Find research datasets worth reusing

opencc-zeroDec 2004View details →

FIGURES 1 – 7 in New or rare Madagascar tiger beetles— 9. Two new species of the genus Physodeutera Lacordaire, with revised keys to the species of subgenera Diarrhiza Jeannel and Minideutera Moravec (Coleoptera: Cicindelidae)

FIGURES 1 – 7: characters of Physodeutera. Figs. 1 – 5: Ph. (Diarrhiza) murzini sp. n.: 1 — body of male, paratype (CCJM), length 10.5 mm; 2 — body of female, allotype, length 11.1 mm (CCJM); 3 — third to fifth antennomeres of male, holotype (NHMW); 4 — aedeagus (length 2.8 mm) of paratype (CCJM) showing structure of inner sac; 5 — ditto (length 2.7 mm) of holotype. Figs. 6 – 7: Ph. (Minideutera) kamilmoraveci sp. n., male, holotype (MRAC): 6 — body (length 6.9 mm); 7 — aedeagus (length 2.17 mm) showing structure of inner sac.

opencc-by-4.0Oct 2016View details →

List of putatively rare species in the Neotropics and Amazonia, with distance between doubletons

Appendix to Zizka et al 2016 Species occurrences in Appendix 3 downloaded from www.gbif.org, doi:10.15468/dl.om11gi.

opencc-by-4.0Jan 2017View details →

Data and analysis scripts for Zizka et al., Finding needles in the haystack: Where to look for rare species in the American tropics

The analysis scripts and data from: Zizka A, ter Steege H, Pessoa MDC, Antonelli A (2017) Finding needles in the haystack: Where to look for rare species in the American tropics. Ecography.

opencc-by-4.0Nov 2023View details →

Rare Diseases hand-annotated news articles and research articles

This dataset was produced in 2023 from the data collected throughout 2022 from MEDLINE (scientific articles) and from Event Registry (news) for the development of the Rare Diseases Mining project (https://idefine-europe.org/medline)The data is distributed across 16 diseases supporting the research paper "Automatic text classification and interactive data visualization of published scientific and news articles on Rare Diseases"The available data comes in 2 kinds and file formats: CSV - the hand annotation of the news articles in TXT with 5 to 10 MeSH headings JSON - the input file for the evaluation of the classifier, including the title, news article body and MeSH heading IDs (available from https://www.ncbi.nlm.nih.gov/mesh/)The CSV files with name starting in "f1_", "pr_", "re_" are the results of the F1/Precision/Recall evaluation for each of the cases.This work was prepared by Joao Pita Costa (researcher) and curated by Tanja Zdolšek Draksler (domain expert)

Supplementary information for Yamada et al. (2023): Natural history notes of the rare enigmatic ant Opamyrma hungvuong: A first glimpse of their preying behavior on centipedes (Hymenoptera: Formicidae: Leptanillinae)

Supprementary figure and videos (with original unedited source videos of behavior of Opamyrma hungvuong) for: Aiki Yamada, An Van Dang & Katsuyuki Eguchi (2023). Natural history notes of the rare enigmatic ant Opamyrma hungvuong: A first glimpse of their preying behavior on centipedes (Hymenoptera: Formicidae: Leptanillinae). Asian Myrmecology 16: e016009

Data and scripts for "Simulating AMOC tipping driven by internal climate variability with a rare event algorithm."

This dataset contains supplementary material for the paper Simulating AMOC tipping driven by internal climate variability with a rare event algorithm." (M.Cini, G. Zappa, F. Ragone, S. Corti, 2023) submitted to npj Climate and Atmospheric Science.  Preprint is available at https://www.researchsquare.com/article/rs-3215995/latest. Here we uploaded most relevant data and scripts concerning this study. Feel free to contact us for other resources. This datasets contains:1) The output of one 125-years ensemble simulation performed with the Algorithm.2) Time series of the AMOC index for all the simulations performed. 3) All data-analysis related scripts. These scripts have been used to plot all the figures in the paper.The script for the rare event algorithm is already available in the Supplementary material for "Rare event algorithm study of extreme warm summers and heatwaves over Europe" zenodo repository, available at https://zenodo.org/records/4763283. Simulation Architecture and model setupAll the simulations have been performed with an intermediate complexity coupled climate model, composed by the Planet Simulator (PlaSim) and the Large Scale Geostrophic Ocean (LSG). All simulations are performed at stationary greenhouse gases forcing. More information about model setup and scope of the simulations can be found in the paper. We performed 10 100-member ensemble simulations. First 125 years of the simulation are performed with the algorithm on (k=3). Then, simulations have been restarted at year 120 with the algorithm off (k=0) up to year 400. This last 380 years of simulation have been performed with only 20 members. y2480_k3_ntraj100y2480_k3_ntraj100.tar.gz contains the output of one ensemble simulation (y2480, i.e. the one that starts at year 2480 of the control run simulation) performed with the algorithm, i.e. contains data of 125 years simulation of 100 members. Data is organized in blocks for each years. Every block contains the 4 NetCDF light file for each member and 4 files with full-size output that represent the mean state as the average of the 100 members. The 4 different file name accounts for the 4 different module output of the model: "data" for the atmosphere, "ice" for sea ice, "ocean" for the slab ocean layer in PlaSIM, lsg for LSG dynamical ocean. Time SeriesTime series of the AMOC index are contained in 10 files representing the 10 different simulations performed. In each file are present 125 .txt files, one for each year of the simulation with the algorithm on, with the annual average AMOC indices of the 100 members, and 380 .txt files, one for each year of the simulation with the algorithm off, with the annual average AMOC indices of the 20 members. Response Analysis REAResponse Analysis REA contains the script that generates Fig.2, Fig. S3, Fig. S5, Fig. S6 and Fig. S7 of the paper. In general it provides tools for data analysis of the climate response to an AMOC slowdown.  Be aware that data of the lsg module needs different processing.  AMOC Evolution REAAMOC Evolution REA contains the script that generates Fig.1, Fig. 4, Fig. 5, Fig. 6 and Fig. S2 of the paper. In general it provides tools for analysis of time series and scatter plots of the AMOC evolution.   Causes REACauses REA  contains the script that generates Fig.3, Fig. S4 of the paper. . In general it provides tools for analysis of driving elements of the AMOC decline. More information about these methods can be found in the "Triggering mechanisms" section of the paper.  Be aware that data of the lsg module needs different processing.

