Details about this feature can be found in the main Genome Compiler user guide:

See section 1.9 for NCBI nucleotide search and import.

  • The NCBI nucleotide database search in ApE may be activated through the main tool bar by choosing “Tools”-”Download sequences from NCBI” (Figure 3.3.4.1). The “Entrez Query” window allows you to insert your query and view the search results (Figure 3.3.4.2). By clicking the appropriate result, a “Save as” window will open (Figure 3.3.4.3), enabling you to save your sequence on your computer and then opening the file from the software as any other file.


    Figure 3.3.4.1: Reaching NCBI nucleotide database search in ApE from the main toolbar.

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    Figure 3.3.4.2: “Entrez Query” window in ApE.

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    Figure 3.3.4.3: "Save As" window in ApE.

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  • In Genome Compiler you can open an NCBI nucleotide database search tab by pressing the NCBI icon on the top right of the materials box (Figure 3.3.4.4). You may start searching using NCBI by typing your query into the search bar and pressing the search button (Figure 3.3.4.5). NCBI nucleotide database search results will appear in the current tab (Figure 3.3.4.6) where you may open each result as well as filter by clicking the table fields and choosing the values you want to see (Figure 3.3.4.7). Moreover, Genome Compiler offers a direct sequence import option by clicking “Import” at the left column of the requested sequence in the NCBI search table. This sequence will be directed to your library. For more information regarding the NCBI nucleotide search and import see section 1.9.


    Figure 3.3.4.4: Opening the NCBI nucleotide database search in Genome Compiler .

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    Figure 3.3.4.5: Search in the NCBI nucleotide database using Genome Compiler .

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    Figure 3.3.4.6: NCBI nucleotide database search results in Genome Compiler.

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    Figure 3.3.4.7: Filtering NCBI nucleotide database search results in Genome Compiler

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