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Updated: Jan 31, 2026

Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq
Published on: March 12, 2021
Curse: building expression atlases and co-expression networks from public RNA-Seq data
Dries Vaneechoutte1,2, Klaas Vandepoele1,2,3
1VIB Center for Plant Systems Biology, VIB, Ghent B, Belgium.
Summary:
Public RNA-Sequencing (RNA-Seq) datasets are a valuable resource for transcriptome analyses, but their accessibility is hindered by the imperfect quality and presentation of their metadata and by the complexity of processing raw sequencing data. The Curse suite was created to alleviate these problems. It consists of an online curation tool named Curse to efficiently build compendia of experiments hosted on the Sequence Read Archive, and a lightweight pipeline named Prose to download and process the RNA-Seq data into expression atlases and co-expression networks. Curse networks showed improved linking of functionally related genes compared to the state-of-the-art.
Availability And Implementation:
Curse, Prose and their manuals are available at http://bioinformatics.psb.ugent.be/webtools/Curse/. Prose was implemented in Java.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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