PROCRAFT Final Meeting – Preserving a Rare WWII Bomber by Lauren Horelick, Smithsonian Museum

Open the record for dataset details and reuse information.

opencc-by-4.0May 2021View details →

Figure 3 in Trichocline maxima (Compositae, Mutisieae) a rare Pampean daisy rediscovered after 70 years in Uruguay

Figure 3. Distribution map of Trichocline maxima. The orange dot represents the latest record of the species that is reported in this work. The black dot in Uruguay is from collections cited in the additional examined material section. The black dot in Brazil represents the possible location of Malme's (1931) citation of a Sellow's collection: Inter Rio Pardo et Bagé.

opencc-by-4.0May 2021View details →

Figure 1. A-G. Trichocline maxima. A in Trichocline maxima (Compositae, Mutisieae) a rare Pampean daisy rediscovered after 70 years in Uruguay

Figure 1. A-G. Trichocline maxima. A. General view of the species habit; B. Capitulum; C. Involucre; D. Detail of achene and pappus; E. Detail of rosette leaves, scapes and xylopodium; F. Detail of the rosette and lobate leaves; G. Habitat. Photos credits: A-C, F and G by José M. Bonifacino; D by Fábio P. Torchelsen.

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Data from: Only rare classical MHC-I alleles are highly expressed in the European house sparrow

The exceptional polymorphism observed within genes of the major histocompatibility complex (MHC), a core component of the vertebrate immune system, has long fascinated biologists. The highly polymorphic classical MHC class-I (MHC-I) genes are maintained by pathogen-mediated balancing selection (PMBS), as shown by many sites subject to positive selection, while the more monomorphic MHC-I genes show signatures of purifying selection. In line with PMBS, at any point in time, rare classical MHC alleles are more likely than common classical MHC alleles to confer a selective advantage in host-pathogen interactions. Combining genomic and expression data from the blood of wild house sparrows Passer domesticus, we found that only rare classical MHC-I alleles were highly expressed, while common classical MHC-I alleles were lowly expressed or not expressed. Moreover, highly expressed rare classical MHC-I alleles had more positively selected sites, indicating exposure to stronger PMBS, compared with lowly expressed classical alleles. As predicted, the level of expression was unrelated to allele frequency in the monomorphic non-classical MHC-I alleles. Going beyond previous studies, we offer a fine-scale view of selection on classical MHC-I genes in a wild population by revealing differences in the strength of PMBS according to allele frequency and expression level.

opencc-zeroFeb 2024View details →

Analysis of 3,760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

Abnormal gene expression and splicing play a key role in hematologic malignancy. Here, we provide a catalog of transcriptomic and genomic aberrations of 3,760 hematologic malignancy samples spanning 24 disease entities. This version contains 19,732 protein-coding genes from GRCh37 annotated by Gencode (v33b). doi: <a href="https://doi.org/10.1101/2023.08.08.23293420">https://doi.org/10.1101/2023.08.08.23293420</a>

opencc-zeroFeb 2024View details →

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Rare, long-distance dispersal underpins genetic connectivity in the pink sea fan, Eunicella verrucosa

