Merge pull request #506 from NFDI4BIOIMAGE/git-bob-mod-q9BAyACpwG

Add content from communities: nfdi4bioimage, gerbi, euro-bioimaging, neubias, bio-formats, globias, rdm4mic

resources/nfdi4bioimage.yml

@@ -8678,4 +8678,69 @@ resources:
   url:
   - https://zenodo.org/records/8139354
   - https://doi.org/10.5281/zenodo.8139354
-
+  - authors:
+  - Kunis, Susanne
+  - Dohle, Julia
+  description: "Provides an overview of contexts, frameworks, and models from the\
+    \ world of bioimage data as well as metadata. Visualizes the techniques for structuring\
+    \ this data as Linked Data. (Walkthrough Video: https://doi.org/10.5281/zenodo.7018928\
+    \ )\n\nContent:\n\n\n\tTypes of metadata\n\tData formats\n\tData Models Microscopy\
+    \ Data\n\tTools to edit/gather metadata\n\tISA Framework\n\tFDO Framework\n\t\
+    Ontology\n\tRDF\n\tJSON-LD\n\tSPARQL\n\tKnowledge Graph\n\tLinked Data\n\tSmart\
+    \ Data\n\t...\n"
+  license: cc-by-4.0
+  name: 'Structuring of Data and Metadata in Bioimaging: Concepts and technical Solutions
+    in the Context of Linked Data'
+  num_downloads: 704
+  publication_date: '2022-07-12'
+  submission_date: '2024-11-19T15:37:57.161475'
+  url:
+  - https://zenodo.org/records/7018750
+  - https://doi.org/10.5281/zenodo.7018750
+- authors:
+  - Kunis
+  description: 'This thesis deals with concepts and solutions in the field of data
+    management in everyday scientific life for image data from microscopy. The focus
+    of the formulated requirements has so far been on published data, which represent
+    only a small subset of the data generated in the scientific process. More and
+    more, everyday research data are moving into the focus of the principles for the
+    management of research data that were formulated early on (FAIR-principles). The
+    adequate management of this mostly multimodal data is a real challenge in terms
+    of its heterogeneity and scope. There is a lack of standardised and established
+    workflows and also the software solutions available so far do not adequately reflect
+    the special requirements of this area. However, the success of any data management
+    process depends heavily on the degree of integration into the daily work routine.
+    Data management must, as far as possible, fit seamlessly into this process. Microscopy
+    data in the scientific process is embedded in pre-processing, which consists of
+    preparatory laboratory work and the analytical evaluation of the microscopy data.
+    In terms of volume, the image data often form the largest part of data generated
+    within this entire research process. In this paper, we focus on concepts and techniques
+    related to the handling and description of this image data and address the necessary
+    basics. The aim is to improve the embedding of the existing data management solution
+    for image data (OMERO) into the everyday scientific work. For this purpose, two
+    independent software extensions for OMERO were implemented within the framework
+    of this thesis: OpenLink and MDEmic. OpenLink simplifies the access to the data
+    stored in the integrated repository in order to feed them into established workflows
+    for further evaluations and enables not only the internal but also the external
+    exchange of data without weakening the advantages of the data repository. The
+    focus of the second implemented software solution, MDEmic, is on the capturing
+    of relevant metadata for microscopy. Through the extended metadata collection,
+    a corresponding linking of the multimodal data by means of a unique description
+    and the corresponding semantic background is aimed at. The configurability of
+    MDEmic is designed to address the currently very dynamic development of underlying
+    concepts and formats. The main goal of MDEmic is to minimise the workload and
+    to automate processes. This provides the scientist with a tool to handle this
+    complex and extensive task of metadata acquisition for microscopic data in a simple
+    way. With the help of the software, semantic and syntactic standardisation can
+    take place without the scientist having to deal with the technical concepts. The
+    generated metadata descriptions are automatically integrated into the image repository
+    and, at the same time, can be transferred by the scientists into formats that
+    are needed when publishing the data.'
+  name: Engineering a Software Environment for Research Data Management of Microscopy
+    Image Data in a Core Facility
+  num_downloads: 60
+  publication_date: '2022-05-30'
+  submission_date: '2024-11-19T15:37:57.429914'
+  url:
+  - https://zenodo.org/records/6905931
+  - https://doi.org/10.5281/zenodo.6905931