| Bioinformatics for the bench biologist: |
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| How to find regulatory regions in genomic DNA |
| In this tutorial we illustrate the principles explained in the accompanying review using the gene encoding IL-1a as an example. First, we define the region to be analyzed by examining the chromosomal neighborhood of Il1a. Next, we explain how to retrieve the sequences to be used in the comparison. We then describe how to generate an annotation file, again to be used in the comparison. Finally, we lead the reader step-by-step through making sequence comparisons with VISTA and with PipMaker. |
| Throughout, red will be used to call attention to features in the task being illustrated. Wherever possible, we have tried to highlight the feature both in the text and in the accompanying figure. The navigation bar at the bottom of each page allows the user to proceed to the next page ( > ) or to skip to the beginning of a particular section. We have also included information on species without full genome sequence and masking repeats as appendices for users who might need this information. |
| Start | Get Sequences | ID Exons | Annotate | VISTA | PipMaker | References | > |
