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Data from: Exploring density and frequency dependent interactions experimentally: an R program for generating hexagonal fan designs.
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Crossett Experimental Forest site, station R. R. Reynolds Research Natural Area, study of plant density of hardwood trees in units of numberPerHectare on a yearly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from Crossett Experimental Forest (CRO) contains plant density of hardwood trees measurements in numberPerHectare units and were aggregated to a yearly timescale.
Crossett Experimental Forest site, station R. R. Reynolds Research Natural Area, study of plant density of pine trees in units of numberPerHectare on a yearly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from Crossett Experimental Forest (CRO) contains plant density of pine trees measurements in numberPerHectare units and were aggregated to a yearly timescale.
Data and R code for “Both weather and resources influence masting in chestnut oak (Quercus montana Willd.) and black oak (Q. velutina Lam.)”, Plant Ecology, 2021
Masting is the synchronous and highly variable production of fruit within a population. Although several hypotheses have been proposed to explain why and how masting evolved in plants as a reproductive strategy, the factors that trigger a large reproductive effort in a particular year are still not well understood. While both weather and resources have been proposed to play an important role, testing these hypotheses has been challenging due to a lack of long-term data and appropriate experimental designs. In this manuscript, we used 18 years of acorn production data to analyze the relationship between resources, weather, and masting in black oak (Quercus velutina) and chestnut oak (Q. montana). The data were collected in southeast Ohio as part of the Fire and Fire Surrogate (FFS) study, which applied silvicultural treatments (i.e., thinning and prescribed fires) to reduce competition and manipulate resources. We found species-specific responses to the thinning and fire treatments, with an overall increase in acorn production for chestnut oak in the thin + burn treatment and an increase for black oak in the thin-only treatment compared to the control. Chestnut oak reproduction also had strong positive relationships with warm spring temperatures, and a positive change in summer temperatures compared to the previous year (i.e., summer temperatures that went from cool to warm). For black oak, warm spring temperatures increased acorn production while later starts to spring warming the year before decreased acorn production. These results support the hypotheses that both resources and weather (as a cue and as a limiting factor) are important for masting in oaks. Thus, both factors should be included in predictive models for acorn production under current and future climate conditions.
CAPS R DEMO Files
<p>This is the example dataset to be used as part of the RAMP data code tutorial session on 27 January 2020. It includes the basic R code package and instruction manual, as well as some example supplementary files.</p>
Data file for paper: Javier Rubio-Garcia; Anthony R J Kucernak, Rutao Liu and Barun K Chakrabarti "Hydrogen/functionalized benzoquinone for a high-performance regenerative fuel cell as a potential large-scale energy storage platform"
<p>The data in this spreadsheet was used to produce the figures in the paperJavier Rubio-Garcia; Anthony R J Kucernak, Rutao Liu and Barun K Chakrabarti "Hydrogen/functionalized benzoquinone for a high-performance regenerative fuel cell as a potential large-scale energy storage platform"Journal of Materials Chemistry A, 2020, DOI: 10.1039/C9TA12396B</p> <p>Please cite the above reference if you wish to use this data</p>
Prescribed Burn Statistical Analysis and R Code
<p>Paper: Diversity and composition of fungal soil communities across prescribed burn areas in temperate hardwood forests</p> <p>Authors: S.D. Russell & M.C. Aime</p> <p>All of the R code for the paper and the supplemental materials required to run it. This includes the BIOM file and the metadata file. The analysis is separated by the total fungal community and a separate analysis (and R file) for the ECM analysis.</p>
R-R HRV data from Biofeedback on 100 patients
