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Web pages for integrative analyses in ChIP‐Atlas

Published byLuiz Felipe Lombardi Modified over 5 years ago

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Presentation on theme: "Web pages for integrative analyses in ChIP‐Atlas"— Presentation transcript:

1 Web pages for integrative analyses in ChIP‐Atlas
Web pages for integrative analyses in ChIP‐Atlas A, BSnapshots of Web pages for ChIP‐Atlas “Target Genes” (A) and “Colocalization” (B) functions. Results for the settings shown are presented in Fig 3A and B, respectively.C–ESnapshots of Web pages for the ChIP‐Atlas “Enrichment Analysis” function with submission of genomic coordinates or gene symbols are shown in (C) and (D), respectively. Results for the settings shown are presented in Fig 4A–C and D–F, respectively. At the Web page for “Enrichment Analysis”, a user can submit two sets of genomic intervals in BED format (C) or gene symbols (D): data of interest in the orange area and background data for comparison in the gray area. It is also possible to filter the results according to antigen and cell type classes as well as to set a threshold for the MACS2 score. On clicking the “submit” button, the data are sent to an NIG supercomputer server for performance of the enrichment analysis, as shown in (E). For example, on submission of BED‐formatted genomic regions for hepatocyte enhancers (orange) or enhancers activated in other tissues (gray), the computational server counts the overlaps with the peaks of all SRXs (E, left). After evaluation of the significance of enrichment with Fisher's exact test (E, right), the analyzed data are returned within several minutes to the machine of the user as shown in Fig EV3. Shinya Oki et al. EMBO Rep. 2018;embr © as stated in the article, figure or figure legend

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