RT Journal Article
SR Electronic
T1 CanIsoNet: A Database to Study the Functional Impact of Isoform Switching Events in Cancer
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2021.09.17.460795
DO 10.1101/2021.09.17.460795
A1 Karakulak, Tülay
A1 Szklarczyk, Damian
A1 Moch, Holger
A1 von Mering, Christian
A1 Kahraman, Abdullah
YR 2021
UL http://biorxiv.org/content/early/2021/09/18/2021.09.17.460795.abstract
AB Motivation Alternative splicing, as an essential regulatory mechanism in normal mammalian cells, is frequently disturbed in cancer. Switches in the expression of alternative isoforms can alter protein interaction networks of associated genes giving rise to cancer progression and metastases. We have recently analyzed the pathogenic impact of switching events in 1209 cancer samples covering 24 different cancer types. Here, we are presenting CanIsoNet (Cancer Isoform specific interaction Network), a database to view, browse and search these isoform switching events. CanIsoNet is the first webserver that incorporates isoform expression data with STRING interaction networks and COSMIC annotations to predict the pathogenic impact of isoform switching events in various cancer types.Results Data in CanIsoNet can be browsed by cancer types or searched by genes or isoforms in annotation rich data tables. Various annotations for 11,041 isoforms and 31,748 unique isoform switching events are provided across 24 cancer types, including proximity information to COSMIC cancer census genes, network density data for each cancer-specific isoform, PFAM domain IDs of disrupted interactions, domain structure visualization of transcripts and expression data of switched isoforms for each sample.Availability CanIsoNet is freely available at https://caniso.net under a Creative Common License. The source codes can be found at https://github.com/KarakulakTulay/CanIsoNet_WebCompeting Interest StatementThe authors have declared no competing interest.