Selected article for: "multiple sequence and sequence alignment"
Author: Hölzer, Martin; Schoen, Andreas; Wulle, Julia; Müller, Marcel A.; Drosten, Christian; Marz, Manja; Weber, Friedemann
Title: Virus- and Interferon Alpha-Induced Transcriptomes of Cells from the Microbat Myotis daubentonii
  • Document date: 2019_8_10
    • ID: 0co6m9af_54
    Snippet: We used blastx (v2.4.0+) against the Uniprot/SwissProt database created with the Trinotate pipeline (v3.0.2; https://trinotate.github.io/) to extend the Ensembl gene annotation of M. lucifugus. All blast hits that were considered as true positive hits had to meet an E-value threshold of 10 -4 , a sequence identity of at least 50% and an alignment length of at least 50%. If multiple hits for one sequence passed our filter settings, we selected the.....
    Document: We used blastx (v2.4.0+) against the Uniprot/SwissProt database created with the Trinotate pipeline (v3.0.2; https://trinotate.github.io/) to extend the Ensembl gene annotation of M. lucifugus. All blast hits that were considered as true positive hits had to meet an E-value threshold of 10 -4 , a sequence identity of at least 50% and an alignment length of at least 50%. If multiple hits for one sequence passed our filter settings, we selected the one with the best E-value. Based on this approach, we were able to assign a gene name and function to additional 4,844 sequences out of 7,101 CDS without a functional description in the Ensembl annotation for M. lucifugus. Additional homologous gene annotations were marked with a _ tag in the electronic supplement to distinguish between the original Ensembl annotation and our extension.

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