3. Query results for PharmGKB-based in the pipeline

3.1. In the example of anticholinesterases for drug input

3.1.1. The query results for drug information

When users input a drug related keyword, such as “Anticholinesterases” and then click the “Query” button, the waiting page for “PharmGKB Query” will be shown as Fig. 24.

Fig. 24. The waiting page for “PharmGKB Query”.

After waiting for a moment, the query results for drug information are shown as Fig. 25. The drug information includes PharmGKB [4] Accession Id (e.g., PA128; arrow line 1 in Fig. 25 for linking to PharmGKB in Fig. 26), gene symbol, publications (e.g., PMID: 14674789; arrow line 2 in Fig. 25 for linking to PubMed in Fig. 27), drug class, disease, and STRING information. Users can click the desired button from the STRING information (e.g., arrow line 3 in Fig. 25) for getting further DrugBank information (Fig. 29).

Fig. 25. The query results for drug information using the input drug related keyword “AHF”.

Fig. 26. The hyperlink to the PharmGKB for drug information when the PharmGKB [4] Accession ID is “PA128”. This is the result of arrow line 1 in Fig. 25. Here, only part of the whole information was shown. Clicking “PA128”, users can get the whole information.

Fig. 27. The hyperlink to the PubMed for drug information when the publication is “PMID: 14674789”. This is the result of arrow line 2 in Fig. 25.

3.1.2. STRING information (Clicking arrow line 3 in Fig. 25)

Due to the results have ACHE, CHRNA4, CYP2D6, CYP3A4, APOE, and BCHE gene information, users can click the “CYP2D6” (arrow line 3 in Fig. 25) to get further STRING [2] protein interaction information. When users click the “CYP2D6” button, the waiting page for “STRING protein Query” will be shown as Fig. 28.

Fig. 28. The waiting page for “STRING protein Query”. (the same as Fig. 7 and Fig. 21)

After waiting for a moment, the query results for interested genes containing “Preferred Name” and “Annotation” are shown as Fig. 29. In this case, two interested genes CYP2D7P1 and CYP2D6 are output and the gene “CYP2D6” as indicated by arrow line 1 in Fig. 29 is desired. On the top of this page, the selection for tagSNPs of HapMap parameters, such as HapMap database version [3], population, pairwise methods, R square cut off, minor allele frequency (MAF) cut off, is optional to get tagSNPs related information.

Fig. 29. The query results for interested gene with “Preferred Name” and “Annotation”. This is the result of arrow line 3 in Fig. 25. (Similar to Fig. 9)

3.1.3. The query results for the interactive genes

To select the gene ‘CYP2D6’ by clicking the button (arrow line 1 in Fig. 29), the following operations are similar to the subsections “2.1.3 The query results for the interactive genes” and “2.1.4. The query results for STRING interaction”. Therefore, the operation for the interactive genes of CYP2D6 was the same (not shown here).

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