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Figure 3 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Figure 3 The core elements of the PROV standard and their structure (recreated from Thessen et al. 2019 Appendix A, fig. S1, CC-BY 4.0; based on the PROV Model Primer, Copyright ©2013 W3C® (MIT, ERCIM, Keio, Beihang), All Rights Reserved. W3C liability rules, trademark rules and document use rules apply.)
Figure 22 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Figure 22 EXAMPLE CODE 17: The policy life-cycle: an offer (with links to PROV objects) and request (with links to PROV objects) evolve into a contractual agreement as the basis for a machine-actionable assessment, including a final human decision step, in preparation of and leading up to a loan event.
Figure 2 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Figure 2 Sections from the GGBN webpage on a seashell sample (Astarte montagui (Dillwyn, 1817) Catalogue Number ABMBS 172-10 of the Centre of Biodiversity Genomics, Canada), showing how the GGBN Permit Vocabulary and GGBN Loan Vocabulary (from the "GGBN data standard v1") is used by the GGBN data portal.
Figure 1b from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Figure 1b At the closing of the first decade of the 21st century the costs of genetic sequencing dropped fundamentally, coinciding with soaring numbers of publicly available sequences. After that time the growth rate of sequence numbers decreased. - European Nucleotide Archive data growth of sequence and bases reads (copied from Harrison et al. (2020))
Figure 1a from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Figure 1a At the closing of the first decade of the 21st century the costs of genetic sequencing dropped fundamentally, coinciding with soaring numbers of publicly available sequences. After that time the growth rate of sequence numbers decreased. - Decreasing sequencing costs, recorded by the US National Human Genome Research Institute NHGRI (data from Wetterstrand 2021)
Figure 16 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Figure 16 EXAMPLE CODE 11: Adding information on rights associated with the CMS record and annotation itself
Supplementary material 9 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Summary of JSON-LD code for the loan use case
Supplementary material 8 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Permit Names US & EU
Supplementary material 7 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
SPNHC Categories of Legal/Compliance Documentation
Supplementary material 6 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
GGBN vocabulary for loans, version 1
Supplementary material 5 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
GGBN vocabulary for permits, version 1
Supplementary material 4 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Legal characteristics of every Term for Biodiversity Specimens
Supplementary material 3 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Links to Australian legislation related to biodiversity
Supplementary material 1 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
The Biodiversity Permit/Contract Typology - 38 Document Types
Supplementary material 2 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
The Typology of Legal/Contractual Terms for Biodiversity Specimens - 87 terms
Supplementary material 10 from: Schiller EK, Wiltschke-Schrotta K, Häffner E, Buschbom J, Leliaert F, Zimkus BM, Dickie JB, Gomes SR, Lyal CH.C, Mulcahy D, Paton A, Droege G (2024) Permits, contracts and their terms for biodiversity specimens. Research Ideas and Outcomes 10: e114366. https://doi.org/10.3897/rio.10.e114366
Questionnaire on using molecular biological collections
Figure 9 from: Villegas-Luján R, Plowes R, Gilbert LE, Rodríguez JC, Canales-del-Castillo R, Gallegos-Morales G, España-Luna MP, Fernández-Triana J, Sanchez-Peña SR (2024) Redescription of Apanteles mimoristae (Hymenoptera, Braconidae), a parasitoid of the native pyralid cactus moth Melitara cf. nephelepasa in central Mexico. Journal of Hymenoptera Research 97: 207-228. https://doi.org/10.3897/jhr.97.117514
Figure 9 Turquoise-colored larvae of Apanteles mimoristae Muesebeck (Braconidae: Microgastrinae) next to a dead caterpillar of Melitara cf. nephelepasa (Pyralidae) (zebra worm), inside an opened Opuntia ficus-indica (Cactaceae) pad. The blue-turquoise color of the wasp larvae indicates feeding on caterpillar hemolymph, which has a similar color. The arrow indicates the caterpillar's characteristic whitish stripes.
Figure 8 from: Villegas-Luján R, Plowes R, Gilbert LE, Rodríguez JC, Canales-del-Castillo R, Gallegos-Morales G, España-Luna MP, Fernández-Triana J, Sanchez-Peña SR (2024) Redescription of Apanteles mimoristae (Hymenoptera, Braconidae), a parasitoid of the native pyralid cactus moth Melitara cf. nephelepasa in central Mexico. Journal of Hymenoptera Research 97: 207-228. https://doi.org/10.3897/jhr.97.117514
Figure 8 Maximum likelihood (1000 reps) tree for Apanteles mimoristae and related species. Arrows indicate Apanteles mimoristae, A. esthercentenoae, A. alexanderi and A. opuntiarum.
Figure 7 from: Villegas-Luján R, Plowes R, Gilbert LE, Rodríguez JC, Canales-del-Castillo R, Gallegos-Morales G, España-Luna MP, Fernández-Triana J, Sanchez-Peña SR (2024) Redescription of Apanteles mimoristae (Hymenoptera, Braconidae), a parasitoid of the native pyralid cactus moth Melitara cf. nephelepasa in central Mexico. Journal of Hymenoptera Research 97: 207-228. https://doi.org/10.3897/jhr.97.117514
Figure 7 Bayesian tree for Apanteles mimoristae and related species. Arrows indicate Apanteles mimoristae, A. esthercentenoae, A. alexanderi and A. opuntiarum.
Figure 5 from: Villegas-Luján R, Plowes R, Gilbert LE, Rodríguez JC, Canales-del-Castillo R, Gallegos-Morales G, España-Luna MP, Fernández-Triana J, Sanchez-Peña SR (2024) Redescription of Apanteles mimoristae (Hymenoptera, Braconidae), a parasitoid of the native pyralid cactus moth Melitara cf. nephelepasa in central Mexico. Journal of Hymenoptera Research 97: 207-228. https://doi.org/10.3897/jhr.97.117514
Figure 5 Apanteles mimoristae Muesebeck, female A T1, dorsal view, rough surface and posterior margin with two latersal depressions B metasoma dorsal view C metasoma lateral view, lateral setae on second and third tergite D ovipositor sheaths. Arrows in A–C indicate smooth surface of T2.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.