Computational protocol: A nosocomial transmission of crimean-congo hemorrhagic fever to an attending physician in north kordufan, Sudan

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Protocol publication

[…] The 452-bp primary PCR products were purified using QIAquick PCR purification Kit (QIAgen, Germany) and sent for sequencing in a commercial company (Seqlab, Göttingen, Germany). Resulted sequences were edited using BioEdit software and the Basic Local Alignment Search Tool (BLAST) of NCBI (National Center for Biotechnology Information, Bethesda, MD) and used to confirm the identity of the generated sequences in the GenBank nucleotide database. The sequences were then aligned with the corresponding S-segment of known CCHFV strains from Sudan, other African countries, Asia, middle and far east, and Eastern Europe. Phylogenetic tree was constructed using PAUP version 4.0 software packgae (Sinauer Associates, Inc., Sunderland, MA, USA). The name of the virus strain, country of origin and the GenBank accession numbers were given for each sequence. […]

Pipeline specifications

Software tools BioEdit, BLASTN, PAUP*
Application Phylogenetics
Organisms Homo sapiens
Diseases Hemorrhagic Fever, Crimean, Tick-Borne Diseases, Genetic Diseases, Inborn
Chemicals Ribavirin