| Title: | KEGG Disease Datasets from GEO |
|---|---|
| Description: | This is a collection of 24 data sets for which the phenotype is a disease with a corresponding pathway in the KEGG database.This collection of datasets were used as gold standard in comparing gene set analysis methods by the PADOG package. |
| Authors: | Gaurav Bhatti, Adi L. Tarca |
| Maintainer: | Gaurav Bhatti <[email protected]> |
| License: | GPL-2 |
| Version: | 1.51.0 |
| Built: | 2026-10-10 10:34:41 UTC |
| Source: | https://github.com/bioc/KEGGdzPathwaysGEO |
This is a collection of 24 data sets for which the phenotype is a disease with a corresponding pathway in the KEGG database. This collection of datasets were used as gold standard in comparing gene set analysis methods by the PADOG package.
| GEOID | Pubmed | Ref. | Disease/Target pathway | KEGGID | Tissue | |
| GSE1297 | 14769913 | pmid14769913 | Alzheimer's Disease | hsa05010 | Hippocampal CA1 | |
| GSE5281 | 17077275 | pmid17077275 | Alzheimer's Disease | hsa05010 | Brain, Entorhinal Cortex | |
| GSE5281 | 17077275 | pmid17077275 | Alzheimer's Disease | hsa05010 | Brain, hippocampus | |
| GSE5281 | 17077275 | pmid17077275 | Alzheimer's Disease | hsa05010 | Brain, Primary visual cortex | |
| GSE20153 | 20926834 | pmid20926834 | Parkinson's disease | hsa05012 | Lymphoblasts | |
| GSE20291 | 15965975 | pmid15965975 | Parkinson's disease | hsa05012 | Postmortem brain putamen | |
| GSE8762 | 17724341 | pmid17724341 | Huntington's disease | hsa05016 | Lymphocytes (blood) | |
| GSE4107 | 17317818 | pmid17317818 | Colorectal Cancer | hsa05210 | Mucosa | |
| GSE8671 | 18171984 | pmid18171984 | Colorectal Cancer | hsa05210 | Colon | |
| GSE9348 | 20143136 | pmid20143136 | Colorectal Cancer | hsa05210 | Colon | |
| GSE14762 | 19252501 | pmid19252501 | Renal Cancer | hsa05211 | Kidney | |
| GSE781 | 14641932 | pmid14641932 | Renal Cancer | hsa05211 | Kidney | |
| GSE15471 | 19260470 | pmid19260470 | Pancreatic Cancer | hsa05212 | Pancreas | |
| GSE16515 | 19732725 | pmid19732725 | Pancreatic Cancer | hsa05212 | Pancreas | |
| GSE19728 | - | Glioma | hsa05214 | Brain | ||
| GSE21354 | - | Glioma | hsa05214 | Brain, Spine | ||
| GSE6956 | 18245496 | pmid18245496 | Prostate Cancer | hsa05215 | Prostate | |
| GSE6956 | 18245496 | pmid18245496 | Prostate Cancer | hsa05215 | Prostate | |
| GSE3467 | 16365291 | pmid16365291 | Thyroid Cancer | hsa05216 | Thyroid | |
| GSE3678 | - | Thyroid Cancer | hsa05216 | Thyroid | ||
| GSE9476 | 17910043 | pmid17910043 | Acute myeloid leukemia | hsa05221 | Blood, Bone marrow | |
| GSE18842 | 20878980 | pmid20878980 | Non-Small Cell Lung Cancer | hsa05223 | Lung | |
| GSE19188 | 20421987 | pmid20421987 | Non-Small Cell Lung Cancer | hsa05223 | Lung | |
| GSE3585 | 17045896 | pmid17045896 | Dilated cardiomyopathy | hsa05414 | Heart |
| Package: | KEGGdzPathwaysGEO |
| Type: | Package |
| Version: | 1.0 |
| Date: | 2012-07-23 |
| License: | GPL-2 |
Gaurav Bhatti <[email protected]>
Tarca AL, Draghici S, Bhatti G, Romero R (2012) Down-weighting overlapping genes improves gene set analysis.BMC Bioinformatics 13:136.
