CellMiner - Analysis Tools

NCI-60 Analysis Tools

This page provides automation of several commonly done analyses. For a complete description of the CellMiner options, go to the "Home" tab above.

For a detailed description of the functionalities and how to use them, see (Reinhold, Cancer Res, 2012).

Please try our experimental interactive site [CellMinerCDB] for exploring NCI-60 data in conjunction with data from the CCLE, CTRP, GDSC cell line datasets.

Step 1 - Select analysis type:

Cell line signature

Drug activity z scores (input NSC#)¹ [help]

microRNA mean values¹ [help]

Genetic variant summation (input HUGO name)¹ [help]

Gene DNA copy number (input HUGO name)¹ [help]

Gene transcript z scores (input HUGO name)¹ [help]

Gene DNA methylation values (input HUGO name)¹ [help]

RNA-seq gene expression values (input HUGO name)¹ [help]

Protein RPPA mean values (input HUGO name)¹ [help]

Protein SWATH values (input HUGO name)¹ [help]

Cross-correlations of transcripts, SWATH protein, drugs, and microRNAs (input HUGO name, swaHUGO name, NSC and microRNA ID)¹

Pattern comparison (limit 10) [help]

Gene transcript (HUGO) name¹

microRNA¹

Drug NSC#¹

Protein RPPA (HUGO name)¹

Protein SWATH (HUGO name)¹

60-element pattern²

Exome sequencing (DNA) graphical synopsis by gene (input HUGO name)¹

Drug vs gene variant/isoforms (inputs NSC:HUGO name)¹ [help]

¹ Identifiers and drug mechanism of action definitions. [Identifier file] [Machine readable version].

² Pattern Comparison input template [download].

Step 2 - Select input format:

Input list

Upload file

Upload a file of identifiers:

Example: The uploaded file must be a plain text (.txt) or Excel (.xls) file. One identifier per line.

Input the identifier(s):

Examples: ABCB1 BRCA2 CNBP

Note: the user may enter only 50 identifiers in their list. This will return only exact matches to the list entered.

NCI-60 Analysis Tools

Step 1 - Select analysis type:

Step 2 - Select input format:

Step 3 - Enter your e-mail address: