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Tytuł pozycji:

Metabolic networks of the Nicotiana genus in the spotlight: content, progress and outlook.

Tytuł :
Metabolic networks of the Nicotiana genus in the spotlight: content, progress and outlook.
Autorzy :
Foerster H; Boyce Thompson Institute.
Battey JND; PMI R&D, Philip Morris Products S.A.
Sierro N; PMI R&D, Philip Morris Products S.A.
Ivanov NV; PMI R&D, Philip Morris Products S.A.
Mueller LA; Boyce Thompson Institute.
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Źródło :
Briefings in bioinformatics [Brief Bioinform] 2020 Jul 14. Date of Electronic Publication: 2020 Jul 14.
Publication Model :
Ahead of Print
Typ publikacji :
Journal Article
Język :
English
Imprint Name(s) :
Original Publication: London ; Birmingham, AL : H. Stewart Publications, [2000-
Contributed Indexing :
Keywords: data quality; database development; literature coverage; manual curation; taxon-specific databases
Entry Date(s) :
Date Created: 20200715 Latest Revision: 20200714
Update Code :
20210301
DOI :
10.1093/bib/bbaa136
PMID :
32662816
Czasopismo naukowe
Manually curated metabolic databases residing at the Sol Genomics Network comprise two taxon-specific databases for the Solanaceae family, i.e. SolanaCyc and the genus Nicotiana, i.e. NicotianaCyc as well as six species-specific databases for Nicotiana tabacum TN90, N. tabacum K326, Nicotiana benthamiana, N. sylvestris, N. tomentosiformis and N. attenuata. New pathways were created through the extraction, examination and verification of related data from the literature and the aid of external database guided by an expert-led curation process. Here we describe the curation progress that has been achieved in these databases since the first release version 1.0 in 2016, the curation flow and the curation process using the example metabolic pathway for cholesterol in plants. The current content of our databases comprises 266 pathways and 36 superpathways in SolanaCyc and 143 pathways plus 21 superpathways in NicotianaCyc, manually curated and validated specifically for the Solanaceae family and Nicotiana genus, respectively. The curated data have been propagated to the respective Nicotiana-specific databases, which resulted in the enrichment and more accurate presentation of their metabolic networks. The quality and coverage in those databases have been compared with related external databases and discussed in terms of literature support and metabolic content.
(© The Author(s) 2020. Published by Oxford University Press.)

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