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: 10.1186/s12915-019-0709-6

https://doi.org/10.1186/s12915-019-0709-6

Single-cell reconstruction of differentiation trajectory reveals a critical role of ETS1 in human cardiac lineage commitment

Cited by: 31
Author(s): Hang Ruan, Yingnan Liao, Zongna Ren, Lin Mao, Fang Yao, Yu Peng, Youqiong Ye, Zhao Zhang, Shengli Li, Hanshi Xu, Jiewei Liu, Lixia Diao, Bingying Zhou, Leng Han, Li Wang
Published: about 5 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: GENIE3
GEne Network Inference with Ensemble of trees
Papers that mentioned: 172
bioconductor: monocle
Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq
Papers that mentioned: 60
bioconductor: RcisTarget
RcisTarget Identify transcription factor binding motifs enriched on a list of genes or genomic regions
Papers that mentioned: 55
bioconductor: Rsubread
Mapping, quantification and variant analysis of sequencing data
Papers that mentioned: 331
cran: Seurat
Tools for Single Cell Genomics
Papers that mentioned: 1,512
cran: STAR
Spike Train Analysis with R
Papers that mentioned: 5,759
pypi: cutadapt
Adapter trimming and other preprocessing of high-throughput sequencing reads
Papers that mentioned: 1,562
pypi: monocle
An async programming framework with a blocking look-alike syntax
Papers that mentioned: 60
pypi: pyscenic
Python implementation of the SCENIC pipeline for transcription factor inference from single-cell transcriptomics experiments.
Papers that mentioned: 2