingVoltage_Temperature_series#.mrc AVAAGA datasets are additionally designated "AVAAGA-dry" or "AVAAGA-vitrified", identifying diffraction from crystals dry-mounted on grids and diffraction from crystals embedded in vitreous ice, respectively.

opencc-by-4.0Apr 2024View details →

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BIR-MicroED: selected area electron diffraction datasets from static microcrystals (thiostrepton) at 300 keV

opencc-by-4.0Apr 2024View details →

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High genetic gains in wood volume and fecundity can be both achieved by direct selection in half-sib families of Pinus yunnanensis Franch.

Experiment background This study focused on characterizing phenotypic variation among and within provenances of Pinus yunnanensis Franch. aged 16 years in a common garden, with an emphasis on key traits such as cone production, trunk straightness, and crown health, as well as their relationships with traditional growth traits like tree height, diameter at breast height, and wood volume. Specifically, the objectives were to (1) characterize the variation of each trait within and among provenances; (2) assess inter-trait relationships, exploring patterns of co-variation and potential trade-offs; and (3) evaluate the feasibility of multi-trait selection strategies that aim for simultaneous improvements in growth, trunk straightness, and fecundity, contributing valuable insights for advancing P. yunnanensis breeding efforts. Experimental Design This study was conducted in a common garden for P. yunnanensis located in Lufeng County, central Yunnan Province (102°12' E, 25°13' N) at an altitude of 1860 meters. The site lies in the transition zone between the subtropical humid climate of eastern Yunnan and the sub-humid climate of southwest Yunnan. The climate is characterized by warm and dry winters, humid and hot summers, with a mean annual temperature of 15.5°C and annual precipitation ranging between 900–1000 mm. The dry season extends from November to April, accounting for 6%-17% of the total annual precipitation. The common garden was established in 2006, with progeny from 179 superior trees selected from six provenance regions, including Anning County (AN), Qujing City (QJ), Yongren County (YR), Yulong County (YL), Tengchong County (TC), and Ninglang County (NL). Each provenance includes 30 families, except for one provenance with 29 families. The common garden has an area of about 3 ha, with a random block design, and a planting scheme of 2 m × 3 m. <a name="_Hlk181695359"></a>To minimize environmental variation across the study site, a horizontal banding method was used for land preparation prior to planting. To reduce environmental variation across the study site, a horizontal banding method was used during land preparation. In each block, six provenances were randomly arranged, and families were randomly assigned within each provenance. Five plants from each family were planted in rows, and the design was replicated four times. A total of 3467 progeny from 179 superior trees across six provenances were included in the trial. Experimental Variables The study measured nine phenotypic traits, which included both quantitative and qualitative traits, as outlined below: Tree Height (H): Measured directly with a Vertex Laser instrument (DZH-30, Harbin, China) in meters (m). Diameter at Breast Height (D): Measured using a circumference tape in centimeters (cm). Crown Diameter (LCD, SCD): Long crown diameter (LCD) and short crown diameter (SCD), representing the maximum and minimum tree crown diameter, respectively, measured in meters (m) using a tower ruler. Height Under the Branch (TH): Measured in meters (m) using a tower ruler. Wood Volume (V): Estimated using the formula based on the forestry industry standard for P. yunnanensis (Agriculture and Forestry Ministry of China, 1977), with units in cubic meters (m³). Cone Production (CP): The number of open and closed cones in the canopy, including both serotinous and non-serotinous cones, recorded in counts to assess fecundity. Trunk Straightness (ST): A subjective visual assessment using a classification system: 1 for a highly twisted stem, 5 for a perfectly straight stem. Crown Health (CH): Visual assessment of the tree's crown, considering damage from abiotic and biotic stresses, with a grading scale from 1 (severely damaged) to 5 (perfectly healthy). Data Analysis Methods Data analysis was performed using R (version 3.6.3). The following statistical methods were employed: Variance Analysis: Nested variance analysis was used to evaluate the significance of differences and partition phenotypic variation among and within provenances. Principal Component Analysis (PCA): PCA was performed on the standardized matrix of nine phenotypic traits to reveal the dimensional structure and patterns of the data. Structural Equation Modeling (SEM): SEM was used to examine the direct and indirect relationships among traits, such as growth (H, D, V), crown size (LCD, SCD, TH), fecundity (CP), trunk straightness (ST), and crown health (CH). This analysis helped identify the causal pathways between the traits. Random Forest Analysis (RF): RF analysis was conducted to assess the importance of specific traits in predicting fecundity (CP) and trunk straightness (ST). Regression and classification methods were used for these analyses, with 1000 decision trees to ensure stable importance measures. Dataset Description The excel file (Raw Data) includes the following sheets: 1- Variables: Details on all the variables. 2- Values of phenotypic traits. 3- Variance components of phenotypic traits among and within provenances. 4- Coefficient of variance for phenotypic traits. 5- The average membership function values (SFM) and comprehensive weight of each principal component (PCA) of phenotypic traits.

opencc-by-4.0Nov 2024View details →

zenodo40/100

Selected properties and microstructure of concrete with tire rubber granulate as recycled material in construction industry

The paper explores the use of recycled materials in the construction industry to promote sustainable development. There is a growing demand for recycling and innovative materials in engineering. The study specifically investigates the potential of tire rubber recyclate as a recycled raw material, comparing two different mixtures in an experimental program. These mixtures highlight the importance of utilizing local resources, aligning with the principles of the circular economy. The experimental program focuses on evaluation of mechanical properties in addition to specialized tests. Findings indicate that higher proportions of rubber granulate not only impact mechanical properties but also significantly affect durability when exposed to environmental factors.

opencc-by-4.0May 2024View details →

zenodo40/100

Dataset_Experts_Evaluation_for_Integrated_MCDM_Approach_for_PGT_Selection_in_SES

Template and Dataset containing experts' evaluation for the case study of the research paper entitled "Evaluation_for_Integrated_MCDM_Approach_for_PGT_Selection_in_SES"

opencc-by-4.0Dec 2024View details →

zenodo40/100

Gnuplot scripts for plotting selected leaf gas exchange and morphological data of industrial hemp

Gnuplot code (scripts) for reproducing the eight figures of Sunoj et al. 2025 "Foliar gas exchange, morphology, and cannabinoid contents of three hemp varieties in southwest Texas," Agrosystems, Geosciences & Environment, 8, e70101. https://doi.org/10.1002/agg2.70101. Here is a list of the authors of the manuscript: John Sunoj V. S. (1), Xuejun Dong (1), Madhumita Joshi (1), Russell W. Jessup (2), Daniel I. Leskovar (1), and David D. Baltensperger (2). Texas A&M AgriLife Research at Uvalde, Texas, USA (1); Department of Soil and Crop Sciences, Texas A&M University, College Station, Texas, USA (2). The revised upload includes updated gnuplot scripts for reproducing Figures 2, 3, and 8, and Supplemental Figures 1-5 and Supplemental Tables 1-5 of the accepted manuscript by AGE. Code and data to reproduce Figure 2 (pnf_rev.eps): pn_dat_rev.txt, pnf_rev.txt Code and data to reproduce Figure 3 (fmf_rev.eps): fm_dat.txt, fm_rev.txt Code and data to reproduce Figure 8 (allom_1.eps): allom_1.txt, allom_data.csv

opencc-by-4.0Apr 2024View details →

zenodo40/100

HDAC6 screening dataset using tau-based substrate in an enzymatic assay yields selective inhibitors and activators

Structure and information of the data file DATA SET; Contains the information to which data set this information belongs. There are four possibilities denoted 1 to 4. Data set1: Enzymatic assay of human HDAC6 with commercial peptide substrate. Data set2: Enzymatic assay of human HDAC6 with custom peptide substrate. Data set3: Hit confirmation of the active molecules of the enzymatic assay of human HDAC6 with custom peptide substrate. Data set4: Determination of IC50 values for inhibition of enzymatic assay of human HDAC6 with custom peptide substrate. INTERNAL NAME; An internal name which enables identification of the compound within data sets from Fraunhofer ITMP ScreeningPort. TYPE; Type of data. Either 'inhibition' for normalized inhibition values or 'IC50' for enzymatic IC50. RELATION; Relation between TYPE and VALUE, always '='. VALUE; Value of the normalized inhibition or the enzymatic IC50. UNITS; Unit of the value. Either '%' for the normalized inhibition or 'uM' for the enzymatic IC50. NAME; Trade name of the chemical compound. SMILES; The canonical Smile of the chemical compound.   Abstract Histone deacetylase 6 (HDAC6) and HDAC10 are unique among the other HDACs as they consist of two domains instead of one. Only in the case of HDAC6 both domains are active resulting in a number of unique deacetylase reactions. Interestingly, HDAC6 can regulate the microtubule network and plays a role in the degradation of misfolded and aggregated proteins. We therefore developed a substrate (Boc-Ile-Asp-(Dimethyl)Lys-(Ac)Lys-aminoluciferin) based on a critical acetylation site of misfolded human Tau, a hallmark of Alzheimer’s Disease. This substrate was used to screen a 5632 compound encompassing repurposing library at 10 µM in a coupled, luminescence based assay. The assay was miniaturised to 10 µL per enzymatic reaction. For comparison, a generic HDAC substrate (BOC-Gly-(Ac)Lys-aminoluciferin) was also used to screen the same library. Both substrates rely on a cascade of enzymatic reactions. First, HDAC6 deacetylates the substrate followed by cleavage of aminluciferin from the peptide by porcine Trypsin and conversion of the aminoluciferin using firefly Luciferase. Compounds with an activity of at least 75% inhibition against the custom human Tau based substrate were confirmed in triplicates at the screening concentration of 10 µM. Confirmed hits, activity of at least 75%, where analysed in 8 point or 15 point dose response curves, depending on their activity. The data presented here encompass both primary data sets including 5632 compounds as well as 249 values from hit confirmation screening against the hTau based substrate and 151 IC50 values from confirmed hits.   Methods of data generation Enzymatic assay of human HDAC6 with commercial peptide substrate. The assay using the commercial peptide substrate (BOC-Gly-(Ac)Lys-aminoluciferin) was obtained from Promega Inc.. In the beginning the assay buffer is thawed and the lyophilized substrate is dissolved according to the technical manual (Promega Inc.) to create the substrate reagent. HDAC6 (obtained from BPS Biosciences) is dissolved in assay buffer at 0.2 nM, which is twice the final assay concentration. Compounds and controls are added to the plates using acoustic dispensing to reach a final concentration of 10 µM in the assay followed by 5 µl enzyme solution per well. Plates are centrifuged shortly and incubated for 10 min at RT. Afterwards, 5 µL/well substrate solution are added to the wells, centrifuged shortly and incubated for 10 min prior detection of the luminescence signal on a multimode reader. Primary screening was done at one concentration (10 µM) in singlicates.   Enzymatic assay of human HDAC6 with custom peptide substrate. The assay was designed based on a commercial HDAC6 assay available from Promega Inc. This luminescence assay works by an aminoluciferin coupled HDAC6 peptide substrate. Upon deacetylation of the peptidic substrate by HDAC6 (obtained from BPS Biosciences) Trypsin (obtained from Sigma-Aldrich) can cleave the aminoluciferine from the peptide which can be converted by Luciferase (obtained from AAT Bioquest) to the detected signal. First, a twofold concentrated enzyme solution was generated, consisting of 4 nM HDAC6 and 0.1% BSA in HEPES buffer (25 mM HEPES, 137 mM NaCl, 2.7 mM KCl and 1 mM MgCl2, pH 7.0). Second, a twofold peptide solution was generated containing 100 µM custom made peptide (Boc-Ile-Asp-(Dimethyl)Lys-(Ac)Lys-aminoluciferin) in HEPES buffer. Compounds and controls are added to the plates using acoustic dispensing to reach a final concentration of 10 µM in the assay followed by 5 µl enzyme solution per well. Plates are centrifuged shortly and 5 µL/well peptide solution are added to the wells, centrifuged shortly and incubated for 30 min at RT. Afterwards, 5 µL detection reagent (0.067 mg/mL Luciferase, 133.3 µM ATP, 0.133 mg/mL Trypsin in HEPES buffer) were added to each well. Plates were centrifuged shortly and measured on a multimode reader after 30 min incubation at RT in the dark. Primary screening was done at one concentration (10 µM) in singlicates.   Hit confirmation of the active molecules of the enzymatic assay of human HDAC6 with custom peptide substrate The assay was designed based on a commercial HDAC6 assay available from Promega Inc. This luminescence assay works by an aminoluciferin coupled HDAC6 peptide substrate. Upon deacetylation of the peptidic substrate by HDAC6 (obtained from BPS Biosciences) Trypsin (obtained from Sigma-Aldrich) can cleave the aminoluciferine from the peptide which can be converted by Luciferase (obtained from AAT Bioquest) to the detected signal. First, a twofold concentrated enzyme solution was generated, consisting of 4 nM HDAC6 and 0.1% BSA in HEPES buffer (25 mM HEPES, 137 mM NaCl, 2.7 mM KCl and 1 mM MgCl2, pH 7.0). Second, a twofold peptide solution was generated containing 100 µM custom made peptide (Boc-Ile-Asp-(Dimethyl)Lys-(Ac)Lys-aminoluciferin) in HEPES buffer. Compounds and controls are added to the plates using acoustic dispensing to reach a final concentration of 10 µM in the assay followed by 5 µl enzyme solution per well. Plates are centrifuged shortly and 5 µL/well peptide solution are added to the wells, centrifuged shortly and incubated for 30 min at RT. Afterwards, 5 µL detection reagent (0.067 mg/mL Luciferase, 133.3 µM ATP, 0.133 mg/mL Trypsin in HEPES buffer) were added to each well. Plates were centrifuged shortly and measured on a multimode reader after 30 min incubation at RT in the dark. Hit confirmation was done at one concentration (10 µM) in triplicates.   Determination of IC50 values for inhibition of enzymatic assay of human HDAC6 with custom peptide substrate The assay was designed based on a commercial HDAC6 assay available from Promega Inc. This luminescence assay works by an aminoluciferin coupled HDAC6 peptide substrate. Upon deacetylation of the peptidic substrate by HDAC6 (obtained from BPS Biosciences) Trypsin (obtained from Sigma-Aldrich) can cleave the aminoluciferine from the peptide which can be converted by Luciferase (obtained from AAT Bioquest) to the detected signal. First, a twofold concentrated enzyme solution was generated, consisting of 4 nM HDAC6 and 0.1% BSA in HEPES buffer (25 mM HEPES, 137 mM NaCl, 2.7 mM KCl and 1 mM MgCl2, pH 7.0). Second, a twofold peptide solution was generated containing 100 µM custom made peptide (Boc-Ile-Asp-(Dimethyl)Lys-(Ac)Lys-aminoluciferin) in HEPES buffer. Compounds and controls are added to the plates using acoustic dispensing to reach a final concentration of 10 µM in the assay followed by 5 µl enzyme solution per well. Plates are centrifuged shortly and 5 µL/well peptide solution are added to the wells, centrifuged shortly and incubated for 30 min at RT. Afterwards, 5 µL detection reagent (0.067 mg/mL Luciferase, 133.3 µM ATP, 0.133 mg/mL Trypsin in HEPES buffer) were added to each well. Plates were centrifuged shortly and measured on a multimode reader after 30 min incubation at RT in the dark. IC50 values were determined using 7 point dose response curves (DRCs) between 20 µM and 312 nM. In case inhibition values were not below 50% additional 7 point DRCs were measured, starting at 312 nm with a dilution factor of 2. All DRCs were recorded in triplicates.

opencc-by-4.0Oct 2021View details →

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Supporting data for: "Data-driven discovery of cardiolipin-selective small molecules by computational active learning"

This repository contains supporting data and code for the paper titled "Data-driven discovery of cardiolipin-selective small molecules by computational active learning" by Bernadette Mohr, Kirill Shmilovich, Isabel Kleinwächter, Dirk Schneider, Andrew L.Ferguson, and Tristan Bereau.

opencc-by-4.0Nov 2021View details →

zenodo40/100

Selected articles from the scoping review of biomarker discovery studies for the EU project on "Personalised Medicine Trials" (PERMIT)

This dataset provides the data extracted for the scoping review of the literature on biomarker discovery studies for patient stratification using machine learning analysis of omics data, as part of the EU project on “Personalised Medicine Trials” (PERMIT). It covers the references for all articles selected as part of the scoping review, as well as information on the study type and methodology, the outcome measures, the validation type, and representative sentences extracted from each article on the main results and key findings of the corresponding biomarker study.

opencc-by-4.0Nov 2021View details →

dryad40/100

Vitamin D status is heritable and under environment-dependent selection in the wild

Vitamin D has a well-established role in skeletal health and is increasingly linked to chronic disease and mortality in humans and companion animals. Despite the clear significance of vitamin D for health and obvious implications for fitness under natural conditions, no longitudinal study has tested whether the circulating concentration of vitamin D is under natural selection in the wild. Here, we show that concentrations of dietary-derived vitamin D and endogenously-produced vitamin D metabolites are heritable and largely polygenic in a wild population of Soay sheep (Ovis aries). Vitamin D status was positively associated with female adult survival, and vitamin D status predicted female fecundity in particular, good environment years when sheep density and competition for resources was low. Our study provides evidence that vitamin D status has the potential to respond to selection, as well as new insights into how vitamin D metabolism is associated with fitness in the wild.

opencc-zeroNov 2021View details →

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Selection on convergent functional traits drives compositional divergence in a tallgrass prairie restoration experiment

