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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
Supplementary material 1 from: Heger T, Mietchen D, Jeschke JM (2024) Template for a Hypothesis Description paper. Research Ideas and Outcomes 10: e119808. https://doi.org/10.3897/rio.10.e119808
Template for a Hypothesis Description paper
Figure 3 from: Mesa-Varona O, Plaza-Rodríguez C, Valentin L, Filter M (2024) WarenstromInfo: a tool for the easy extraction and visualisation of trade flow data. Research Ideas and Outcomes 10: e112227. https://doi.org/10.3897/rio.10.e112227
Figure 3 WI User Interfaces: UI3. In the UI3, countries involved in the query can be selected (I and J). Input data from UI3 are included in the query by clicking "Next" (K).
Figure 5 from: Mesa-Varona O, Plaza-Rodríguez C, Valentin L, Filter M (2024) WarenstromInfo: a tool for the easy extraction and visualisation of trade flow data. Research Ideas and Outcomes 10: e112227. https://doi.org/10.3897/rio.10.e112227
Figure 5 A screenshot of the BACI SQLite database builder workflow. The workflow presented here is organised into two main sections, with interconnected KNIME nodes displayed in each section. The yellow-boxed nodes are responsible for creating and loading the database where the data are stored. The green-boxed section shows: Locate BACI csv files (BACI files must have been previously downloaded and stored in a folder that is pointed in the "List Files/Folders" KNIME node). Split the files according to the HS data provided and Load csv files, filtering and storage in SQLite database (carried out in each consecutive metanode). In this last section, the user can decide not to filter the data or customise the filter criteria of the BACI database, including more types of data apart from those agrifood data that are included in the default configuration of the workflow. Variable flow connections (red lines) can be removed in the second green-boxed section, if an HPC (High Performance Computing) service is available. This will allow the workflow to run much faster as the nodes will not be executed one after the other, but all at the same time.
Figure 4 from: Mesa-Varona O, Plaza-Rodríguez C, Valentin L, Filter M (2024) WarenstromInfo: a tool for the easy extraction and visualisation of trade flow data. Research Ideas and Outcomes 10: e112227. https://doi.org/10.3897/rio.10.e112227
Figure 4 WI User Interfaces: UI4. The UI4 provides an overview of the final WI outputs, displaying a list with the initial input variables (L), three maps displaying trade flows (a world map, a world map focused on Europe and an European map) (M), download options (N), slide filter bars for value and weight preview (O) and trade flow data in the preview table (P).
Figure 1 from: Mesa-Varona O, Plaza-Rodríguez C, Valentin L, Filter M (2024) WarenstromInfo: a tool for the easy extraction and visualisation of trade flow data. Research Ideas and Outcomes 10: e112227. https://doi.org/10.3897/rio.10.e112227
Figure 1 WI User Interfaces: UI1. In the UI1, users can select the desired database (EUROSTAT/BACI) (A). The database selection is concluded by clicking "Next" (B), which will lead the user to the following UI.
Figure 2 from: Mesa-Varona O, Plaza-Rodríguez C, Valentin L, Filter M (2024) WarenstromInfo: a tool for the easy extraction and visualisation of trade flow data. Research Ideas and Outcomes 10: e112227. https://doi.org/10.3897/rio.10.e112227
Figure 2 User Interfaces: UI2. In the UI2, the following input options can be selected: standard selection (C), time range of the search (D), the email option (E), the pre-filter option (F) and the table with the embedded live filter (G). Input data from UI2 are processed by clicking "Next" (H).
Figure 1 from: Liebal K, Denzer V, Eisenhauer N, Fritsche I, Kunzmann U, Oña L, Quaas MF, Staude I, Wirth C (2024) Biodiversity, mental health and well-being: psychological mechanisms and moderators of a complex relationship (BIOWELL). Research Ideas and Outcomes 10: e116333. https://doi.org/10.3897/rio.10.e116333
Figure 1 BIOWELL objectives and related work packages. We will use a mixed-method approach collecting data in controlled experimental field settings, uncontrolled field settings (marked with tree: forests, green spaces, gardens) and in the laboratory (marked with conical flask: e.g., eye-tracking experiments). WP5 will integrate the results of the single work packages and build a synthesised model at the end of the project term.
Figure 1 from: Livermore L, Little H, Goodwin JV, Orli S, Hardy H, Berger F, Braker E, Chapman J, Cohen L, Grant S, Grosso J, Jennings D, Mast A, Motz G, Nelson G, Rios N, Rossi V, Schuster F, Snyder RA, Sobers K, Sweeney P, Watson K, Wilkins A, Zaspel J, Zimkus BM, Zorich DM (2024) Digitization Coordination Workshop Report. Research Ideas and Outcomes 10: e120626. https://doi.org/10.3897/rio.10.e120626
Figure 1 Photograph of the workshop participants at the Smithsonian National Museum of Natural History taken by Mary Behlke - Smithsonian National Museum of Natural History.
