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scRNASeqDB: a database for gene expression profiling in human single cell by RNA-seq

Yuan Cao, Junjie Zhu, Guangchun Han, Peilin Jia, Zhongming Zhao
doi: https://doi.org/10.1101/104810
Yuan Cao
1Center for Precision Health, School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA
2Department of Laboratory Medicine, 90th General Hospital of Jinan, Jinan, Shandong, 250031, China
+These authors contributed equally to this work.
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Junjie Zhu
3Department of Electrical Engineering, Stanford University, Stanford, CA 94305, USA
+These authors contributed equally to this work.
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Guangchun Han
1Center for Precision Health, School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA
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Peilin Jia
1Center for Precision Health, School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA
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Zhongming Zhao
1Center for Precision Health, School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA
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Abstract

Summary: Single-cell RNA sequencing (scRNA-Seq) is quickly becoming a powerful tool for high-throughput transcriptomic analysis of cell states and dynamics. Both the number and quality of scRNA-Seq datasets have dramatically increased recently. So far, there is no database that comprehensively collects and curates scRNA-Seq data in humans. Here, we present scRNASeqDB, a database that includes almost all the currently available human single cell transcriptome datasets (n= 36) covering 71 human cell lines or types and 8910 samples. Our online web interface allows user to query and visualize expression profiles of the gene(s) of interest, search for genes that are expressed in different cell types or groups, or retrieve differentially expressed genes between cell types or groups. The scRNASeqDB is a valuable resource for single cell transcriptional studies.

Availability: The database is available at https://bioinfo.uth.edu/scrnaseqdb/.

Contact: zhongming.zhao{at}uth.tmc.edu

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted January 31, 2017.
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scRNASeqDB: a database for gene expression profiling in human single cell by RNA-seq
Yuan Cao, Junjie Zhu, Guangchun Han, Peilin Jia, Zhongming Zhao
bioRxiv 104810; doi: https://doi.org/10.1101/104810
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scRNASeqDB: a database for gene expression profiling in human single cell by RNA-seq
Yuan Cao, Junjie Zhu, Guangchun Han, Peilin Jia, Zhongming Zhao
bioRxiv 104810; doi: https://doi.org/10.1101/104810

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