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opencc-by-4.0Apr 2022View details →

Shapefiles representing regions in alien species databases for 9 taxa

Shapefiles representing regions in alien species databases. 1- Regions_shapefile_amphibians_reptiles - created based on the regional information available in "Capinha, C. et al. Diversity, biogeography and the global flows of alien amphibians and reptiles. Divers Distrib 23, 1313–1322 (2017)." 2- Regions_shapefile_ants_mammals - provided by "Guénard, B., Weiser, M. D., Gómez, K., Narula, N. & Economo, E. P. The Global Ant Biodiversity Informatics (GABI) database: synthesizing data on the geographic distribution of ant species (Hymenoptera: Formicidae). Myrmecological News 24, 83–89 (2017)." 3- Regions_shapefile_birds -  created based on the regional information available in "Dyer, E. E., Redding, D. W. & Blackburn, T. M. The global avian invasions atlas, a database of alien bird distributions worldwide. Sci Data 4, 170041 (2017)." 4- Regions_shapefile_freshwater -  provided by "Tedesco, P. A. et al. A global database on freshwater fish species occurrence in drainage basins. Sci Data 4, 170141 (2017)." 5- Regions_shapefile_macrofungi -  created based on the regional information available in "Monteiro, M. et al. A database of the global distribution of alien macrofungi. Biodiversity Data Journal 8, e51459 (2020)." 6- Regions_shapefile_plants - provided by "Kleunen, M. et al. The Global Naturalised Alien Flora (GloNAF) database. Ecology 100, (2019)." 7- Regions_shapefile_spiders -  created based on the regional information shared by co-author Wolfgang Nentwig

Fake Medical Data representing examinations from different hospital deprtments

This data set includes examinations for a number of hypothetical patients in different hospital departments. They are organized in folders, one for each department. In each of these folders, a number of subfolders can be found, one for each patient. The files for the actual examinations can be found in the corresponding folder of each patient.

GazetteersScotland-KG: A Knowlege Graph for representing the Gazetteers of Scotland (1803-1901)

This Knowlege Graph represents the information of the "Gazeteers of Scotland" (years: 1803 - 1901) collection in RDF (ttl format). This collection comprises twenty volumes of the most popular descriptive gazetteers of Scotland in the 19th century. Principal places in Scotland, including towns, counties, castles, glens, antiquities and parishes, are listed alphabetically. Each entry includes detailed historical and geographical information about each place.  The raw dataset is provided by the NLS in this <a href="https://data.nls.uk/data/digitised-collections/gazetteers-of-scotland/">link</a>. As  other NLS data collections, they are originally provided using two XMLs schemas: METS  for descriptive, structural, technical and administrative metadata (Title, Author, Publisher, etc); and ALTO  for encoding the OCR text of a page. In this work, we have extracted the information from METS and ALTO XMLS using <a href="https://github.com/francesNLP/defoe">defoe</a> tool and developed a <a href="https://github.com/francesNLP/defoe/blob/master/defoe/nls/queries/write_metadata_pages_yml.py">new information extraction defoe query</a> , and created a new Knowlege Graph called GazetteersScotland-KG.  The GazetteersScotland-KG uses the <a href="https://francesnlp.github.io/NLS-ontology/doc/index-en.html">NLS Ontology </a>to represent the information extracted. Furthermore, during the information extraction phase, we have employed several techniques to mitigate two common OCR errors: long-S and the line-break hyphenation. The GazetteersScotland-KG contains 354,998 RDF triples. It has information from 12 series and 20 volumes: Each serie can have several Volumes. Each serie has an Editorm Publisher, mmsid, Shelf-Locator, publication year, etc.  A Volume has several Pages,  with text in them. The data model of the GazetteersScotland-KG can be found <a href="https://francesnlp.github.io/NLS-ontology/doc/dataModel.png">here</a>. <pre>  </pre>

LadiesDebating-KG: A Knowlege Graph for representing the "Edinburgh Ladies' Debating Society Digital Collection" (1865 - 1880)