Figure 5 from: Tilley LJ, Woodburn M, Vincent S, Casino A, Addink W, Berger F, Bogaerts A, De Smedt S, French L, Islam S, Mergen P, Nivart A, Papp B, Petersen M, Santos C, Schiller EK, Semal P, Smith VS, Wiltschke K (2024) Systematic Design of a Natural Sciences Collections Digitisation Dashboard. Research Ideas and Outcomes 10: e118244. https://doi.org/10.3897/rio.10.e118244
Figure 5 Third page of Pilot CDD, which helps users find the location of collections in Europe based on criteria: Storage, Digitisation level, Discipline, Taxonomy, Stratigraphy (Licence CC-BY).
Figure 4 from: Tilley LJ, Woodburn M, Vincent S, Casino A, Addink W, Berger F, Bogaerts A, De Smedt S, French L, Islam S, Mergen P, Nivart A, Papp B, Petersen M, Santos C, Schiller EK, Semal P, Smith VS, Wiltschke K (2024) Systematic Design of a Natural Sciences Collections Digitisation Dashboard. Research Ideas and Outcomes 10: e118244. https://doi.org/10.3897/rio.10.e118244
Figure 4 Second page of the CDD which provides a comparison view between the different institutes (Licence CC-BY).
Figure 6 from: Tilley LJ, Woodburn M, Vincent S, Casino A, Addink W, Berger F, Bogaerts A, De Smedt S, French L, Islam S, Mergen P, Nivart A, Papp B, Petersen M, Santos C, Schiller EK, Semal P, Smith VS, Wiltschke K (2024) Systematic Design of a Natural Sciences Collections Digitisation Dashboard. Research Ideas and Outcomes 10: e118244. https://doi.org/10.3897/rio.10.e118244
Figure 6 Presenting the page that appears when the 'See data' button is clicked on the third page of the Pilot CDD. The page provides actual object numbers for the different classification dimensions (Licence CC-BY).
Supplementary material 1 from: Borremans C, Durden J, Schoening T, Curtis EJ, Adams L, Branzan Albu A, Arnaubec A, Ayata S-D, Baburaj R, Bassin C, Beck M, Bigham KT, Boschen-Rose RE, Collett C, Contini M, Correa PVF, Dominguez-Carrió C, Dreyfus G, Duncan G, Ferrera M, Foulon V, Friedman A, Gaikwad S, Game C, Gaytán-Caballero A, Girard F, Giusti M, Hanafi-Portier M, Howell K, Hulevata I, Itiowe K, Jackett C, Jansen J, Karthäuser C, Katija K, Kernec M, Kim G, Kitahara M, Langenkämper D, Langlois T, Lanteri N, Jianping Li C, Li Q-R, Liabot P-O, Lindsay D, Loulidi A, Marcon Y, Marini S, Marranzino A, Massot-Campos M, Matabos M, Menot L, Moreno B, Morrissey M, Nakath D, Nattkemper T, Neufeld M, Obst M, Olu K, Parimbelli A, Pasotti F, Pelletier D, Perhirin M, Piechaud N, Pizarro O, Purser A, Rodrigues CF, Ceballos Romero E, Schlining B, Song Y, Sosik HM, Sourisseau M, Taormina B, Taucher J, Thornton B, Van Audenhaege L, von der Meden C, Wacquet G, Williams J, Witting K, Zurowietz M (2024) Report on the Marine Imaging Workshop 2022. Research Ideas and Outcomes 10: e119782. https://doi.org/10.3897/rio.10.e119782
Discussion question response data
Figure 2 from: Borremans C, Durden J, Schoening T, Curtis EJ, Adams L, Branzan Albu A, Arnaubec A, Ayata S-D, Baburaj R, Bassin C, Beck M, Bigham KT, Boschen-Rose RE, Collett C, Contini M, Correa PVF, Dominguez-Carrió C, Dreyfus G, Duncan G, Ferrera M, Foulon V, Friedman A, Gaikwad S, Game C, Gaytán-Caballero A, Girard F, Giusti M, Hanafi-Portier M, Howell K, Hulevata I, Itiowe K, Jackett C, Jansen J, Karthäuser C, Katija K, Kernec M, Kim G, Kitahara M, Langenkämper D, Langlois T, Lanteri N, Jianping Li C, Li Q-R, Liabot P-O, Lindsay D, Loulidi A, Marcon Y, Marini S, Marranzino A, Massot-Campos M, Matabos M, Menot L, Moreno B, Morrissey M, Nakath D, Nattkemper T, Neufeld M, Obst M, Olu K, Parimbelli A, Pasotti F, Pelletier D, Perhirin M, Piechaud N, Pizarro O, Purser A, Rodrigues CF, Ceballos Romero E, Schlining B, Song Y, Sosik HM, Sourisseau M, Taormina B, Taucher J, Thornton B, Van Audenhaege L, von der Meden C, Wacquet G, Williams J, Witting K, Zurowietz M (2024) Report on the Marine Imaging Workshop 2022. Research Ideas and Outcomes 10: e119782. https://doi.org/10.3897/rio.10.e119782
Figure 2 Polling results of discussion session 1 "Extent of imaging", question 1: "What are the barriers to increasing the extent of imaging the oceans?".
Figure 9 from: Borremans C, Durden J, Schoening T, Curtis EJ, Adams L, Branzan Albu A, Arnaubec A, Ayata S-D, Baburaj R, Bassin C, Beck M, Bigham KT, Boschen-Rose RE, Collett C, Contini M, Correa PVF, Dominguez-Carrió C, Dreyfus G, Duncan G, Ferrera M, Foulon V, Friedman A, Gaikwad S, Game C, Gaytán-Caballero A, Girard F, Giusti M, Hanafi-Portier M, Howell K, Hulevata I, Itiowe K, Jackett C, Jansen J, Karthäuser C, Katija K, Kernec M, Kim G, Kitahara M, Langenkämper D, Langlois T, Lanteri N, Jianping Li C, Li Q-R, Liabot P-O, Lindsay D, Loulidi A, Marcon Y, Marini S, Marranzino A, Massot-Campos M, Matabos M, Menot L, Moreno B, Morrissey M, Nakath D, Nattkemper T, Neufeld M, Obst M, Olu K, Parimbelli A, Pasotti F, Pelletier D, Perhirin M, Piechaud N, Pizarro O, Purser A, Rodrigues CF, Ceballos Romero E, Schlining B, Song Y, Sosik HM, Sourisseau M, Taormina B, Taucher J, Thornton B, Van Audenhaege L, von der Meden C, Wacquet G, Williams J, Witting K, Zurowietz M (2024) Report on the Marine Imaging Workshop 2022. Research Ideas and Outcomes 10: e119782. https://doi.org/10.3897/rio.10.e119782
Figure 9 Polling results of discussion session 3 "Automation", question 3: "What do you think is the biggest barrier to making AI systems applicable across datasets?".
Figure 7 from: Borremans C, Durden J, Schoening T, Curtis EJ, Adams L, Branzan Albu A, Arnaubec A, Ayata S-D, Baburaj R, Bassin C, Beck M, Bigham KT, Boschen-Rose RE, Collett C, Contini M, Correa PVF, Dominguez-Carrió C, Dreyfus G, Duncan G, Ferrera M, Foulon V, Friedman A, Gaikwad S, Game C, Gaytán-Caballero A, Girard F, Giusti M, Hanafi-Portier M, Howell K, Hulevata I, Itiowe K, Jackett C, Jansen J, Karthäuser C, Katija K, Kernec M, Kim G, Kitahara M, Langenkämper D, Langlois T, Lanteri N, Jianping Li C, Li Q-R, Liabot P-O, Lindsay D, Loulidi A, Marcon Y, Marini S, Marranzino A, Massot-Campos M, Matabos M, Menot L, Moreno B, Morrissey M, Nakath D, Nattkemper T, Neufeld M, Obst M, Olu K, Parimbelli A, Pasotti F, Pelletier D, Perhirin M, Piechaud N, Pizarro O, Purser A, Rodrigues CF, Ceballos Romero E, Schlining B, Song Y, Sosik HM, Sourisseau M, Taormina B, Taucher J, Thornton B, Van Audenhaege L, von der Meden C, Wacquet G, Williams J, Witting K, Zurowietz M (2024) Report on the Marine Imaging Workshop 2022. Research Ideas and Outcomes 10: e119782. https://doi.org/10.3897/rio.10.e119782
Figure 7 Polling results of discussion session 3 "Automation", question 1: "Which AI Frameworks are your lab using/planning to use?".
