PlacentaCellEnrich: A tool to characterize gene sets using placenta cell-specific gene enrichment analysis.

Ashish Jain, Geetu Tuteja
Author Information
  1. Ashish Jain: Bioinformatics and Computational Biology, Iowa State University, Ames, IA, 50010-1079, USA; Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, 50010-1079, USA.
  2. Geetu Tuteja: Bioinformatics and Computational Biology, Iowa State University, Ames, IA, 50010-1079, USA; Genetics, Development, and Cell Biology, Iowa State University, Ames, IA, 50010-1079, USA. Electronic address: geetu@iastate.edu.

Abstract

Single-cell RNA-Sequencing (scRNA-Seq) has improved our understanding of individual cell types in the human placenta. However, placental scRNA-Seq data is not readily accessible when trying to understand how expression patterns in model systems correspond to those from first trimester human placenta. Therefore, we developed PlacentaCellEnrich, a tool that takes a gene set as input, and then reports if the input set is enriched for genes with placenta cell-specific expression patterns, based on human placenta scRNA-Seq data. The PlacentaCellEnrich tool is freely available at https://placentacellenrich.gdcb.iastate.edu/ for non-profit academic use under the MIT license.

Keywords

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Grants

  1. R01 HD096083/NICHD NIH HHS
  2. R21 HD104033/NICHD NIH HHS

MeSH Term

Algorithms
Female
Gene Expression Profiling
High-Throughput Nucleotide Sequencing
Humans
Organ Specificity
Placenta
Pregnancy
RNA
RNA-Seq
Sequence Analysis, RNA
Single-Cell Analysis
Software

Chemicals

RNA

Word Cloud

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