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In total, almost 78.5% sequences received annotation in this way.
Using the de novo assembly strategy, a database with 74,797 contigs was established, and 51,968 (69.5%) of them received annotation information from NCBI, KEGG and GO databases.
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TAIR received annotations for 12 of these articles (16%).
Since October 2010, when the wiki function became operational, we have registered 37 labs and received annotations from 7 labs to 139 genes (74 excluding edits made by TGD Wiki personnel).
The ORF annotation was performed by searching the Swiss-Prot database using BLAST2GO [ 25], and a total of 21,019 consensus ORFs (23.5%) had blast hits with the database, with 19,277 (21.5%) of these receiving annotation with Gene Ontology (GO) terms (see Additional file 4).
Contigs receiving annotations from MAKER2 were extracted and put into separate FASTA files for each species using the gff3_merge and maker2zff utility scripts (Cantarel et al., 2008).
This provided additional annotation based on conserved structural domains; 40,573 transcripts received InterPro annotation.
Annotation of SCL is of course ongoing in the research community, and 72 mouse proteins (106 PPIs) without GO CC annotation at the time we carried out this inference subsequently received independent annotation based on experimentally determined SCL and were accessioned into the LOCSCL section of the LOCATE database [ 58].
To ensure that these results were not an artifact of the IPA annotation process, which could potentially be biased towards more recently evolved genes, we compared the distributions of the set of disease genes that received no annotation (788) as well as the set that received at least one annotation (1939) to the null model of all OMIM genes.
Around 1,300 transcripts received GO annotation 'DNA binding,' of which around 400 were also were annotated with the more specific GO term 'sequence-specific DNA binding transcription factor activity.' These sequences likely represented expressed transcription factors involved in regulation of gene expression during fruit development and ripening.
ORFs received the annotation associated with that HMM for all equivalog-level matches.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com