Description
The Cell Marker Accordion is a comprehensive easily accessible and well-documented platform constituted by a gene marker database, an R Shiny web application and an R package to automate the annotation and improve the interpretation of normal and aberrant hematopoietic cell types in single-cell data.
The Cell Marker Accordion database is built on multiple published databases collecting human and mouse gene markers for hematopoietic cell types (Zhang et al., 2019; Franzén et al., 2019; Paisley & Liu, 2021; Börner et al., 2021; Liberzon et al., 2015; Hao et al., Cell 2021; Domínguez Conde et al., 2022), standard collections of widely used cell sorting markers (Abcam, 2021; Thermo Fisher Scientific) and literature based marker genes associated with disease critical cells in aberrant hematopoiesis in leukemia, lymphoma and myeloma. The Accordion database allows marker genes to be weighted not only by their specificity, but also by their evidence consistency scores, measuring the agreement of different annotation sources. The Cell Marker Accordion web interface permits to explore the integrated collection of human and mouse marker genes and easily browse hierarchies of hematopoietic cell types following the Cell Ontology structure in order to obtain the desired level of resolution.
Date: November 27, 2023
Category: Single Cell
Visit App
