Search Constraints
Search Results
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2023
Journal article
Global access to nomenclatural botanical resources: Evaluating open access availability.
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2023
Abstract
Connecting the Dots: Aligning human capacity through networks toward a globally interoperable Digital Extended Specimen (DES) infrastructure.
Thanks to substantial support for biodiversity data mobilization in recent decades, billions of occurrence records are openly available, documenting life on Earth and enabling timely research, awareness raising, and policy-making. Initiatives across local to global scales have been separately funded to serve different, yet often overlapping audiences of data users,...Ellwood, Elizabeth R. ; Addink, Wouter ; Bates, John ; Bentley, Andrew ; Buschbom, Jutta …
Collaboration, Biodiversity, Digital Extended Specimen (DES), International partners, and Roadmap
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2022
Journal article
Recommendations for interoperability among infrastructures.
The BiCIKL project is born from a vision that biodiversity data are most useful if they are presented as a network of data that can be integrated and viewed from different starting points. BiCIKL’s goal is to realise that vision by linking biodiversity data infrastructures, particularly for literature, molecular sequences,...Meeus, Sofie ; Addink, Wouter ; Agosti, Donat ; Arvanitidis, Christos ; Balech, Bachir …
Hackathon, Wikidata, Biodiversity informatics, Cloud computing, Linking, Data standards, API, and FAIR data
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2022
Journal article
Open science tools: Supporting hands-on creation of the "digital extended specimen".
As a biodiversity informatics community, we have mobilised and interconnected a wide array of information, including specimen collections, published literature and metadata resources, which compile facts about collections and the people that work with them. We have defined data standards to facilitate data interoperability and tools development. Along with colleagues...Nicolson, Nicky ; Lucas, Eve
Document production, Open science, Research tools, Digital specimens, and Record linkage
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2017
Conference paper (published)
Identifying Novel Features from Specimen Data for the Prediction of Valuable Collection Trips.
Primary biodiversity data provide “what, where, and when” data points: the assertion that a species occurred at a particular point in space and time. These are most valuable when associated with specimens stored in natural history museums and herbaria, which evidence the assertions with reference to a physical specimen. The...Nicolson, Nicky ; Tucker, Allan
Collecting trip, Identification, Specimen data, Data-mining, Collectors, and Metadata
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2020
Journal article
People are essential to linking biodiversity data.
People are one of the best known and most stable entities in the biodiversity knowledge graph. The wealth of public information associated with people and the ability to identify them uniquely open up the possibility to make more use of these data in biodiversity science. Person data are almost always...Groom, Quentin ; Güntsch, Anton ; Huybrechts, Pieter ; Kearney, Nicole ; Leachman, Siobhan …
Natural history collections, Specimen data, Biodiversity data, Collectors, and Metadata
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2019
Abstract
Examining Herbarium Specimen Citation: Developing a literature-based institutional impact measure.
Herbarium specimens are critical components of the research process - providing "what, where, when" evidence for species distributions and through type designation, providing the basis for un-ambiguous, standardised nomenclature facilitating the interpretation of scientific names. Specimen references are embedded within research article texts, by convention usually presented in a relatively...Nicolson, Nicky ; Paton, Alan ; Phillips, Sarah ; Tucker, Allan
Text classification, Specimen citation, Text mining, and Citation metrics
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2019
Abstract
Integrating Collector and Author Roles Across Specimen and Publication Datasets.
This work builds on the outputs of a collector data-mining exercise applied to GBIF mobilised herbarium specimen metadata, which uses unsupervised learning (clustering) to identify collectors from minimal metadata associated with field collected specimens (the DarwinCore terms , and ). Here, we outline methods to integrate these data-mined collector entities...Nicolson, Nicky ; Paton, Alan ; Phillips, Sarah ; Tucker, Allan
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2019
Abstract
Progress in Authority Management of People Names for Collections.
The concept of building a network of relationships between entities, a knowledge graph, is one of the most effective methods to understand the relations between data. By organizing data, we facilitate the discovery of complex patterns not otherwise evident in the raw data. Each datum at the nodes of a...Groom, Quentin ; Besombes, Chloé ; Brown, Josh ; Chagnoux, Simon ; Georgiev, Teodor …
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2018
Conference paper (published)
Specimens as Research Objects: Reconciliation Across Distributed Repositories to Enable Metadata Propagation
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2022
Journal article
Harnessing Large-Scale Herbarium Image Datasets Through Representation Learning.
The mobilization of large-scale datasets of specimen images and metadata through herbarium digitization provide a rich environment for the application and development of machine learning techniques. However, limited access to computational resources and uneven progress in digitization, especially for small herbaria, still present barriers to the wide adoption of these...Walker, Barnaby E. ; Tucker, Allan ; Nicolson, Nicky
Machine learning, Natural history collections, Digitized herbarium specimens, Deep learning, and Computer vision
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2020
Journal article
Quality issues in georeferencing: From physical collections to digital data repositories for ecological research
Natural history collections constitute an enormous wealth of information of Life on Earth. It is estimated that over 2 billion specimens are preserved at institutions worldwide, of which less than 10% are accessible via biodiversity data aggregators such as GBIF. Moreover, they are a very important resource for eco‐evolutionary research,... -
2020
Journal article
Plant and fungal collections: Current status, future perspectives.
Societal Impact Statement Plant and fungal specimens provide the auditable evidence that a particular organism occurred at a particular place, and at a particular point in time, verifying past occurrence and distribution. They also document the aspects of human exploration and culture. Collectively specimens form a global asset with significant... -
2019
Doctoral thesis
Automating the construction of higher order data representations from heterogeneous biodiversity datasets
Datasets created from large-scale specimen digitisation drive biodiversity research, but these are often heterogeneous: incomplete and fragmented. As aggregated data volumes increase, there have been calls to develop a “biodiversity knowledge graph” to better interconnect the data and support meta-analysis, particularly relating to the process of species description. This work...Nicolson, Nicky
Clustering, Specimen digitisation, Biodiversity informatics, Machine learning, and Record linkage