<p>Psychiatric patients with adverse childhood experiences (ACE) tend to be dysfunctional in the interoceptive part of their emotional experience. The integration of interoceptive emotional activity in the insular and cingulate cortices is linked to the regulation of sympathovagal balance. This makes heart rate variability (HRV) an ideal measure for providing feedback on emotion regulation in real time. A sample of one hundred (n=100) outpatients is included in this release. Most patient underwent 8 sessions. Se published article for more details.</p>
Data from: Non-random association of MHC-I alleles in favor of high diversity haplotypes in wild songbirds revealed by computer-assisted MHC haplotype inference using the R package MHCtools
<p><strong>Data set from:</strong></p> <p>Roved J., Hansson B., Stervander, M., Hasselquist D., & Westerdahl H. (2020). Non-random association of MHC-I alleles in favor of high diversity haplotypes in wild songbirds revealed by computer-assisted MHC haplotype inference using the R package MHCtools.</p>
F I G U R E 1 in Composition and divergence of coronavirus spike proteins and host ACE2 receptors predict potential intermediate hosts of SARS- CoV-2
F I G U R E 1 Structural diagrams of spike glycoproteins of SARS‐CoV, MERS‐CoV, and SARS‐CoV‐2. All spike proteins of coronaviruses contain S1 subunit and S2 subunit, which were divided by the S cleavage sites. FP, fusion peptide; HR, heptad repeat 1 and heptad repeat 2; RBD, receptor‐binding domain, contains core binding motif in the external subdomain; SP, signal peptide
F I G U R E 2 in Composition and divergence of coronavirus spike proteins and host ACE2 receptors predict potential intermediate hosts of SARS- CoV-2
F I G U R E 2 Phylogenetic analysis of sequences of coronavirus spike glycoproteins. The sequences of spike glycoproteins of SARS‐CoV‐2, bat SARS‐like CoV, pangolin SARS‐like CoV, and SARS‐CoV were analyzed. The red stars indicate pangolin SARS‐like CoV and bat SARS‐like CoV. Host flags are marked after the clusters. SARS‐CoV‐2, severe respiratory syndrome coronavirus‐2
FIGURES 21–24 in Notes on species of Empididae (Diptera) described by R. Frey from the Swedish Kamchatka Expedition 1920 - 1922
FIGURES 21–24. Rhamphomyia (Ctenempis) malaisei Frey. 21. male habitus, lectotype, lateral view; 22. lectotype labels; 23. male hind leg, anterior view; 24. male postabdomen, lateral view.
FIGURES 12–14 in Notes on species of Empididae (Diptera) described by R. Frey from the Swedish Kamchatka Expedition 1920 - 1922
FIGURES 12–14. Hilara galactoptera Frey (= H. lactescens Frey). 12. male habitus, holotype, lateral view; 13. holotype labels; 14. male head and thorax, holotype, anterodorsal view.
Supporting R-code and data for "Why are population growth rate estimates of past and present hunter-gatherers so different?" (Tallavaara and Jørgensen, 2020)
<p>This submission contains data and R-code that enable to reproduce the data manipulations and analyses in the paper “Why are population growth rate estimates of past and present hunter-gatherers so different?” by Miikka Tallavaara and Erlend Kirkeng Jørgensen (Philosophical transactions of the Royal Society B). Please, cite the paper and this Zenodo repository if you use the files included in this Zenodo record in your work.</p> <p>The submission includes a html-file titled “Why are population growth rate estimates of past and present hunter-gatherers so different? - Data analyses” (TJ2020.html) that contains R-code and instructions and comments for running the code (open this file in your browser). In addition, the submission includes Rdata-file (dataTJ2020.Rdata) containing all the data that are not created within the code and pure R-code (TJ2020.R).</p>
Supplementary material 1 from: Bragança PHN, van Zeeventer RM, Bills R, Tweddle D, Chakona A (2020) Diversity of the southern Africa Lacustricola Myers, 1924 and redescription of Lacustricola johnstoni (Günther, 1894) and Lacustricola myaposae (Boulenger, 1908) (Cyprinodontiformes, Procatopodidae). ZooKeys 923: 91-113. https://doi.org/10.3897/zookeys.923.48420
Species localities and Genbank Acession numbers: acession numbers in bold refers to sequences developed in the present study
Subspecies and Distribution. R. b. beddomei K. Andersen, 1905 — W & E India (Maharashtra, Karnataka, Kerala, and Andhra Pradesh). R. b. sobrinus K Andersen, 1918 - Sri Lanka. in Rhinolophidae
Subspecies and Distribution. R. b. beddomei K. Andersen, 1905 — W & E India (Maharashtra, Karnataka, Kerala, and Andhra Pradesh). R. b. sobrinus K Andersen, 1918 - Sri Lanka.
