RNA-seq gene expression values

This tool provides access to RNA-Sequencing gene expression values.

The tool provides an Excel spreadsheet for each gene the user has input that includes:

  1. RNA-Seq gene composite expression levels in tabular form and as a bar plot (see below)
  2. a table of individual isoform expression levels.
  3. distribution of RNA-Seq gene expression levels by bin in tabular form and as a bar plot

The data is queryable by gene or chromosomal location using Query Genomic Data under "RNA: RNA-seq" (http://discover.nci.nih.gov/cellminer/queryLoad.do) and is available as a composite for the gene or by individual isoforms.
The data can be downloaded in total at Download Data Sets under "RNA: RNA-seq" (http://discover.nci.nih.gov/cellminer/loadDownload.do).
A brief platform description is available in Data Set Metadata under "RNA: RNA-seq" (http://discover.nci.nih.gov/cellminer/datasets.do).
Table 1: RNA-Seq composite gene expression levels log2(FPKM + 1)b
Cell lines Expression level
BR:MCF71.84
BR:MDA-MB-2311.66
BR:HS 578T0.46
BR:BT-5490.65
BR:T-47D0.74
CNS:SF-2680.76
CNS:SF-2950.79
CNS:SF-5390.77
CNS:SNB-190.17
CNS:SNB-750.77
CNS:U2510.98
CO:COLO 2051.25
CO:HCC-29981.53
CO:HCT-1161.27
CO:HCT-151.04
CO:HT291.67
CO:KM120.91
CO:SW-6201.22
LE:CCRF-CEM1.25
LE:HL-60(TB)1.14
LE:K-5620.78
LE:MOLT-41.29
LE:RPMI-82260.22
LE:SR0.23
ME:LOX IMVI1.14
ME:MALME-3M0.81
ME:M140.6
ME:SK-MEL-20.64
ME:SK-MEL-280.66
ME:SK-MEL-50.64
ME:UACC-2571.29
ME:UACC-620.68
ME:MDA-MB-4351.09
ME:MDA-N0.53
LC:A549/ATCC0.67
LC:EKVX0.9
LC:HOP-621.15
LC:HOP-920.63
LC:NCI-H2260.46
LC:NCI-H231.58
LC:NCI-H322M1.19
LC:NCI-H4600.45
LC:NCI-H5221.03
OV:IGROV11.2
OV:OVCAR-30.34
OV:OVCAR-40.79
OV:OVCAR-50.43
OV:OVCAR-80.79
OV:SK-OV-31.03
OV:NCI/ADR-RES0.5
PR:PC-31.07
PR:DU-1450.87
RE:786-00.75
RE:A4980.6
RE:ACHN1.17
RE:CAKI-10.7
RE:RXF 3931.29
RE:SN12C0.48
RE:TK-100.7
RE:UO-311.34
       This is a bar chart of the nci60 cell lines with the RNA-seq expression values (a visual representation of the data contained in table 1).