Table 2

Summary of search functions and criteria available in the CellMiner resource.

Meta data

Download

Query

Intersection

Drug data

Mutation data

Raw

Normalized

Cell lines

NCI-60/DU145-RC0.1/both

NCI-60/DU145/RC0.1

NCI-60/DU145/RC0.1

NCI-60/DU145/RC0.1/both

NCI-60/DU145/RC0.1

NCI-60

NCI-60 (59 cell lines)

Dataset selection (molecular type)

NA

DNA/RNA/Protein

DNA/RNA/Protein

DNA/RNA Protein

DNA/RNA/Protein

Drug sensitivity

DNA

User select cell line criteria

All/tissue type selection

All

All/tissue type selection

All

All

All/tissue type selection

NA

User select identifier type

NA

Raw

Normalized

gene or platform specific id, chromosome or genomic location

NA

NSC, Chemical name, Molecular formula

NA

User select identifier list

NA

NA

NA

File attachment, list, single value

NA

File attachment, list, single value

NA

Output data fields

Information on Patient, cell line, Experimental details

Quantification of image files

Log base2

HUGO, Entrez Gene id, Gene Symbol, Chromosome, Cytoband, mRNA-Refseq, Protein-Refseq, Transcription start and Transcription-end

HUGO, Entrez Gene id, Gene Symbol, Chromosome, Cytoband, mRNA-Refseq, Protein-Refseq, Transcription start and Transcription-end

Chemical name, SMILES, molecular formula, molecular weight, mechanism of action

HUGO, Zygosity, CDS mutation, AA mutation, mutation characterization

Output Format

HTML table of cell line information

zip

Text of log2 intensity values

HTML, MS-Excel, text file of log2 intensity values

Text file of log2 intensity values for each the matching datasets

HTML, MS-Excel, Text

HTML, Text

Shankavaram et al. BMC Genomics 2009 10:277   doi:10.1186/1471-2164-10-277