CellMinerCDB

Release Notes

Version 2022.1 - 03/10/2022
  • Gene version: Hg19 from NCBI
  • DTP drug pull date: 03/01/2022
  • Database version: v2.8.1
  • Refactored code for drug z-score database batch scripts.
Version 2021.2 - 08/29/2021
  • Gene version: Hg19 from NCBI
  • DTP drug pull date: 08/01/2021
  • Database version: v2.7
  • Updated to limit the Pattern Comparison Analysis request job to one at a time.
Version 2021.1 - 04/22/2021
  • Gene version: Hg19 from NCBI
  • DTP drug pull date: 04/01/2021
  • Database version: v2.6
  • Added user input validation in the query drug almanac data
  • Added a new page to display drug status list for FDA approved and Clinical trial drugs
Version 2020.4 - 12/22/2020
  • Gene version: Hg19 from NCBI
  • DTP drug pull date: 12/01/2020
  • Database version: v2.5
  • Added drug almanac combo scores in the cell line signature analysis
  • Added querying drug almanac data with NSC pairs or compound name pairs
  • Added download drug almanac data in the download data set page
  • Updated phenotypic parameters in Pattern Comparison
Version 2020.3 - 07/15/2020
  • Gene version: Hg19 from NCBI
  • DTP drug pull date: 10/23/2019
  • Database version: v2.4.2
  • Changed cell line signature and cross-correlation analysis entry limit to 10
  • Added release notes in home page and created a historical release notes page
  • Added NCI-60 Almanac combo score data in the database
version 2020.2 - 05/16/2020
  • Gene version: Hg19 from NCBI
  • DTP drug pull date: 2017
  • Database version: v2.2
  • Newly added dataset: RNA:RNA-seq, Protein: SWATH
  • Newly updated analysis:
    • RNA-seq in cell line signature, pattern comparison and drug vs gene variant/isoforms
    • Protein SWATH in cell line signature, cross-correlations and pattern comparison
version 2020.1 - 04/06/2020
  • Gene version: Hg19 from NCBI
  • DTP drug pull date: 2017
  • Database version: v2.2
  • Renamed Protein: Lysate Array to Protein: Antibody Array DTB
  • Renamed Protein: Antibody Array to Protein: Antibody Array MDA
  • Updated Protein: Antibody Array MDA in Data Set Metadata page
Cellminer Data Synopsis
Database Version 2.4.2 2.5 2.6 2.7 2.8.1
Starting Date 07/2020 12/2020 04/2021 08/2021 03/2022
Drugs
Total compounds 1 53,279 55,502 55,712 55,993 56,461
Compounds (passed QC) 2 22,257 23,765 23,893 24,047 24,360
Known MOA 3 1,385 1,421 1,427 1,427 1,427
FDA NSCs 4 281 284 286 286 286
FDA drugs 5 199 199 201 201 201
Clinical trial NSCs 6 720 772 772 772 772
Clinical trial drugs 7 676 721 721 721 721
DNA
aCGH (DNA copy number) 8 23,222 23,222 23,222 23,222 23,222
AA changing gen. var. 9 12,945 12,945 12,945 12,945 12,945
Function affecting gen. var. 10 9,307 9,307 9,307 9,307 9,307
DNA methylation 11 17,552 17,552 17,552 17,552 17,552
RNA
microRNAs 12 360 360 360 360 360
Microarray Transcript z scores total 13 26,186 26,186 26,186 26,186 26,186
RNA-seq gene transcripts 14 23,808 23,808 23,808 23,808 23,808
Protein
Proteins, RPLA (162 antibodies) 15 94 94 94 94 94
Proteins, mass spectrometry 16 3,162 3,162 3,162 3,162 3,162
Phenotype
Phenotypic parameters 17 71 73 73 73 73
Totals
Molecular totals 18 107,329 107,329 107,329 107,329 107,329
Compound activity totals 19 22,257 23,765 23,893 24,047 24,360
  1. The DTP compounds and drugs loaded onto Cellminer.
  2. The compounds that passed Cellminer quality control as described in (PMID 22802077).
  3. The number of compounds have known drug mechanism of action (MOA).
  4. The number of National Service Center (NSC) identifiers for Food and Drug Administration (FDA) approved drugs. There may be more than one per drug.
  5. The number of drugs approved by the Food and Drug Administration (FDA).
  6. The number of National Service Center (NSC) identifiers for clinical trial drugs. There may be more than one per drug.
  7. The number of drugs in, or have been in, some level of clinical trial.
  8. The number of unique genes with DNA copy number from array comparative hybridization (aCGH) (PMID 24670534).
  9. The number of unique genes with DNA exome sequence amino acid (AA) changing genetic variants (PMID 26048278).
  10. The number of unique genes with DNA exome sequence protein function affecting genetic variants (PMID 26048278).
  11. The number of unique genes with DNA methylation levels (PMID 27923837).
  12. The number of unique microRNAs with transcript expression levels (PMID 20442302).
  13. The number of unique genes with transcript expression levels from microarray analysis (PMID 22802077).
  14. The number of unique genes with transcript expression levels from RNA sequencing (RNAseq) (PMID 31113817).
  15. The number of unique genes with protein expression as measured by reverse phase lysate arrays (RPLA) (PMID 14623978).
  16. The number of unique genes with protein expression as measured by mass spectrometry (PMID 31733513).
  17. The number of phenotypic parameters Pattern Comparison (PMID 26048278).
  18. The summation of aCGH DNA copy number, AA Changing gen. var., DNA methylation, microRNAs, Microarray Transcript z scores total, RNA-seq, Protein RPLA and Protein mass spectrometry.
  19. Compound activity totals are from Compounds (passed QC).