microRNA mean values

The microRNA mean values tool provides access to the average log2 intensity values for the Agilent Technologies Human miRNA Microarray (V2; ref. 9) for 360 microRNAs.

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

  1. mean centered microRNA intensities in tabular form and as a bar plot (see below)
  2. distribution of microRNA intensities by bin in tabular form and as a bar plot

The data is queryable by microRNA identifiers using Query Genomic Data under "RNA: Agilent Human microRNA (V2)" (http://discover.nci.nih.gov/cellminer/queryLoad.do).
The data may be obtained in toto at Download Data Sets under "RNA: Agilent Human microRNA (V2)" (http://discover.nci.nih.gov/cellminer/loadDownload.do).
A brief platform description is available in Data Set Metadata under "RNA: Agilent Human microRNA (V2)" (http://discover.nci.nih.gov/cellminer/datasets.do).
The microRNA intensities are measured as described in Liu et al, Mol Cancer Ther., 2010.


Table 1: Mean centered log2 transcript intensities
Cell lines Average log2 intensities

BR:MCF7 0.48
BR:MDA_MB_231 1.49
BR:HS578T 0.66
BR:BT_549 2.15
BR:T47D -0.8
CNS:SF_268 0.94
CNS:SF_295 0.94
CNS:SF_539 -1.06
CNS:SNB_19 -0.63
CNS:SNB_75 2.69
CNS:U251 1.81
CO:COLO205 -1.03
CO:HCC_2998 -1.00
CO:HCT_116 -0.79
CO:HCT_15 -0.84
CO:HT29 -1.50
CO:KM12 -1.07
CO:SW_620 -1.78
LE:CCRF_CEM -0.93
LE:HL_60 -0.56
LE:K_562 1.23
LE:MOLT_4 -0.59
LE:RPMI_8226 -0.29
LE:SR 0.35
ME:LOXIMVI -1.65
ME:MALME_3M -0.73
ME:M14 -1.37
ME:SK_MEL_2 -0.78
ME:SK_MEL_28 0.01
ME:SK_MEL_5 -0.60
ME:UACC_257 -0.75
ME:UACC_62 -2.04
ME:MDA_MB_435 -0.53
ME:MDA_N -0.64
LC:A549 1.09
LC:EKVX 1.85
LC:HOP_62 2.87
LC:HOP_92 0.60
LC:NCI_H226 1.95
LC:NCI_H23 -1.30
LC:NCI_H322M 1.55
LC:NCI_H460 -0.56
LC:NCI_H522 1.06
OV:IGROV1 -1.42
OV:OVCAR_3 2.46
OV:OVCAR_4 3.24
OV:OVCAR_5 -1.17
OV:OVCAR_8 -1.05
OV:SK_OV_3 1.49
OV:NCI_ADR_RES -1.01
PR:PC_3 1.23
PR:DU_145 -1.73
RE:786_0 -1.01
RE:A498 -0.28
RE:ACHN 0.67
RE:CAKI_1 0.70
RE:RXF_393 -0.88
RE:SN12C 0.70
RE:TK_10 -0.55
RE:UO_31 -1.39

 
 
 
 
 
 
 
      This is a bar chart of the nci60 cell lines with the averaged microRNA intensity values (a visual representation of the data contained in table 1).
Average log2 intensities (not mean centered)
across all probes (based on rows) in table
Range 5.29
Minimum -4.66
Maximum 0.63
Average -2.613
Standard Deviation 1.314
microRNA hsa-mir-218-1 hsa-mir-218-2
Chromosome 4 5
Cytogenetic band 4p15.31 5q34
Start 20529898 168195151
End 20530007 168195260
Size 109 109
Orientation + -