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Table 1 Comparison of Liverome with other related tools.

From: Liverome: a curated database of liver cancer-related gene signatures with self-contained context information

  Liverome EHCO dbDEPC CCancer GeneSigDB
Data coverage      
Coverage of phenotype HCC only HCC only 15 cancers Half the data are on cancer Mostly cancer and stem cell
Coverage of HCC-specific data (signatures // articles) 143 // 98 12 // 32 6 // 5 25 // 21 34 // 18
Overall data coverage Same as above Same as above 65 // 48 3369 // 2644 2142 // 973
Covers both transcriptomics and proteomics studies Yes Yes No (proteomics only) Yes Yes
Data content      
Explicit designation of compared sample groups Yes No Yes No No
Contains numerical ranking information Yes No (change direction only) Yes (fold change only) No Yes
Uniform representation of numerical ranking values Yes (unique to Liverome) No No No No
Informative naming of signatures Yes (unique to Liverome) No No No No
Summary of experiment Yes (unique to Liverome) No No No No
Web interface      
Signature comparison tool Yes No Yes Yes Yes
Gene search tool Yes Yes Yes No Yes
Functional categorization of signatures for guided browsing Yes (unique to Liverome) No No No No
Spreadsheet-like sorting utility for prioritization Yes (unique to Liverome) No No No No
  1. Liverome is compared to four other gene signature databases with respect to Liverome’s main utility as a gene search and signature comparison resource for liver cancer research community. Liverome achieves the largest coverage of HCC signatures and the most informative data content at the same time. Its web interface is designed to facilitate the retrieval of the informative data content, the guided browsing of signatures, and their comparison for occurrence-based prioritization.