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| Name | Modified | Size | Downloads / Week |
|---|---|---|---|
| Parent folder | |||
| readme.txt | 2017-03-08 | 2.1 kB | |
| string_action_symbols_400.txt | 2017-03-03 | 27.4 MB | |
| tb_cms4_mid.csv | 2017-03-03 | 1.8 kB | |
| tb_cms3_mid.csv | 2017-03-03 | 663 Bytes | |
| tb_cms2_mid.csv | 2017-03-03 | 3.4 kB | |
| tb_cms1_mid.csv | 2017-03-03 | 3.9 kB | |
| string_cms4.Rdata | 2017-03-03 | 2.0 kB | |
| string_cms3.Rdata | 2017-03-03 | 1.6 kB | |
| string_cms2.Rdata | 2017-03-03 | 4.1 kB | |
| string_cms1.Rdata | 2017-03-03 | 3.9 kB | |
| sample_anno.txt | 2017-03-03 | 25.7 kB | |
| R_CODE_CRC_02.R | 2017-03-03 | 20.0 kB | |
| QC_string_phy.Rdata | 2017-03-03 | 560.0 kB | |
| R_CODE_CRC_01.R | 2017-03-03 | 16.3 kB | |
| log_gap.txt | 2017-03-03 | 582.0 kB | |
| ls_cms4.txt | 2017-03-03 | 824 Bytes | |
| ls_cms2.txt | 2017-03-03 | 1.7 kB | |
| ls_cms3.txt | 2017-03-03 | 824 Bytes | |
| ls_cms1.txt | 2017-03-03 | 1.4 kB | |
| DGI_v301.txt | 2017-03-03 | 1.7 MB | |
| Int_Direct_clusters.csv | 2017-03-03 | 28.2 kB | |
| crc_qc.txt | 2017-03-03 | 3.8 MB | |
| crc_subtyping.txt | 2017-03-03 | 5.9 kB | |
| Totals: 23 Items | 34.1 MB | 0 | |
R_CODE_CRC_01.R : R code. The script for the procedure from data-handling to Protein-Protein Interaction Network building R_CODE_CRC_02.R : R code. The script for the plotting step crc_qc.txt : The analysis dataset from Supplementary Table 13 of Zhang B et al.2014. Proteogenomic characterization of human colon and rectal cancer crc_subtyping.txt : The subtype annotations of TCGA colon and rectal tumor samples log_gap.txt : The table of p-values and mean differences resulting from one-sided t-test ls_cms1.txt : DEG list of the CMS1 subtype of colon and rectal cancer ls_cms2.txt : DEG list of the CMS2 subtype of colon and rectal cancer ls_cms3.txt : DEG list of the CMS3 subtype of colon and rectal cancer ls_cms4.txt : DEG list of the CMS4 subtype of colon and rectal cancer QC_string_phy.Rdata : The PPI (protein-protein interactions) information matrix of STRING. The elements are physical interaction scores sample_anno.txt : Sample information string_action_symbols_400.txt : The types of human PPI. The data from http://string-db.org/newstring_download/protein.actions.v10/9606.protein.actions.v10.txt.gz were used. Protein ids (ENSP) of the data were changed to gene symbols string_cms1.Rdata : The PPI types of the CMS1 subtype of colon and rectal cancer string_cms2.Rdata : The PPI types of the CMS2 subtype of colon and rectal cancer string_cms3.Rdata : The PPI types of the CMS3 subtype of colon and rectal cancer string_cms4.Rdata : The PPI types of the CMS4 subtype of colon and rectal cancer tb_cms1_mid.csv : PPI pairs extracted from the CMS1 subtype with scores greater than or equal to 0.400 tb_cms2_mid.csv : PPI pairs extracted from the CMS2 subtype with scores greater than or equal to 0.400 tb_cms3_mid.csv : PPI pairs extracted from the CMS3 subtype with scores greater than or equal to 0.400 tb_cms4_mid.csv : PPI pairs extracted from the CMS4 subtype with scores greater than or equal to 0.400 DGI_v301.txt : The information of druggable genes and drugs provided by the Drug Gene Interaction Database (DGIdb, Griffith M et al. 2013) Int_Direct_clusters.csv : The PPI direction information of each cluster