> For the complete documentation index, see [llms.txt](https://igb.mit.edu/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics.md).

# UCSC Genome Bioinformatics

- [Interacting with the UCSC Genome Browser](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/interacting-with-the-ucsc-genome-browser.md)
- [Obtaining DNA sequence from the UCSC Database](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/obtaining-dna-sequence-from-the-ucsc-database.md)
- [Obtaining genomic data from the UCSC database using table browser queries](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/obtaining-genomic-data-from-the-ucsc-database-using-table-browser-queries.md)
- [Filtering table browser queries](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/filtering-table-browser-queries.md)
- [Performing a BLAT search](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/performing-a-blat-search.md)
- [Creating Custom Tracks](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/creating-custom-tracks.md)
- [UCSC Intersection Queries](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/ucsc-intersection-queries.md)
- [Viewing cross-species alignments](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/viewing-cross-species-alignments.md)
- [Galaxy](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/galaxy.md)
- [Intro to Galaxy](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/galaxy/intro-to-galaxy.md)
- [Galaxy NGS Illumina QC](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/galaxy/galaxy-ngs-illumina-qc.md)
- [Galaxy NGS Illumina SE Mapping](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/galaxy/galaxy-ngs-illumina-se-mapping.md)
- [Galaxy SNP Interval Data](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/galaxy/galaxy-snp-interval-data.md)
- [Editing and annotation gene structures with Argo](https://igb.mit.edu/bioinformatics-topics/tasks-bioinformatics-methods/ucsc-genome-bioinformatics/editing-and-annotation-gene-structures-with-argo.md)