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OneSky customers can choose between different sources after feeding their text or string files into the system, for example simple machine translation, professional agencies and/or crowd-sourced translation (files can be uploaded to OneSky or handled by the platform's API).
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Since the database file structure is governed by the k-mer length, each unique combination of a reference string file and k-mer length will require its own database creation.
BioChem accepts a SMILES string, *.SDF file and *.SMI file as the input; the BioProt accepts a single protein FASTA sequence string or protein *.FASTA file as the input; the BioDNA accepts a DNA/RNA FASTA sequence string or DNA/RNA *.FASTA file as the input.
We map these to the corresponding Ensembl identifiers using the STRING alias file (30) and GO terms using the UniProtKB controlled vocabulary of subcellular localizations.
Our SIREN predictions on the prostate cancer GRN included 454 interactions for which no regulatory type existed in STRING (Additional file 3).
The protein-protein interactions of 16 up-regulated transcripts coding for proteins in the p53 signaling pathway 4 hours after irradiation were visualized with STRING (Additional file 9).
To enable comparison and integration of these sources, we mapped all miRNAs to miRbase identifiers and all targets to Ensembl protein identifiers (ENSPs) using the STRING aliases file (Franceschini et al., 2013).
When run through the Perl validator script (validtma.pl), Example 4 produces the following results, consisting of a list of the used tags, a statement that the XML file parsed as a valid TMA file, and an authentication string for the file.
The interaction network was constructed using the annotated unigenes of S. japonica in comparison with genes with at least one known protein-protein association and links of the six genomes in STRING database (additional file 10 and additional file 11).
Major changes included 64-bit support, Unicode string representation, large file support (i.e. files over 2 GiB) and the "our" keyword.
If it can, the guesser indexes the target hard drive and creates a dictionary out of every printable string, including deleted files.
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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