mysets=data(package="KEGGdzPathwaysGEO")$results[,"Item"] mysets data(GSE8671) set=mysets[1] data(list=set,package="KEGGdzPathwaysGEO")mysets=data(package="KEGGdzPathwaysGEO")$results[,"Item"] mysets data(GSE8671) set=mysets[1] data(list=set,package="KEGGdzPathwaysGEO")
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE1297
data(GSE1297)data(GSE1297)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE1297" .. .. ..@ lab : chr "Landfield" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Incipient Alzheimer's Disease: Microarray Correlation Analyses" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE1297" .. .. ..@ pubMedIds : chr "14769913" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05010" .. .. .. ..$ disease : chr "Alzheimer's Disease" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x3f9e5268> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 16 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:16] "GSM21215" "GSM21217" "GSM21218" "GSM21219" ... .. .. .. ..$ Group : chr [1:16] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22283 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133a" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 16 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
Samples belonging to the Severe and Control groups are included.The sample, GSM21207, was excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE1297
data(GSE1297)data(GSE1297)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14762
data(GSE14762)data(GSE14762)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE14762" .. .. ..@ lab : chr "Lab of Computational Biology" .. .. ..@ contact : chr "NA" .. .. ..@ title : chr "Renal Cell Carcinoma: Hypoxia and Endocytosis" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14762" .. .. ..@ pubMedIds : chr "19252501" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05211" .. .. .. ..$ disease : chr "Renal Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x3f9eaa60> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 21 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:21] "GSM368649" "GSM368650" "GSM368651" "GSM368652" ... .. .. .. ..$ Group : chr [1:21] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 21 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
The sample, GSM368647, was excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14762
data(GSE14762)data(GSE14762)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE15471
data(GSE15471)data(GSE15471)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE15471" .. .. ..@ lab : chr "AI and Bioinformatics" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Whole-Tissue Gene Expression Study of Pancreatic Ductal Adenocarcinoma" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE15471" .. .. ..@ pubMedIds : chr "19260470" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Paired" .. .. .. ..$ targetGeneSets: chr "05212" .. .. .. ..$ disease : chr "Pancreatic Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x3f9f19b8> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 3 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:3] "GEO Sample ID" "Control/Disease status" "Pair ID" .. .. ..@ data :'data.frame': 70 obs. of 3 variables: .. .. .. ..$ Sample: chr [1:70] "GSM388076" "GSM388078" "GSM388080" "GSM388082" ... .. .. .. ..$ Group : chr [1:70] "c" "c" "c" "c" ... .. .. .. ..$ Block : chr [1:70] "30162" "40728" "41027" "30057" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 70 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
Samples, GSM388077, GSM388079, GSM388081, GSM388116, GSM388118, GSM388120 were excluded because they were replicates. Samples, GSM388111 and GSM388150, were excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE15471
data(GSE15471)data(GSE15471)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE16515
data(GSE16515)data(GSE16515)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE16515" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Expression data from Mayo Clinic Pancreatic Tumor and Normal samples" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE16515" .. .. ..@ pubMedIds : chr "19732725" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Paired" .. .. .. ..$ targetGeneSets: chr "05212" .. .. .. ..$ disease : chr "Pancreatic Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x3f9f8150> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 3 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:3] "GEO Sample ID" "Control/Disease status" "Pair ID" .. .. ..@ data :'data.frame': 30 obs. of 3 variables: .. .. .. ..$ Sample: chr [1:30] "GSM414928" "GSM414930" "GSM414934" "GSM414938" ... .. .. .. ..$ Group : chr [1:30] "c" "c" "c" "c" ... .. .. .. ..$ Block : chr [1:30] "16" "53" "11" "54" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 30 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
Only those samples that consisted of both tumor and normal expression data were included. Samples, GSM414931 and GSM414932, were excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE16515
data(GSE16515)data(GSE16515)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE18842
data(GSE18842)data(GSE18842)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE18842" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Gene expression analysis of human lung cancer and control samples" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE18842" .. .. ..@ pubMedIds : chr "20878980" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Paired" .. .. .. ..$ targetGeneSets: chr "05223" .. .. .. ..$ disease : chr "Non Small Cell Lung Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x3f9fe140> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 3 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:3] "GEO Sample ID" "Control/Disease status" "Pair ID" .. .. ..@ data :'data.frame': 88 obs. of 3 variables: .. .. .. ..$ Sample: chr [1:88] "GSM466948" "GSM466950" "GSM466953" "GSM466955" ... .. .. .. ..$ Group : chr [1:88] "c" "c" "c" "c" ... .. .. .. ..$ Block : chr [1:88] "2" "3" "9" "10" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 88 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
