RT Journal Article
SR Electronic
T1 scMontage: Fast and Robust Gene Expression Similarity Search for Massive Single-cell Data
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.08.30.271395
DO 10.1101/2020.08.30.271395
A1 Tomoya Mori
A1 Naila Shinwari
A1 Wataru Fujibuchi
YR 2020
UL http://biorxiv.org/content/early/2020/08/31/2020.08.30.271395.abstract
AB Single-cell RNA-seq (scRNA-seq) analysis is widely used to characterize cell types or detect heterogeneity of cell states at much higher resolutions than ever before. Here we introduce scMontage (https://scmontage.stemcellinformatics.org), a gene expression similarity search server dedicated to scRNA-seq data, which can rapidly compare a query with thousands of samples within a few seconds. The scMontage search is based on Spearman’s rank correlation coefficient and its robustness is ensured by introducing Fisher’s Z-transformation and Z-test. Furthermore, search results are linked to a human cell database SHOGoiN (http://shogoin.stemcellinformatics.org), which enable users to fast access to additional cell-type specific information. The scMontage is available not only as a web server but also as a stand-alone application for user’s own data, and thus it enhances the reliability and throughput of cell analysis and helps users gain new insights into their research.Competing Interest StatementThe authors have declared no competing interest.