This Knowlege Graph represents the information of the "Edinburgh Ladies’ Debating Society" (years: 1865 - 1880) collection in RDF (ttl format). This collection consists of the complete runs of two Edinburgh journals, ‘The Attempt’ (10 volumes, 1865-74) and its successor ‘The Ladies’ Edinburgh Magazine’ (6 volumes, 1875-80). These publications were produced by a leading Edinburgh women’s club, known during the period as the Edinburgh Essay Society or the Ladies’ Edinburgh Essay Society, but subsequently as the Ladies’ Edinburgh Debating Society. The Society existed from 1865 to 1935.  The raw dataset is provided by the NLS in this <a href="https://data.nls.uk/data/digitised-collections/edinburgh-ladies-debating-society/">link</a>. As  other NLS data collections, they are originally provided using two XMLs schemas: METS  for descriptive, structural, technical and administrative metadata (Title, Author, Publisher, etc); and ALTO  for encoding the OCR text of a page. In this work, we have extracted the information from METS and ALTO XMLS using <a href="https://github.com/francesNLP/defoe">defoe</a> tool and developed a <a href="https://github.com/francesNLP/defoe/blob/master/defoe/nls/queries/write_metadata_pages_yml.py">new information extraction defoe query</a> , and created a new Knowlege Graph called LadiesDebating-KG.  The LadiesDebating-KG uses the <a href="https://francesnlp.github.io/NLS-ontology/doc/index-en.html">NLS Ontology </a>to represent the information extracted. Furthermore, during the information extraction phase, we have employed several techniques to mitigate two common OCR errors: long-S and the line-break hyphenation. The LadiesDebating-KG contains 38,279 RDF triples. It has information from 2 series and 16 volumes: 'The attempt' serie has 10 volumes and  'The Ladies' serie has 6 volumes . Each serie has an Editor, mmsid, Shelf-Locator, publication year, etc.  A Volume has several Pages,  with text in them. The data model of the LadiesDebating-KG can be found <a href="https://francesnlp.github.io/NLS-ontology/doc/dataModel.png">here</a>. <pre> </pre>

ChapbooksScotland-KG: A Knowlege Graph for representing the "Chapbooks Printed In Scotland" (1671 - 1893)

This Knowlege Graph represents the information of the "Chapbooks Printed In Scotland" (years: 1671 - 1893) collection in RDF (ttl format). This dataset comprises more than 3,000 chapbooks printed in Scotland from the 17th to 19th century. They form part of the Lauriston Castle Collection, which was bequeathed to the Library in 1926. It includes some 500 chapbook volumes containing around 5,500 individual items, more than half of which were printed in Scotland.  The raw dataset is provided by the NLS in this <a href="https://data.nls.uk/data/digitised-collections/chapbooks-printed-in-scotland/">link</a>. As  other NLS data collections, they are originally provided using two XMLs schemas: METS  for descriptive, structural, technical and administrative metadata (Title, Author, Publisher, etc); and ALTO  for encoding the OCR text of a page. In this work, we have extracted the information from METS and ALTO XMLS using <a href="https://github.com/francesNLP/defoe">defoe</a> tool and developed a <a href="https://github.com/francesNLP/defoe/blob/master/defoe/nls/queries/write_metadata_pages_yml.py">new information extraction defoe query</a> , and created a new Knowlege Graph called ChapbooksScotland-KG.  The ChapbooksScotland-KG uses the <a href="https://francesnlp.github.io/NLS-ontology/doc/index-en.html">NLS Ontology </a>to represent the information extracted. Furthermore, during the information extraction phase, we have employed several techniques to mitigate two common OCR errors: long-S and the line-break hyphenation. The ChapbooksScotland-KG contains 352,270 RDF triples. It has information from 2728 series and 3080 volumes. Each serie can have several Volumes, Suplements, references to Books; it also has an Editor and a Publisher, which can be a Person or an Organization. A Volume has several Pages,  with text in them. The data model of the ChapbooksScotland-KG can be found <a href="https://francesnlp.github.io/NLS-ontology/doc/dataModel.png">here</a>.

opencc-by-4.0May 2022View details →

On the importance of representing snow over sea-ice for simulating the Arctic boundary layer

