josoga2/eccebp-alpha-project: F1000 Code Release

Code for analyzing the datasets

Dataset Description:

• Num: Row Number
• Hybridization REF: CpG Reference ID
• Position: Position in hg19
• Gene: Entrez Gene Symbol
• Chrome: Chromosome Number
• p_vals: P value for t-test between patients with CEBPA and without CEBPA mutation
• mean_cebpa_mut: mean methylation score for patients with CEBPA mutation
• mean_no_cebpa_mut: mean methylation score for patients with CEBPA mutation 

• site_status: prediction status for CEBPA sites 

• fdr: fdr p_value 

This project contains the following extended data:

• Supplementary Table 1: Summary table of DNA binding domains (DBD), the counts of target regions within the genome and statistical analysis. (DNA_BINDING_DOMAINS_ID.tsv)
• Sequence: ecCEBPα secondary structure prediction with RNAplfold at a pairing probability cut off of 0.1. N represents all sequences with pairing probability greater than 0.1.  (predicted_secondary_structure_of_ecCEBPA.fa)