1. Plant biodiversity is often partitioned into taxonomic diversity (species composition and abundance), phylogenetic diversity (breadth of evolutionary lineages) and functional diversity (resource‐use strategies or physical traits). Evaluating the effects and interplay of these dimensions can provide insights into how assembly processes drive compositional changes in plant communities. However, teasing apart the effects of different biodiversity dimensions is challenging in observational studies or retrospective analyses. 2. To evaluate how plant phylogenetic and trait history shape community establishment and turnover in restoration of a species‐rich North American tallgrass prairie, we conducted an experiment with 127 species planted in assemblages representing three levels of phylogenetic diversity (PD) and two of functional trait diversity (FD), holding starting species richness (SR) fixed. We tested whether PD and FD of planted assemblages predicted species diversity, compositional turnover and selection on functional traits. 3. Rank order of initial functional and phylogenetic diversity levels was maintained throughout the experiment, but neither diversity measure correlated positively with species richness by the end of the experiment. Phylogenetic and taxonomic beta diversity increased among all treatments. This increase in compositional beta diversity was associated with directional selection on phylogenetically dispersed functional traits. A set of functional traits associated with competitiveness in tallgrass prairies predicted species' cover for all survey years: stem dry matter content, leaf dry matter content, vegetative height and rhizomatous growth. Although all plots collectively converged on a similar suite of functional traits, functional beta diversity increased among high‐FD plots. 4. Synthesis. Neither higher functional nor phylogenetic diversity maintained higher species richness (SR) over time in our study. Although SR was not maintained, higher levels of PD and FD were. Both types of diversity shaped the rate at which plots changed in composition over time, with high diversity treatment plots increasing in beta diversity. Selection for traits convergent across the tree of life drove phylogenetic and compositional divergence among plots. While optimization of site‐specific functional traits may be most important for maintaining higher SR, our work implies that planting higher initial PD and FD may make grassland restorations more adaptable to site conditions that may be difficult to predict.

opencc-zeroNov 2021View details →

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Which journal characteristics are crucial for scientists when selecting journals for their publications? Results tables of an online survey

As part of the BMBF-funded project "B!SON - Bibliometric and Semantic Open Access Recommender Network", an online survey was conducted among scientists using SoSci Survey (Leiner, 2019). The aim of the survey was to determine the importance of various characteristics of scientific journals in the decision for a publication venue by scientists. The characteristics were determined by analysis of other recommender systems, literature research and discussion with scientists. The data published here are based on 884 completed questionnaires (only questionnaires in which at least 90% of the questions had been answered were included in the analysis). In the questionnaire, a distinction was made between those characteristics that scientists would like to use to limit the selection of eligible journals from the outset (table "B!SON_Survey_Filter_Criteria_EN") and those that scientists need for their final decision from a list of recommended journals ("B!SON_Survey_Journal_Selection_EN"). For each journal property, the respondents could choose between the categories of a 5-point Likert scale: "not at all important - not very important - somewhat important - very important - extremely important". If the scientists were not able to evaluate a characteristic, they could also select "I can't say".  In the two tables of results, the approval percentage and the rank based on it are listed for all journal properties queried in the respective part of the survey. The approval percentage is calculated from the percentage of people who rated the respective property as "very important" or "extremely important". Approval rate and rank are presented across all respondents (overall column), as well as within the 4 science disciplines by DFG (Natural Sciences, Engineering Sciences, Life Sciences, Humanities and Social Sciences) and the category "Other Sciences". Both tables can be sorted by approval rate and rank per scientific discipline or across disciplines. Note on the use of the HTML files: These can be downloaded via the download button and then opened and viewed with any web browser. A German version of the results tables is available under <a href="https://doi.org/10.5281/zenodo.5412197">https://doi.org/10.5281/zenodo.5412197</a>.

opencc-by-4.0Nov 2021View details →

ScienceDex guides

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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.

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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.

allen-brain-atlas

neuroscienceopenDocumentation, web resources, and API references are available online.

Last verified 2026-04-30Open record

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.

abode-home-cage

behavioral-neuroscienceopenThe DataShare record exposes download links for annotations, documentation, license text, and the zipped per-snippet data directory.

Last verified 2026-04-30Open record

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.

dandi-nwb

electrophysiologyopenPublished Dandiset metadata and archive endpoints are available through the production DANDI API.

Last verified 2026-04-30Open record

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.

ibl

behavioral-neuroscienceopenPublic sessions can be searched and loaded from the IBL public data server through ONE.

Last verified 2026-04-29Open record

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.

openneuro

neuroscienceopenPublished datasets are available on demand over the internet.

Last verified 2026-04-29Open record