Only those samples were included that were paired.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE18842
data(GSE18842)data(GSE18842)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19188
data(GSE19188)data(GSE19188)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE19188" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Expression data for early stage NSCLC" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19188" .. .. ..@ pubMedIds : chr "20421987" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05223" .. .. .. ..$ disease : chr "Non Small Cell Lung Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x3fa048d8> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 153 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:153] "GSM475657" "GSM475658" "GSM475660" "GSM475663" ... .. .. .. ..$ Group : chr [1:153] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 153 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
Samples, GSM475659, GSM475666 and GSM475781, were excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19188
data(GSE19188)data(GSE19188)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19728
data(GSE19728)data(GSE19728)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE19728" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Expression data from different grades (WHO) of astrocytomas (ACM)" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19728" .. .. ..@ pubMedIds : chr "NA" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05214" .. .. .. ..$ disease : chr "Glioma" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x3fa0a8c8> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 21 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:21] "GSM492649" "GSM525014" "GSM525015" "GSM525016" ... .. .. .. ..$ Group : chr [1:21] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 21 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19728
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19728
data(GSE19728)data(GSE19728)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20153
data(GSE20153)data(GSE20153)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE20153" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Expression analysis of lymphoblast cells lines in Parkinson's disease" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20153" .. .. ..@ pubMedIds : chr "20926834" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05012" .. .. .. ..$ disease : chr "Parkinson's disease" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2cb8a330> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 16 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:16] "GSM505297" "GSM505298" "GSM505299" "GSM505300" ... .. .. .. ..$ Group : chr [1:16] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 16 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20153
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20153
data(GSE20153)data(GSE20153)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20291
data(GSE20291)data(GSE20291)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE20291" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Transcriptional analysis of putamen in Parkinson's disease" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20291" .. .. ..@ pubMedIds : chr "15965975" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05012" .. .. .. ..$ disease : chr "Parkinson's disease" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2cb9b7d8> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 33 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:33] "GSM508594" "GSM508683" "GSM508686" "GSM508687" ... .. .. .. ..$ Group : chr [1:33] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22283 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133a" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 33 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
Samples, GSM508611 and GSM606622, were excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20291
data(GSE20291)data(GSE20291)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE21354
data(GSE21354)data(GSE21354)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE21354" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "gene expression profiling of three type of grade II gliomas" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE21354" .. .. ..@ pubMedIds : chr "NA" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05214" .. .. .. ..$ disease : chr "Glioma" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2cba1008> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 17 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:17] "GSM492649" "GSM525014" "GSM525015" "GSM525016" ... .. .. .. ..$ Group : chr [1:17] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 17 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
Sample, GSM492652, was excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE21354
data(GSE21354)data(GSE21354)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3467