Correctly representing the snow on sea-ice in coupled numerical weather prediction models has great potential to improve weather forecast and climate monitoring applications, such as climate reanalyses, which are usually produced using such systems. In this study two different methodologies to account for the effect of the snowpack accumulating over the sea-ice in 5-day global forecasts are compared.  This dataset contains the high-resolution (dx=9km) model data for the different simulations, with and without the snow over sea-ice, co-located with observations at the locations of the SHEBA and N-ICE2015 field campaigns. The dataset also contains the daily averaged skin temperature, for the different simulations (interpolated on 0.25x0.25) performed over the extended time period, 2015-01-01 to 2015-02-28.

opencc-zeroJun 2022View details →

FIG. 3 in Parabintoniella papierae n. gen., n. sp., a new Triassic representative of the Bintoniellidae, a poorly known extinct family of Orthoptera (Insecta)

FIG. 3. — Summary of the assumed phylogenetic relationships of the taxa and species considered in this contribution (character states invariant under different hypotheses in dark grey): A, favoured hypothesis, assuming that Parabintoniella papierae n. gen., n. sp. is the sister-group of Eubintoniella ferganica Gorochov, 1987 and Bintoniella brodiei Handlirsch, 1939, owing to the occurrence of a simple MA in the forewing of these species; B, alternative hypothesis, assuming that Parabintoniella papierae n. gen., n. sp. is the sister-group of Oshiellinae, Eubintoniella ferganica and Bintoniella brodiei, owing to the occurrence of cross-veins between ScP veinlets in the forewing of Parabintoniella papierae n. gen., n. sp.

opencc-zeroJun 2022View details →

FIG. 1. — Parabintoniella papierae n. gen., n in Parabintoniella papierae n. gen., n. sp., a new Triassic representative of the Bintoniellidae, a poorly known extinct family of Orthoptera (Insecta)

FIG. 1. — Parabintoniella papierae n. gen., n. sp.: A, B, holotype, specimen 5589/5590, left forewing (collection Louis Grauvogel at the 'Staatlisches Museum für Naturkunde Stuttgart'); A, photograph, ventral aspect (5589), light-mirrored; B, drawing of venation (reconstructed parts in grey); C, D, specimen 9122a, b, right forewing (collection Louis Grauvogel at the 'Staatlisches Museum für Naturkunde Stuttgart'); C, photograph, ventral aspect (9122b), light-mirrored (the white frame indicates the section enlarged in Fig. 2); D, drawing of venation (reconstructed parts in grey). Scale bar: 4 mm.

opencc-zeroJun 2022View details →

FIG. 2. — Parabintoniella papierae n. gen., n in Parabintoniella papierae n. gen., n. sp., a new Triassic representative of the Bintoniellidae, a poorly known extinct family of Orthoptera (Insecta)

FIG. 2. — Parabintoniella papierae n. gen., n. sp., specimen 9122b (collection Louis Grauvogel at the ' Staatlisches Museum für Naturkunde Stuttgart'), photograph of detail of medio-cubital area (location as shown with a white frame in Fig. 1C); the sign * indicates the area where the free basal portion of CuPaα, present in the Orthoptera groundplan but absent in the Bintoniellidae, could be expected to occur. Scale bar: 2 mm.

opencc-by-4.0Jul 2022View details →

Supplementary data for "How adequately are elevated moist layers represented in reanalysis and satellite observations?"

The NetCDF files are the collocation datasets over Manus Island between GRUAN radiosondes, ERA5, the CLIMCAPS Aqua Level 2 retrieval dataset and the IASI L2 Climate Data Record (CDR). The collocation criteria are 30 minutes and 50 km. Additional filter criteria for the individual datasets and processing steps are described in the manuscript. The datasets are created using the collocation toolkit included in the python package "typhon". Variables in each dataset are split into two groups that represent the two collocated datasets. Each group contains a selection of the original dataset's variables, which are used in the manuscript such as H2O VMR, temperature, cloud fraction, etc. The variables are organized along the dimension "collocation" and along dataset and variable specific additional dimensions. Further documentation about the collocation toolkit and the structure of the resulting datasets can be found at https://github.com/atmtools/typhon.

