Table 2 APA databases
From: Alternative polyadenylation: methods, mechanism, function, and role in cancer
| Name | Description | Year | Species | Website | Ref. |
|---|---|---|---|---|---|
| PolyA-Seq Atlas | A quantitative atlas of poly(A) sites using the PolyA-Seq protocol. Filtered sites are available via the UCSC Genome Browser. | 2012 | human, rhesus, dog, mouse, and rat | http://genome.ucsc.edu/ | [19] |
| APADB | Database of APA sites and miRNA regulation events. | 2014 | human, chicken, and mouse | http://tools.genxpro.net/apadb/ | [148] |
| APASdb | Database of APA sites and heterogeneous cleavage sites downstream of poly(A) signals. | 2015 | human, mouse and zebrafish | http://mosas.sysu.edu.cn/utr | [149] |
| PolyA_DB3 | Database of cleavage and Poly(A) sites identified by the 3ʹREADS protocol. | 2018 | human, mouse, rat, and chicken | http://www.polya-db.org/v3 | [150] |
| TC3A | Database of robust APA data from 10,537 tumors across 32 cancer types. It is focused on human cancers and utilizes routinely available large-scale RNA-Seq datasets from TCGA. | 2018 | human | http://tc3a.org | [151] |
| PolyAsite2.0 | Web portal of poly(A) sites identified by all 3’end sequencing datasets. | 2020 | human, mouse and worm | https://polyasite.unibas.ch | [152] |
| APAatlas | Atlas of APA across a large number of normal human tissues from the Genotype-Tissue Expression project. | 2020 | human | https://hanlab.uth.edu/apa/ | [153] |