Characterising patterns of genetic connectivity in marine species is of critical importance given the anthropogenic pressures placed on the marine environment. For sessile species, population connectivity can be shaped by many processes, such as pelagic larval duration, oceanographic boundaries, and currents. This study combines restriction-site associated DNA sequencing (RADseq) and passive particle dispersal modelling to delineate patterns of population connectivity in the pink sea fan, Eunicella verrucosa, a temperate octocoral. Individuals were sampled from 20 sites covering most of the species' northeast Atlantic range, and a site in the northwest Mediterranean Sea to inform on connectivity across the Atlantic-Mediterranean transition. Using 7,510 neutral SNPs, a geographic cline of genetic clusters was detected, partitioning into: Ireland, Britain, France, Spain (Atlantic), and Portugal and Spain (Mediterranean). Evidence of significant inbreeding was detected at all sites, a finding not detected in a previous study of this species based on microsatellite loci. Genetic connectivity was characterised by an isolation by distance pattern (IBD) (r2 = 0.78, p<0.001), which persisted across the Mediterranean-Atlantic boundary. In contrast, exploration of ancestral population assignment using the program ADMIXTURE indicated genetic partitioning across the Bay of Biscay, which we suggest represents a natural break in the species' range, possibly linked to a lack of suitable habitat. As the pelagic larval duration (PLD) is unknown, passive particle dispersal simulations were run for 14 and 21 days. For both modelled PLDs, inter-annual variations in particle trajectories suggested that in a long-lived, sessile species, range-wide IBD is driven by rare, longer dispersal events which act to maintain gene flow. These results suggest that oceanographic patterns may facilitate range-wide stepping-stone genetic connectivity in E. verrucosa, and highlight that both oceanography and natural breaks in a species' range should be considered in the designation of ecologically coherent MPA networks.

opencc-by-4.0Mar 2019View details →

Figure 2. Novorostrum decorocrus Osawa, 1998. A–C in The rare porcelain crab Novorostrum decorocrus Osawa, 1998 (Anomura: Porcellanidae) from Indonesia

Figure 2. Novorostrum decorocrus Osawa, 1998. A–C, Female, cl 4.3 mm, cw 4.3 mm (MZUSP 40089). D–E, Male, cl 3.0 mm, cw 3.0 mm (MZUSP 40088). (A, D) Cephalothorax, abdomen, and P5, dorsal view. (B, E) Right cheliped, dorsal view. (C, F) Left second ambulatory leg, lateral view. Scale bars = 1 mm.

opencc-by-4.0Mar 2019View details →

Figure 1. Novorostrum decorocrus Osawa, 1998 in The rare porcelain crab Novorostrum decorocrus Osawa, 1998 (Anomura: Porcellanidae) from Indonesia

Figure 1. Novorostrum decorocrus Osawa, 1998, ovigerous female, cl 4.3 mm, cw 4.3 mm (MZUSP 40089). A, Carapace, dorsal view. B, Right cheliped, dorsal view. C, Left second ambulatory leg, lateral view. D, Right ocular peduncle, cornea and antenna, dorsal view. Scale bars: (A–C) = 1 mm, (D) = 0.5 mm.

Fig. 1. Masona bulbofemoralis van Achterberg, 1995 in Small jewels: two new species of the rare genus Masona van Achterberg (Hymenoptera, Ichneumonoidea, Braconidae), with a catalogue of world species and comments on the peculiar morphology of the genus

Fig. 1. Masona bulbofemoralis van Achterberg, 1995, ♀ (DDPC). A. Habitus, lateral view. B. Habitus, dorsal view.

Fig. 14 in Small jewels: two new species of the rare genus Masona van Achterberg (Hymenoptera, Ichneumonoidea, Braconidae), with a catalogue of world species and comments on the peculiar morphology of the genus

Fig. 14. Distribution of [Masona] timpaynei Quicke, 2019 (Ichneumonidae, Neorhacodinae), in Western Australia.

Fig. 10. Masona prognatha van Achterberg, 1995 in Small jewels: two new species of the rare genus Masona van Achterberg (Hymenoptera, Ichneumonoidea, Braconidae), with a catalogue of world species and comments on the peculiar morphology of the genus

Fig. 10. Masona prognatha van Achterberg, 1995, holotype, ♀ (CNC). A. Habitus, dorsal view. B. Habitus, lateral view. Downloaded from the public CNC database (available also at https://www.cnc.agr.gc.ca/taxonomy/Taxonomy.php?id=3044).

Fig. 7 in Small jewels: two new species of the rare genus Masona van Achterberg (Hymenoptera, Ichneumonoidea, Braconidae), with a catalogue of world species and comments on the peculiar morphology of the genus

Fig. 7. Masona popeye Quicke & Chaul, 2019, holotype, ♀ (CELC). A. Habitus, dorsal view. B. Metasoma, lateral view.

Fig. 2. Propodeum, lateral view. A in Small jewels: two new species of the rare genus Masona van Achterberg (Hymenoptera, Ichneumonoidea, Braconidae), with a catalogue of world species and comments on the peculiar morphology of the genus

Fig. 2. Propodeum, lateral view. A. Masona popeye Quicke & Chaul, 2019, holotype, ♀ (CELC). B. Masona bulbofemoralis van Achterberg, 1995, ♀ (DDPC).

Fig. 6 in Small jewels: two new species of the rare genus Masona van Achterberg (Hymenoptera, Ichneumonoidea, Braconidae), with a catalogue of world species and comments on the peculiar morphology of the genus

Fig. 6. Head and pronotum, lateral view. A. Masona popeye Quicke & Chaul, 2019, holotype, ♀ (CELC). B. Masona neon Dal Pos & Martens sp. nov., holotype, ♀ (ASUHIC). Arrows indicates the projecting flange of the pronotum.