Fig. 7 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 7. Martensina thailandica gen. et sp. nov. A–B, D. Holotype, ♂ (MSU-ZOC.317). C, E. Paratype, ♂ (MSU-ZOC.319). A. T3. B. CR attachment. C. CR. D. Hemipenis. E. Zenker organ. Arrow indicates reticulated structure. Scale bars = 100 μm.

Fig. 5 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 5. Martensina thailandica gen. et sp. nov., holotype, ♂ (MSU-ZOC.317). A. Md-coxa. B. Md-palp. B'. Md-palp, α, β, γ setae. C. Mx1. Scale bars: A–B = 100 μm; C = 50 μm.

Fig. 6 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 6. Martensina thailandica gen. et sp. nov. A–C, E. Holotype, ♂ (MSU-ZOC.317). D. Allotype, ♀ (MSU-ZOC.318). A. Right T1. B. T1, left prehensile palp. C. T1 protopodite. D. T1 endopodite. E. T2. Scale bars: A–B, D–E = 100 μm; C = 50 μm.

Fig. 2 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 2. Martensina thailandica gen. et sp. nov. A–F. Paratype, ♂ (MSU-ZOC.319). G–H. Allotype, ♀ (MSU-ZOC.318). A. LV, internal view. B. RV, internal view. C. LV, internal view, posterior part. D. LV, internal view, anterior part. E. RV, internal view, anterior part. F. RV, internal view, posterior part. G. LV, internal view. H. RV, internal view. Scale bars: A–B, G–H = 200 μm; C–F = 100 μm.

Fig. 4 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 4. Martensina thailandica gen. et sp. nov. A–B. Holotype, ♂ (MSU-ZOC.317). C. Allotype, ♀ (MSU-ZOC.318). A. A1. B. A2. C. A2, last two segments. Scale bars = 100 μm.

Fig. 3 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 3. Martensina thailandica gen. et sp. nov., allotype, ♀ (MSU-ZOC.318). A. LV, internal view, posterior part. B. LV, internal view, anterior part. C. LV, internal view, muscle scars. D. RV, internal view, anterior part. E. RV, internal view, posterior part. Scale bars: A–B, D–E = 100 μm; C = 50 μm.

Fig. 1 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 1. Martensina thailandica gen. et sp. nov., paratypes. A–E. Males. F–I. Females. A. Cp, dorsal view (MSU-ZOC.321). B. Cp, ventral view (MSU-ZOC.324). C. Cp, left lateral view (MSU-ZOC.322). D. Cp, right lateral view (ditto). E. Cp, left lateral view, valve surface (ditto). F. Cp, left lateral view, valve surface (MSU-ZOC.330). G. Cp, dorsal view (MSU-ZOC.329). H. Cp, left lateral view (MSUZOC.330). I. Cp, right lateral view (ditto). Scale bars: A–D, G–I = 200 μm; E–F = 10 μm.

Fig. 8 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 8. Martensina thailandica gen. et sp. nov., allotype, ♀ (MSU-ZOC.318). A. T2. B. T3. C. CR. Scale bars = 100 μm.

opencc-by-4.0Feb 2022View details →

Text-fig. 6. Stratigraphic and phylogenetic placement inferred for fossil Fraxinus fruits. Only Fraxinus fossil fruits identified on the section level are included. The black color represents selected fossil fruits from published literature (excluding some Eocene North American occurrences not assigned to section), the red color represents the fossil fruits from the Lühe flora, Yunnan, Southwest China. The phylogenetic relationships are based on Hinsinger et al. (2013). in Fraxinus L. (Oleaceae) Fruits From The Early Oligocene Of Southwest China And Their Biogeographic Implications

Text-fig. 6. Stratigraphic and phylogenetic placement inferred for fossil Fraxinus fruits. Only Fraxinus fossil fruits identified on the section level are included. The black color represents selected fossil fruits from published literature (excluding some Eocene North American occurrences not assigned to section), the red color represents the fossil fruits from the Lühe flora, Yunnan, Southwest China. The phylogenetic relationships are based on Hinsinger et al. (2013).