Article ; Online: The field of protein function prediction as viewed by different domain scientists.
Bioinformatics advances
2022 Volume 2, Issue 1, Page(s) vbac057
Abstract: Motivation: Experimental biologists, biocurators, and computational biologists all play a role in characterizing a protein's function. The discovery of protein function in the laboratory by experimental scientists is the foundation of our knowledge ... ...
| Abstract | Motivation: Experimental biologists, biocurators, and computational biologists all play a role in characterizing a protein's function. The discovery of protein function in the laboratory by experimental scientists is the foundation of our knowledge about proteins. Experimental findings are compiled in knowledgebases by biocurators to provide standardized, readily accessible, and computationally amenable information. Computational biologists train their methods using these data to predict protein function and guide subsequent experiments. To understand the state of affairs in this ecosystem, centered here around protein function prediction, we surveyed scientists from these three constituent communities. Results: We show that the three communities have common but also idiosyncratic perspectives on the field. Most strikingly, experimentalists rarely use state-of-the-art prediction software, but when presented with predictions, report many to be surprising and useful. Ontologies appear to be highly valued by biocurators, less so by experimentalists and computational biologists, yet controlled vocabularies bridge the communities and simplify the prediction task. Additionally, many software tools are not readily accessible and the predictions presented to the users can be broad and uninformative. We conclude that to meet both the social and technical challenges in the field, a more productive and meaningful interaction between members of the core communities is necessary. Availability and implementation: Data cannot be shared for ethical/privacy reasons. Supplementary information: Supplementary data are available at |
|---|---|
| Language | English |
| Publishing date | 2022-08-17 |
| Publishing country | England |
| Document type | Journal Article |
| ISSN | 2635-0041 |
| ISSN (online) | 2635-0041 |
| DOI | 10.1093/bioadv/vbac057 |
| Database | MEDical Literature Analysis and Retrieval System OnLINE |
More links
Kategorien
Order via subito
This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.
Inter-library loan at ZB MED
Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.