README:  DiSignAtlas 1.0 download             Last modified:  October 7, 2023

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Disease information of All DiSignAtlas Datasets                                  
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           This file is a comprehensive information of the DiSignAtlas 
		   datasets.

           More notes about this file:

           comma-delimited
           one line per dataset
           Column header line is the first line in the file.
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DiSignAtlasid:
           the unique dataset ID in DiSignAtlas

accession:
           accession from GEO, ArrayExpress and TCGA

platform:
           platform ID of array or sequencer

deg_count:
           number of DEGs in each dataset

disease:
           the disease name of each dataset

diseaseid:
           the DisGeNET disease id of each dataset

tissue:
           may be null

data_source:
           data source of each dataset
           values are: GEO, TCGA, ArrayExpress

library_strategy:
           data type of each dataset
           values are: Microarray, RNA-Seq, scRNA-Seq, snRNA-Seq

organism:
           values are:  Homo sapiens, Mus musculus

control_case_sample_count:
           number of control and case sample, separated by '|'

definition:
           the definition of disease from various resources

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Differentially Expressed Genes of All DiSignAtlas Datasets                                    
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           This file reports differentially expressed genes induced
           by disease perturbation of all DiSignAtlas datasets.

           More notes about this file:

           gmt format
           one line per dataset
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The first column:
           the unique dataset ID in DiSignAtlas

The second column:
           control accession, case accession, platform, number of all 
		   DEGs, disease type, disease id, tissue, data source, library 
		   strategy and organism separated by '|'.

The remaining columns:
           differentially expressed genes of DiSignAtlas datasets

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Differential Gene Expression Analysis Result of Each DiSignAtlas Dataset
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　　　This file reports differential gene expression analysis result 
　　　induced by disease perturbation of all DiSignAtlas datasets.

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Gene Expression Profiles of Each DiSignAtlas Dataset
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　　　This file reports gene expression profiles of each 
　　　diSignAtlas dataset.
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.csv file:
           Expression profile of RNA-Seq or Microarray
The first row:
           Type of expression profile
 		  values are: count, FPKM, TPM

.Rds file:
           Seurat object of scRNA-Seq or snRNA-Seq

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Source Codes for Differential Gene Expression Analysis
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　　　This file reports source codes for differential gene
　　　expression analysis 
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The remaining rows:
           differential expression analysis process
           Including limma, DESeq2, edgeR, Seurat analysis process

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Source Codes for Functional Enrichment Analysis
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　　　This file reports source codes for functional enrichment analysis
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The remaining rows:
           GO and KEGG enrichment analysis process