NCI60: Data of the NCI-60 Cell Lines with Missing Individuals
In missRows: Handling Missing Individuals in Multi-Omics Data Integration
Description
Usage
Format
Details
Source
References
Description
The NCI60 data contain both transcriptomic and proteomic
expression for a collection of 60 cell lines from the National
Cancer Institute (NCI-60). Data tables with missing individuals
have been generated for illustration purposes.
Usage
1
Format
A list with two components, dataTables and mae:
dataTables contain a list with the following components:
transa matrix containing 300 rows and 48 columns.
The mRNA transcription levels of the NCI60 cell lines. There
are 12 missing individuals.
protea matrix containing 162 rows and 52 columns.
The protein abundance levels of the NCI60 cell lines. There
are 8 missing individuals.
cell.linea DataFrame of cancer types:
colon (CO), renal (RE), ovarian (OV), breast (BR),
prostate (PR), lung (LC), central nervous system (CNS),
leukemia (LE) and melanoma (ME).
mae contain a 'MultiAssayExperiment' instance from NCI60 data with
transcriptome and proteomic experiments as described in dataTables.
Details
The transcriptome data was retrieved directly from the
NCI60_4arrays package. This data table contains gene
expression profiles generated by the Agilent platform with only
few hundreds of genes randomly selected to keep the size of the
Bioconductor package small. However, the full dataset is available
in Reinhold et al. (2012).
The proteomic data was retrieved directly from the
rcellminerData package. Protein abundance levels were
available for 162 proteins.
The scripts used to generate this data are contained within
the inst/extdata folder of the missRows package.
Source
NCI60_4arrays package.
rcellminerData package.
References
Reinhold W.C., Sunshine M., Liu H., Varma S., Kohn K.W., Morris J.,
Doroshow J., Pommier Y. (2012).
Cellminer: A web-based suite of genomic and pharmacologic tools to
explore transcript and drug patterns in the NCI-60 cell line set.
Cancer Research, 72(14):3499-511.
The CellMiner project website: http://discover.nci.nih.gov/cellminer
missRows documentation built on Nov. 8, 2020, 5:27 p.m.
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Description Usage Format Details Source References
Description
The NCI60 data contain both transcriptomic and proteomic
expression for a collection of 60 cell lines from the National
Cancer Institute (NCI-60). Data tables with missing individuals
have been generated for illustration purposes.
Usage
1 |
Format
A list with two components, dataTables and mae:
dataTables contain a list with the following components:
transa matrix containing 300 rows and 48 columns. The mRNA transcription levels of the NCI60 cell lines. There are 12 missing individuals.
protea matrix containing 162 rows and 52 columns. The protein abundance levels of the NCI60 cell lines. There are 8 missing individuals.
cell.linea
DataFrameof cancer types: colon (CO), renal (RE), ovarian (OV), breast (BR), prostate (PR), lung (LC), central nervous system (CNS), leukemia (LE) and melanoma (ME).
mae contain a 'MultiAssayExperiment' instance from NCI60 data with
transcriptome and proteomic experiments as described in dataTables.
Details
The transcriptome data was retrieved directly from the
NCI60_4arrays package. This data table contains gene
expression profiles generated by the Agilent platform with only
few hundreds of genes randomly selected to keep the size of the
Bioconductor package small. However, the full dataset is available
in Reinhold et al. (2012).
The proteomic data was retrieved directly from the
rcellminerData package. Protein abundance levels were
available for 162 proteins.
The scripts used to generate this data are contained within
the inst/extdata folder of the missRows package.
Source
NCI60_4arrays package.
rcellminerData package.
References
Reinhold W.C., Sunshine M., Liu H., Varma S., Kohn K.W., Morris J., Doroshow J., Pommier Y. (2012). Cellminer: A web-based suite of genomic and pharmacologic tools to explore transcript and drug patterns in the NCI-60 cell line set. Cancer Research, 72(14):3499-511.
The CellMiner project website: http://discover.nci.nih.gov/cellminer
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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