Services

Service lines (please contact us via our enquiry form for specifics):

Genomics (Exome and Whole Genome Sequencing data analysis)*

Study design, alignment, SNPs, indels, CNVs, structural variants, annotation, visualization, network analysis, variant interpretation and classification.

From: Transcriptomics (RNA-Seq, miRNA-Seq, single-cell/single-nuclei RNA-Seq, CITE-Seq data analysis)^# 

Study design, quality and control, alignment, gene-level or transcript level quantification, differentially expressed gene lists, gene set annotation, genome visualization, network analysis. Related applications to 10 Genomics single-cell/single-nuclei RNA-Seq, such as CITE-seq, ATAC-seq, and 10 Genomics spatial transcriptomics (Visum and Xenium), are also supported (other cases beyond 10 Genomics can be discussed in a consultation).

To: Transcriptomics (RNA-Seq, miRNA-Seq, single-cell/single-nuclei RNA-Seq, CITE-Seq and spatial transcriptomics data analysis)^# 

Study design, quality and control, alignment, gene-level or transcript level quantification, differentially expressed gene lists, gene set annotation, genome visualization, network analysis. Related applications to 10 Genomics single-cell/single-nuclei RNA-Seq, such as CITE-seq, ATAC-seq, and 10 Genomics spatial transcriptomics (Visum and Xenium), are also supported (other cases beyond 10 Genomics can be discussed in a consultation).

Epigenomics
Study design, quality and control, alignment, differential methylation or accessibility analysis, annotation, peak calling, pathway analysis and data visualization.

Workflow/Pipeline development
Workflow and pipeline development within U-BDS areas of expertise is also supported. U-BDS follows established software development best practices to ensure workflows are version- controlled, reproducible, and thoroughly tested, including unit testing. Examples of publicly available workflows developed by U-BDS include nf-core/scnanoseq and nf_xpatial.

Workshops
U-BDS offers a variety of workshops, from introduction to programming to data analysis. To receive announcements for our upcoming workshops, please join our listserv by sending an
email to This email address is being protected from spambots. You need JavaScript enabled to view it..

Alternatively, announcements are also posted in the UAB Labs #datascience Slack channel. To join this Slack group and channel, please see our outreach page.

Upon request, for single-cell/single-nuclei analysis, the core may develop custom web-based applications to allow users to interactively visualize their data. An example of this may be viewed at: https://ratlas.org/ - View the interactive visualization tool - apps can be hosted locally in UAB Cloud / "cloud.rc" during development time. During production, it may also be hosted in "cloud.rc" following UAB IT and Research Computing protocols or in external servers (shinyapps.io or AWS).

Integrative analyses

Analysis spanning multiple data types including complex interpretation, visualisation, and network analyses. Please fill out our enquiry form providing details on your specific needs so that we can set up a time to discuss them with you.

Long-Term Collaborations

Please fill out our enquiry form providing details on long term collaborations and grant activities so that we can set up a time to discuss them with you.

Additional Services

Please use our enquiry form to set up some time to discuss other needs you might have such as custom analytical pipelines/algorithm/web-based application development and personalized training needs.

If you have an analytical need which is not listed here, please fill out the enquiry form to have your service need logged in our system. This aids U-BDS in decisions linked to new services that may provided in the future.