data(GSE3467)data(GSE3467)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE3467" .. .. ..@ lab : chr "Davuluri Lab" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "The role of micro-RNA genes in papillary thyroid carcinoma" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3467" .. .. ..@ pubMedIds : chr "16365291" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Paired" .. .. .. ..$ targetGeneSets: chr "05216" .. .. .. ..$ disease : chr "Thyroid Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2cba7f60> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 3 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:3] "GEO Sample ID" "Control/Disease status" "Pair ID" .. .. ..@ data :'data.frame': 18 obs. of 3 variables: .. .. .. ..$ Sample: chr [1:18] "GSM77362" "GSM77364" "GSM77366" "GSM77368" ... .. .. .. ..$ Group : chr [1:18] "c" "c" "c" "c" ... .. .. .. ..$ Block : chr [1:18] "14" "26" "50" "69" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 18 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3467
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3467
data(GSE3467)data(GSE3467)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3585
data(GSE3585)data(GSE3585)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE3585" .. .. ..@ lab : chr "Unit Cancer Genome Research" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Dilated Cardiomyopathy and Non Failing Biopsies" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3585" .. .. ..@ pubMedIds : chr "17045896" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05414" .. .. .. ..$ disease : chr "Dilated cardiomyopathy" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2cbaeeb8> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 12 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:12] "GSM82381" "GSM82382" "GSM82383" "GSM82384" ... .. .. .. ..$ Group : chr [1:12] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22283 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133a" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 12 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3585
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3585
data(GSE3585)data(GSE3585)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3678
data(GSE3678)data(GSE3678)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE3678" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "PTC versus paired normal thyroid tissue" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3678" .. .. ..@ pubMedIds : chr "NA" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Paired" .. .. .. ..$ targetGeneSets: chr "05216" .. .. .. ..$ disease : chr "Thyroid Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2cbb46e8> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 3 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:3] "GEO Sample ID" "Control/Disease status" "Pair ID" .. .. ..@ data :'data.frame': 14 obs. of 3 variables: .. .. .. ..$ Sample: chr [1:14] "GSM85215" "GSM85216" "GSM85217" "GSM85218" ... .. .. .. ..$ Group : chr [1:14] "c" "c" "c" "c" ... .. .. .. ..$ Block : chr [1:14] "1" "2" "3" "4" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 14 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3678
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3678
data(GSE3678)data(GSE3678)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE4107
data(GSE4107)data(GSE4107)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE4107" .. .. ..@ lab : chr "CRC research lab" .. .. ..@ contact : chr "[email protected];[email protected]" .. .. ..@ title : chr "Expression profiling in early onset colorectal cancer" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE4107" .. .. ..@ pubMedIds : chr "17317818" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05210" .. .. .. ..$ disease : chr "Colorectal Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x41550490> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 22 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:22] "GSM93938" "GSM93939" "GSM93941" "GSM93943" ... .. .. .. ..$ Group : chr [1:22] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE4107
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE4107
data(GSE4107)data(GSE4107)
GSE5281_EC contains data for Entorhinal cortex samples from the data set GSE5281. For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281
data(GSE5281_EC)data(GSE5281_EC)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE5281_EC" .. .. ..@ lab : chr "NIH Neuroscience Microarray Consortium" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Alzheimer's disease and the normal aged brain (steph-affy-human-433773)" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281" .. .. ..@ pubMedIds : chr "17077275" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05010" .. .. .. ..$ disease : chr "Alzheimer's Disease" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x415573e8> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 21 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:21] "GSM119615" "GSM119616" "GSM119617" "GSM119618" ... .. .. .. ..$ Group : chr [1:21] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 21 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
GSE5281_EC contains data for Entorhinal cortex samples from the data set GSE5281. The samples, GSM119626 and GSM238763, were excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281
data(GSE5281_EC)data(GSE5281_EC)
GSE5281_HIP contains data for hippocampus samples from the data set GSE5281. For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281
data(GSE5281_HIP)data(GSE5281_HIP)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE5281_HIP" .. .. ..@ lab : chr "NIH Neuroscience Microarray Consortium" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Alzheimer's disease and the normal aged brain (steph-affy-human-433773)" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281" .. .. ..@ pubMedIds : chr "17077275" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05010" .. .. .. ..$ disease : chr "Alzheimer's Disease" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x4155cc18> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 23 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:23] "GSM119628" "GSM119629" "GSM119630" "GSM119631" ... .. .. .. ..$ Group : chr [1:23] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 23 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
