Published November 5, 2022 | Version v1

Discretized bulk data by the discretization step of rFASTCORMICS used in in the publication scFASTCORMICS: A contextualization algorithm to reconstruct metabolic multi-cell population models from single-cell RNAseq data

  • 1. University of Luxembourg

Description

Bulk data RNAseq data were downloaded from GEO, GTEX, and other sources (see below) and discretized by the discretization step of rFASTCORMICS (Pacheco et al, 2019) used in the optimization step in scFASTCORMICS:

CRC bulk RNAseq data were obtained from Lee et al(2020) 
CRC control (NM) was downloaded from GSE81861  (GTEX, Healthy colon from)

Pancreatic  Human islet bulk RNAseq data was downloaded from EBI Expression Atlas (Pancreatic islet cells)

Immune cells in pancreatic carcinoma bulk data were obtained from GEO (GSE156278)

liver and breast cancer bulk RNAseq data were obtained from the TCGA (GSE62944)

 

rFASTCORMICS and tutorial on rFASTCORMICS can be found: https://github.com/sysbiolux

 

 

 


 

Files

Discretization_Table_Breast_Cancer.txt

Files (79.3 MB)

Name Size
md5:27e4203240ea807a87bf773938c2e640
52.3 MB Preview Download
md5:1825af3f9f383a9e902fb7df5a02a9a4
10.2 MB Preview Download
md5:0d1584d502f9d0b0258cdd8c68250c13
4.9 MB Preview Download
md5:56b95fcf9cc45f637ccb82932478a939
7.2 MB Preview Download
md5:e3e2d79ca3e8f564b2313d0552a6a7b8
3.7 MB Preview Download
md5:f4e5677b5e4036e5545a568f0928c8ea
1.0 MB Preview Download