Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Papers: 10.1038/s41422-021-00467-z

https://doi.org/10.1038/s41422-021-00467-z

Dissecting human embryonic skeletal stem cell ontogeny by single-cell transcriptomic and functional analyses

Cited by: 44
Author(s): Jian He, Yan Jing, Jianfang Wang, Liangyu Zhao, Xin Qian, Yang Zeng, Yuxi Sun, Han Zhang, Zhijie Bai, Zongcheng Li, Yanli Ni, Yandong Gong, Yunqiao Li, Han He, Zhilei Bian, Yu Lan, Chunyu Ma, Lihong Bian, Heng Zhu, Bing Liu, Rui Yue
Published: almost 4 years ago

Software Mentions 10

bioconductor: AUCell
AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)
Papers that mentioned: 45
bioconductor: clusterProfiler
A universal enrichment tool for interpreting omics data
Papers that mentioned: 2,223
bioconductor: GENIE3
GEne Network Inference with Ensemble of trees
Papers that mentioned: 172
bioconductor: GSVA
Gene Set Variation Analysis for microarray and RNA-seq data
Papers that mentioned: 893
bioconductor: RcisTarget
RcisTarget Identify transcription factor binding motifs enriched on a list of genes or genomic regions
Papers that mentioned: 55
cran: ggplot2
Create Elegant Data Visualisations Using the Grammar of Graphics
Papers that mentioned: 11,441
cran: Seurat
Tools for Single Cell Genomics
Papers that mentioned: 1,512
pypi: GSVA
Python CLI and module for running the GSVA R bioconductor package with Python Pandas inputs and outputs.
Papers that mentioned: 893
pypi: scvelo
RNA velocity generalized through dynamical modeling
Papers that mentioned: 9
pypi: velocyto
RNA velocity analysis for single cell RNA-seq data
Papers that mentioned: 25