Subspecies and Distribution. R. p. perniger Hodgson, 1843 - N, C & SW India (Uttarakhand, Sikkim, West Bengal, Assam, Meghalaya, Nagaland, Madhya Pradesh, Karnataka, and Kerala), C & E Nepal, Bhutan, Bangladesh, Myanmar, S China (Yunnan), N Thailand, Laos, Vietnam, and Cambodia. . p. lanosus K. Andersen, 1905 — C & SE China (Sichuan, Guizhou, Guangxi, Anhui Zhejiang,Jiangxi, Fujian, and Guangdong). R.p. spurcus G. M. Allen, 1928 - Hainan I, China. Possibly also peninsular Thailand, according to recorded calls. in Rhinolophidae
Subspecies and Distribution. R. p. perniger Hodgson, 1843 - N, C & SW India (Uttarakhand, Sikkim, West Bengal, Assam, Meghalaya, Nagaland, Madhya Pradesh, Karnataka, and Kerala), C & E Nepal, Bhutan, Bangladesh, Myanmar, S China (Yunnan), N Thailand, Laos, Vietnam, and Cambodia. . p. lanosus K. Andersen, 1905 — C & SE China (Sichuan, Guizhou, Guangxi, Anhui Zhejiang,Jiangxi, Fujian, and Guangdong). R.p. spurcus G. M. Allen, 1928 - Hainan I, China. Possibly also peninsular Thailand, according to recorded calls.
Subspecies and Distribution. R. t. trifoliatus Temminck, 1834 —Sumatra, Belitung I, Borneo, WJava, and Banta I. R. t. edax K. Andersen, 1918 - NE India (two records in West Bengal and Assam), S China (one record in Guizhou), S Myanmar, C & S Thailand, Peninsular Malaysia, and Singapore. R. t. niasensis K. Andersen, 1906 — Nias I. R. t. solitarius K Andersen, 1905 - Bangka I. in Rhinolophidae
Subspecies and Distribution. R. t. trifoliatus Temminck, 1834 —Sumatra, Belitung I, Borneo, WJava, and Banta I. R. t. edax K. Andersen, 1918 - NE India (two records in West Bengal and Assam), S China (one record in Guizhou), S Myanmar, C & S Thailand, Peninsular Malaysia, and Singapore. R. t. niasensis K. Andersen, 1906 — Nias I. R. t. solitarius K Andersen, 1905 - Bangka I.
Subspecies and Distribution. R. p. pearsonii Horsfield, 1851 - N India (Uttarakhand, Sikkim, West Bengal, Assam, Meghalaya, and Mizoram), Nepal, Bhutan, Bangladesh,, S & SE China (Xizang, Sichuan, Yunnan, Shaanxi, Guizhou, Guangxi, Hubei, Hunan, and Guangdong), Myanmar, Thailand, Laos, Vietnam, and Cambodia. R.p. chinensisK. Andersen, 1905 - SE China (Anhui, Zhejiang, Jiangxi, and Fujian). in Rhinolophidae
Subspecies and Distribution. R. p. pearsonii Horsfield, 1851 - N India (Uttarakhand, Sikkim, West Bengal, Assam, Meghalaya, and Mizoram), Nepal, Bhutan, Bangladesh,, S & SE China (Xizang, Sichuan, Yunnan, Shaanxi, Guizhou, Guangxi, Hubei, Hunan, and Guangdong), Myanmar, Thailand, Laos, Vietnam, and Cambodia. R.p. chinensisK. Andersen, 1905 - SE China (Anhui, Zhejiang, Jiangxi, and Fujian).
Subspecies and Distribution. R. a. acuminatus Peters, 1871 - Krakatau I andJava. R. a. audax K. Andersen, 1905 — Bali and Lombok Is. . a. calypso K. Andersen, 1905 — Enggano I. R. a. circe K. Andersen, 1906 — Nias I. R. a. sumatranus K Andersen, 1905 - W Sumatra and N Borneo. Subspecific identity of mainland populations in SE Asia, as well as the Philippines (Negros, Busuanga, Palawan, and Balabac Is) is uncertain, although mainland populations resemble individuals fromJava or Lombok. in Rhinolophidae
Subspecies and Distribution. R. a. acuminatus Peters, 1871 - Krakatau I andJava. R. a. audax K. Andersen, 1905 — Bali and Lombok Is. . a. calypso K. Andersen, 1905 — Enggano I. R. a. circe K. Andersen, 1906 — Nias I. R. a. sumatranus K Andersen, 1905 - W Sumatra and N Borneo. Subspecific identity of mainland populations in SE Asia, as well as the Philippines (Negros, Busuanga, Palawan, and Balabac Is) is uncertain, although mainland populations resemble individuals fromJava or Lombok.
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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.
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.