How to build regulatory networks from single-cell gene expression data

2020 ◽  
Author(s):  
Aditya Pratapa ◽  
Amogh P. Jalihal ◽  
Jeffrey N. Law ◽  
Aditya Bharadwaj ◽  
T. M. Murali
Keyword(s):  
Gene Expression ◽  
Single Cell ◽  
Gene Expression Data ◽  
Regulatory Networks ◽  
Expression Data ◽  
Cell Gene Expression ◽  
Cell Gene

scholarly journals Scanpy for analysis of large-scale single-cell gene expression data

2017 ◽  
Author(s):  
F. Alexander Wolf ◽  
Philipp Angerer ◽  
Fabian J. Theis
Keyword(s):  
Gene Expression ◽  
Single Cell ◽  
Gene Expression Data ◽  
Gene Regulatory Networks ◽  
Regulatory Networks ◽  
Large Scale ◽  
Expression Data ◽  
Cell Gene Expression ◽  
Gene Regulatory ◽  
Cell Gene

We present Scanpy, a scalable toolkit for analyzing single-cell gene expression data. It includes preprocessing, visualization, clustering, pseudotime and trajectory inference, differential expression testing and simulation of gene regulatory networks. The Python-based implementation efficiently deals with datasets of more than one million cells and enables easy interfacing of advanced machine learning packages. Code is available fromhttps://github.com/theislab/scanpy.

scholarly journals Putative cell type discovery from single-cell gene expression data

2020 ◽  
Vol 17 (6) ◽  
pp. 621-628 ◽  
Author(s):  
Zhichao Miao ◽  
Pablo Moreno ◽  
Ni Huang ◽  
Irene Papatheodorou ◽  
Alvis Brazma ◽  
...  
Keyword(s):  
Gene Expression ◽  
Single Cell ◽  
Gene Expression Data ◽  
Expression Data ◽  
Cell Type ◽  
Cell Gene Expression ◽  
Cell Gene
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