GSE5281_HIP contains data for hippocampus samples from the data set GSE5281.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281
data(GSE5281_HIP)data(GSE5281_HIP)
GSE5281_VCX contains data for Visual Cortex samples from the data set GSE5281. For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281
data(GSE5281_VCX)data(GSE5281_VCX)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE5281_VCX" .. .. ..@ lab : chr "NIH Neuroscience Microarray Consortium" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Alzheimer's disease and the normal aged brain (steph-affy-human-433773)" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281" .. .. ..@ pubMedIds : chr "17077275" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05010" .. .. .. ..$ disease : chr "Alzheimer's Disease" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2cbb3168> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 31 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:31] "GSM119677" "GSM119678" "GSM119679" "GSM119680" ... .. .. .. ..$ Group : chr [1:31] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 31 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
GSE5281_VCX contains data for Visual Cortex samples from the data set GSE5281.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5281
data(GSE5281_VCX)data(GSE5281_VCX)
GSE6956AA contains data for African-American Men from the data set GSE6956. For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6956
data(GSE6956AA)data(GSE6956AA)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE6956AA" .. .. ..@ lab : chr "The Laboratory of Human Carcinogenesis" .. .. ..@ contact : chr "NA" .. .. ..@ title : chr "Tumor Immunobiological Differences in Prostate Cancer between African-American and European-American Men" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6956" .. .. ..@ pubMedIds : chr "18245496" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Paired" .. .. .. ..$ targetGeneSets: chr "05215" .. .. .. ..$ disease : chr "Prostate Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2cb95870> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 3 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:3] "GEO Sample ID" "Control/Disease status" "Pair ID" .. .. ..@ data :'data.frame': 10 obs. of 3 variables: .. .. .. ..$ Sample: chr [1:10] "GSM160404" "GSM160424" "GSM160427" "GSM160428" ... .. .. .. ..$ Group : chr [1:10] "c" "c" "c" "c" ... .. .. .. ..$ Block : chr [1:10] "65" "51" "16" "11" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22277 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133a" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 10 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
GSE6956AA contains data for African-American Men from the data set GSE6956.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6956
data(GSE6956AA)data(GSE6956AA)
GSE6956C contains data for European-American Men from the data set GSE6956. For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6956
data(GSE6956C)data(GSE6956C)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE6956C" .. .. ..@ lab : chr "The Laboratory of Human Carcinogenesis" .. .. ..@ contact : chr "NA" .. .. ..@ title : chr "Tumor Immunobiological Differences in Prostate Cancer between African-American and European-American Men" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6956" .. .. ..@ pubMedIds : chr "18245496" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Paired" .. .. .. ..$ targetGeneSets: chr "05215" .. .. .. ..$ disease : chr "Prostate Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x3f9f5cd8> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 3 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:3] "GEO Sample ID" "Control/Disease status" "Pair ID" .. .. ..@ data :'data.frame': 16 obs. of 3 variables: .. .. .. ..$ Sample: chr [1:16] "GSM160402" "GSM160407" "GSM160409" "GSM160411" ... .. .. .. ..$ Group : chr [1:16] "c" "c" "c" "c" ... .. .. .. ..$ Block : chr [1:16] "63" "68" "70" "72" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22277 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133a" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 16 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
GSE6956C contains data for European-American Men from the data set GSE6956.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6956
data(GSE6956C)data(GSE6956C)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE781
data(GSE781)data(GSE781)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE781" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Normal and Renal Cell Carcinoma Kidney Tissue, Human" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE781" .. .. ..@ pubMedIds : chr "14641932" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05211" .. .. .. ..$ disease : chr "Renal Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x2a6cbd18> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 17 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:17] "GSM11805" "GSM11823" "GSM12075" "GSM12098" ... .. .. .. ..$ Group : chr [1:17] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22283 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133a" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 17 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
Samples run on the chip, hgu133a, are included.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE781
data(GSE781)data(GSE781)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE8671
data(GSE8671)data(GSE8671)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE8671" .. .. ..@ lab : chr "NA" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Transcriptome profile of human colorectal adenomas." .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE8671" .. .. ..@ pubMedIds : chr "18171984" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Paired" .. .. .. ..$ targetGeneSets: chr "05210" .. .. .. ..$ disease : chr "Colorectal Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x383c9608> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 3 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:3] "GEO Sample ID" "Control/Disease status" "Pair ID" .. .. ..@ data :'data.frame': 64 obs. of 3 variables: .. .. .. ..$ Sample: chr [1:64] "GSM215051" "GSM215052" "GSM215053" "GSM215054" ... .. .. .. ..$ Group : chr [1:64] "c" "c" "c" "c" ... .. .. .. ..$ Block : chr [1:64] "1" "2" "3" "4" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 64 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE8671
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE8671
data(GSE8671)data(GSE8671)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE8762
data(GSE8762)data(GSE8762)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE8762" .. .. ..@ lab : chr "Laboratory of Neurogenetics" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Lymphocyte gene expression data from moderate stage HD patients and controls" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE8762" .. .. ..@ pubMedIds : chr "17724341" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05016" .. .. .. ..$ disease : chr "Huntington's disease" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x7e09e1f0> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 22 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:22] "GSM217766" "GSM217767" "GSM217768" "GSM217769" ... .. .. .. ..$ Group : chr [1:22] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE8762
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE8762
data(GSE8762)data(GSE8762)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9348
data(GSE9348)data(GSE9348)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE9348" .. .. ..@ lab : chr "CRC research lab" .. .. ..@ contact : chr "[email protected];[email protected]" .. .. ..@ title : chr "Expression data from healthy controls and early stage CRC patient's tumor" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9348" .. .. ..@ pubMedIds : chr "20143136" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05210" .. .. .. ..$ disease : chr "Colorectal Cancer" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x6239b018> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 82 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:82] "GSM237984" "GSM237985" "GSM237986" "GSM237987" ... .. .. .. ..$ Group : chr [1:82] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 54675 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133plus2" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 82 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9348
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9348
data(GSE9348)data(GSE9348)
For detailed description visit: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9476
data(GSE9476)data(GSE9476)
The format is: Formal class 'ExpressionSet' [package "Biobase"] with 7 slots ..@ experimentData :Formal class 'MIAME' [package "Biobase"] with 13 slots .. .. ..@ name : chr "GSE9476" .. .. ..@ lab : chr "Stirewalt Lab" .. .. ..@ contact : chr "[email protected]" .. .. ..@ title : chr "Abnormal Expression Changes in AML" .. .. ..@ abstract : chr "" .. .. ..@ url : chr "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9476" .. .. ..@ pubMedIds : chr "17910043" .. .. ..@ samples : list() .. .. ..@ hybridizations : list() .. .. ..@ normControls : list() .. .. ..@ preprocessing : list() .. .. ..@ other :List of 3 .. .. .. ..$ design : chr "Not Paired" .. .. .. ..$ targetGeneSets: chr "05221" .. .. .. ..$ disease : chr "Acute myeloid leukemia" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 2 .. .. .. .. .. ..$ : int [1:3] 1 0 0 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ assayData :<environment: 0x6a5d4cd0> ..@ phenoData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 2 obs. of 1 variable: .. .. .. ..$ labelDescription: chr [1:2] "GEO Sample ID" "Control/Disease status" .. .. ..@ data :'data.frame': 63 obs. of 2 variables: .. .. .. ..$ Sample: chr [1:63] "GSM239170" "GSM239323" "GSM239324" "GSM239326" ... .. .. .. ..$ Group : chr [1:63] "c" "c" "c" "c" ... .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ featureData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 22283 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "featureNames" "featureColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ annotation : chr "hgu133a" ..@ protocolData :Formal class 'AnnotatedDataFrame' [package "Biobase"] with 4 slots .. .. ..@ varMetadata :'data.frame': 0 obs. of 1 variable: .. .. .. ..$ labelDescription: chr(0) .. .. ..@ data :'data.frame': 63 obs. of 0 variables .. .. ..@ dimLabels : chr [1:2] "sampleNames" "sampleColumns" .. .. ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. .. .. ..@ .Data:List of 1 .. .. .. .. .. ..$ : int [1:3] 1 1 0 ..@ .__classVersion__:Formal class 'Versions' [package "Biobase"] with 1 slots .. .. ..@ .Data:List of 4 .. .. .. ..$ : int [1:3] 2 15 0 .. .. .. ..$ : int [1:3] 2 16 0 .. .. .. ..$ : int [1:3] 1 3 0 .. .. .. ..$ : int [1:3] 1 0 0
The sample, GSM240433, was excluded during Quality Control.
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9476
data(GSE9476)data(GSE9476)