Figure 1 from: Borremans C, Durden J, Schoening T, Curtis EJ, Adams L, Branzan Albu A, Arnaubec A, Ayata S-D, Baburaj R, Bassin C, Beck M, Bigham KT, Boschen-Rose RE, Collett C, Contini M, Correa PVF, Dominguez-Carrió C, Dreyfus G, Duncan G, Ferrera M, Foulon V, Friedman A, Gaikwad S, Game C, Gaytán-Caballero A, Girard F, Giusti M, Hanafi-Portier M, Howell K, Hulevata I, Itiowe K, Jackett C, Jansen J, Karthäuser C, Katija K, Kernec M, Kim G, Kitahara M, Langenkämper D, Langlois T, Lanteri N, Jianping Li C, Li Q-R, Liabot P-O, Lindsay D, Loulidi A, Marcon Y, Marini S, Marranzino A, Massot-Campos M, Matabos M, Menot L, Moreno B, Morrissey M, Nakath D, Nattkemper T, Neufeld M, Obst M, Olu K, Parimbelli A, Pasotti F, Pelletier D, Perhirin M, Piechaud N, Pizarro O, Purser A, Rodrigues CF, Ceballos Romero E, Schlining B, Song Y, Sosik HM, Sourisseau M, Taormina B, Taucher J, Thornton B, Van Audenhaege L, von der Meden C, Wacquet G, Williams J, Witting K, Zurowietz M (2024) Report on the Marine Imaging Workshop 2022. Research Ideas and Outcomes 10: e119782. https://doi.org/10.3897/rio.10.e119782
Figure 1 In-person participants of the Marine Imaging Workshop 2022 (photo credit: Olivier Dugornay, Ifremer).
Figure 12 from: Borremans C, Durden J, Schoening T, Curtis EJ, Adams L, Branzan Albu A, Arnaubec A, Ayata S-D, Baburaj R, Bassin C, Beck M, Bigham KT, Boschen-Rose RE, Collett C, Contini M, Correa PVF, Dominguez-Carrió C, Dreyfus G, Duncan G, Ferrera M, Foulon V, Friedman A, Gaikwad S, Game C, Gaytán-Caballero A, Girard F, Giusti M, Hanafi-Portier M, Howell K, Hulevata I, Itiowe K, Jackett C, Jansen J, Karthäuser C, Katija K, Kernec M, Kim G, Kitahara M, Langenkämper D, Langlois T, Lanteri N, Jianping Li C, Li Q-R, Liabot P-O, Lindsay D, Loulidi A, Marcon Y, Marini S, Marranzino A, Massot-Campos M, Matabos M, Menot L, Moreno B, Morrissey M, Nakath D, Nattkemper T, Neufeld M, Obst M, Olu K, Parimbelli A, Pasotti F, Pelletier D, Perhirin M, Piechaud N, Pizarro O, Purser A, Rodrigues CF, Ceballos Romero E, Schlining B, Song Y, Sosik HM, Sourisseau M, Taormina B, Taucher J, Thornton B, Van Audenhaege L, von der Meden C, Wacquet G, Williams J, Witting K, Zurowietz M (2024) Report on the Marine Imaging Workshop 2022. Research Ideas and Outcomes 10: e119782. https://doi.org/10.3897/rio.10.e119782
Figure 12 Polling results of discussion session 5 "Future of marine imaging", question 1: "Where have you seen the biggest progress of marine imaging during this workshop?.
Figure 4 from: Borremans C, Durden J, Schoening T, Curtis EJ, Adams L, Branzan Albu A, Arnaubec A, Ayata S-D, Baburaj R, Bassin C, Beck M, Bigham KT, Boschen-Rose RE, Collett C, Contini M, Correa PVF, Dominguez-Carrió C, Dreyfus G, Duncan G, Ferrera M, Foulon V, Friedman A, Gaikwad S, Game C, Gaytán-Caballero A, Girard F, Giusti M, Hanafi-Portier M, Howell K, Hulevata I, Itiowe K, Jackett C, Jansen J, Karthäuser C, Katija K, Kernec M, Kim G, Kitahara M, Langenkämper D, Langlois T, Lanteri N, Jianping Li C, Li Q-R, Liabot P-O, Lindsay D, Loulidi A, Marcon Y, Marini S, Marranzino A, Massot-Campos M, Matabos M, Menot L, Moreno B, Morrissey M, Nakath D, Nattkemper T, Neufeld M, Obst M, Olu K, Parimbelli A, Pasotti F, Pelletier D, Perhirin M, Piechaud N, Pizarro O, Purser A, Rodrigues CF, Ceballos Romero E, Schlining B, Song Y, Sosik HM, Sourisseau M, Taormina B, Taucher J, Thornton B, Van Audenhaege L, von der Meden C, Wacquet G, Williams J, Witting K, Zurowietz M (2024) Report on the Marine Imaging Workshop 2022. Research Ideas and Outcomes 10: e119782. https://doi.org/10.3897/rio.10.e119782
Figure 4 Polling results of discussion session 1 "Extent of imaging", question 3: "Which area/volume does all image data you have ever worked with cover?".
ScienceDex guides
Understand access before you commit
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.