LUAD_CaseStudy_clinicalInfos: Clinical informations for a cohort of 188 lung adenocarcinoma...
In saezlab/SLAPenrich: Sample-population Level Analysis of Pathway enrichments
Description
Format
Details
Source
References
See Also
Description
A named binary matrix where column names are clinical factors, and the row names sample identifiers. A non-zero entry in position i,j of this matrix indicates the for the i-sample the in the j-factor is positive.
This matrix summarizes some clinical informations for a cohort of 188 lung adenocarcinoma patients of a public available dataset (see source). Particularly the smoking status of the patient-samples (former smoker, current smoker, never smoked, not available) and the
bronchioalveolar carcinoma type (mucinous and not-mucinous).
This dataset is paired with LUAD_CaseStudy, which summarises the somatic variants found in the same cohort of patients.
Format
A named binary matrix with sample identifiers as row names and clinical factor identifiers as column names:
i.e.
format:
num [1:188, 1:6] 1 0 0 0 0 0 0 0 0 0 ...
- attr(*, "dimnames")=List of 2
..$ : chr [1:188] "16530" "16594" "16596" "16600" ...
..$ : chr [1:6] "SS_NotAvailable" "SS_Former" "SS_CurrentSmoker" "SS_Never" ...
Details
The sample identifiers on the rows match the column names of the integer matrix in LUAD_CaseStudy.
Source
The dataset from which this matrix was derived has been studied in Ding et al, 2008. The clinical informations used to assemble this matrix are in Supplementary Table 15 of this publication (available at http://genome.wustl.edu/pub/supplemental/tsp_nature_2008/)
References
Ding L, Getz G, Wheeler DA, Mardis ER, McLellan MD, Cibulskis K, et al. Somatic mutations affect key pathways in lung adenocarcinoma. Nature. 2008;455:1069-75.
See Also
saezlab/SLAPenrich documentation built on May 29, 2019, 12:57 p.m.
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.
Description Format Details Source References See Also
Description
A named binary matrix where column names are clinical factors, and the row names sample identifiers. A non-zero entry in position i,j of this matrix indicates the for the i-sample the in the j-factor is positive.
This matrix summarizes some clinical informations for a cohort of 188 lung adenocarcinoma patients of a public available dataset (see source). Particularly the smoking status of the patient-samples (former smoker, current smoker, never smoked, not available) and the
bronchioalveolar carcinoma type (mucinous and not-mucinous).
This dataset is paired with LUAD_CaseStudy, which summarises the somatic variants found in the same cohort of patients.
Format
A named binary matrix with sample identifiers as row names and clinical factor identifiers as column names: i.e. format: num [1:188, 1:6] 1 0 0 0 0 0 0 0 0 0 ... - attr(*, "dimnames")=List of 2 ..$ : chr [1:188] "16530" "16594" "16596" "16600" ... ..$ : chr [1:6] "SS_NotAvailable" "SS_Former" "SS_CurrentSmoker" "SS_Never" ...
Details
The sample identifiers on the rows match the column names of the integer matrix in LUAD_CaseStudy.
Source
The dataset from which this matrix was derived has been studied in Ding et al, 2008. The clinical informations used to assemble this matrix are in Supplementary Table 15 of this publication (available at http://genome.wustl.edu/pub/supplemental/tsp_nature_2008/)
References
Ding L, Getz G, Wheeler DA, Mardis ER, McLellan MD, Cibulskis K, et al. Somatic mutations affect key pathways in lung adenocarcinoma. Nature. 2008;455:1069-75.
See Also
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.