The document provides a step-by-step guide to using the 3'aQTLatlas database, which contains an atlas of approximately 0.4 million genetic variants associated with alternative polyadenylation (APA) identified across 15,253 RNA-seq samples from 49 human tissues. The guide describes how to use the database to search for and view 3'UTR APA quantitative trait loci (3'aQTLs) across tissues, compare 3'aQTLs to genome-wide association studies, and search for disease-associated 3'aQTLs in specific tissues.

1. 3′aQTLatlas: an atlas of 3′QTLs across
human normal tissues
A step-by-step guide

2. Data in 3′aQTLatlas
 we analyzed 15253 RNA-seq samples across
49 human tissues isolated from 838
individuals (data from GTEx, version 8) and
identified approximately 0.4 million common
genetic variants associated with the APA.

3. Part 1: 3′aQTLs search across tissues
Part 2: Browser view 3′aQTLs
Part 3: Boxplot view 3′aQTLs
Part 4: GWAS compare with 3′aQTLs
Part 5: Disease/trait-associated 3′aQTLs

4. Part 1: 3′aQTLs search across tissues
Step1: Quick search by gene symbol or rs ID
(e.g. IRF5 or rs10954213)
Step2: Filter 3′aQTLs by tissue
Step3: Filter 3′aQTLs by key words
Step4: Browser view this 3′aQTL
Step5: Boxplot view this 3′aQTL

5. Part 2: Browser view 3′aQTLs
Search by gene symbol, rs ID or genome position
(e.g. IRF5 or rs10954213 or chr7:128687612-129200035)
Mouse click to see
detailed information
Mouse click to config
tracks
Download SVG

6. Part 3: Boxplot view 3′aQTLs
Quick guide
Step1: Click to load
example data
Step2: Click to plot
boxplot
Step3: Download
PDF file

7. Part 4: GWAS compare with 3′aQTLs
Quick guide
Step1: Click to load
example data
Step2: Click to plot Step3: Download
PDF file

8. Part 5: Disease/trait-associated 3′aQTLs
Step1: Search a disease/trait
type (e.g. Alzheimer)
Step2: Select a tissue (e.g.
Whole Blood)

9. Download
Click to download
3′aQTLs

10. Citation and Contact
3′aQTLatlas: an atlas of 3′UTR alternative polyadenylation quantitative trait
loci across human normal tissues
Ya Cui1,, …, Lei Li1 and Wei Li1,*
Citation:
Ya Cui
School of Medicine, University of California Irvine, California, USA
Email: yac7@uci.edu
Wei Li
School of Medicine, University of California Irvine, California, USA
Email: wei.li@uci.edu
Contact: