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This sample attributes table contains sample IDs, body site, analyte type, histological type, tumor status, DNA concentration, coefficient of variation between two pico readings, dish QC metric, cluster call rate, heterozygous SNP genotypes, sample status, and name of the center which conducted genotyping.

5 forms  
pht006190
Description

pht006190

De-identified Sample ID
Description

Sample_ID

Data type

string

Alias
UMLS CUI [1,1]
C4684638
UMLS CUI [1,2]
C1299222
Body site where sample was collected
Description

Body_Site

Data type

string

Alias
UMLS CUI [1,1]
C0449705
Analyte Type of the sample
Description

Analyte_Type

Data type

string

Alias
UMLS CUI [1,1]
C4744818
Cell or tissue type or subtype of sample
Description

Histological_Type

Data type

string

Alias
UMLS CUI [1,1]
C2347026
UMLS CUI [1,2]
C0007634
UMLS CUI [1,3]
C0332307
UMLS CUI [2,1]
C1292533
UMLS CUI [2,2]
C0332307
Tumor status
Description

Is_Tumor

Data type

string

Alias
UMLS CUI [1,1]
C0475752
Affymetrix PicoGreen concentration of the DNA sample
Description

DNA_Concentration

Data type

text

Measurement units
  • ng per uL
Alias
UMLS CUI [1,1]
C0444245
UMLS CUI [1,2]
C4085938
UMLS CUI [1,3]
C0389638
UMLS CUI [1,4]
C1446561
ng per uL
Coefficient of variation between two pico readings for a sample.
Description

CVpct

Data type

text

Measurement units
  • percentage
Alias
UMLS CUI [1,1]
C0389638
UMLS CUI [1,2]
C1975904
percentage
Dish QC metric.
Description

dQC

Data type

text

Alias
UMLS CUI [1,1]
C0034378
UMLS CUI [1,2]
C0699680
The Axiom GT1 cluster call rate of the best array.
Description

Cluster_CR

Data type

text

Alias
UMLS CUI [1,1]
C3846158
(# heterozygous SNP genotypes)/(total # SNPs called)
Description

Het_Rate

Data type

text

Measurement units
  • percentage
Alias
UMLS CUI [1,1]
C0752046
UMLS CUI [1,2]
C4288115
percentage
Status of the sample based on Affymetrix QC metrics.
Description

Sample_Status

Data type

string

Alias
UMLS CUI [1,1]
C0370003
UMLs CUI [1, 2]
C0449438
Name of the center which conducted genotyping
Description

Genotyping_Center

Data type

string

Alias
UMLS CUI [1,1]
C1707515
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Similar models

This sample attributes table contains sample IDs, body site, analyte type, histological type, tumor status, DNA concentration, coefficient of variation between two pico readings, dish QC metric, cluster call rate, heterozygous SNP genotypes, sample status, and name of the center which conducted genotyping.

5 forms
Name
Type
Description | Question | Decode (Coded Value)
Data type
Alias
Item Group
pht006190
Sample_ID
Item
De-identified Sample ID
string
C4684638 (UMLS CUI [1,1])
C1299222 (UMLS CUI [1,2])
Body_Site
Item
Body site where sample was collected
string
C0449705 (UMLS CUI [1,1])
Item
Analyte Type of the sample
string
C4744818 (UMLS CUI [1,1])
Analyte_Type
Code List
Analyte Type of the sample
CL Item
not available (indicating no depositied genotypes for this sample) (NA)
C0686905 (UMLS CUI [1,1])
Histological_Type
Item
Cell or tissue type or subtype of sample
string
C2347026 (UMLS CUI [1,1])
C0007634 (UMLS CUI [1,2])
C0332307 (UMLS CUI [1,3])
C1292533 (UMLS CUI [2,1])
C0332307 (UMLS CUI [2,2])
Is_Tumor
Item
Tumor status
string
C0475752 (UMLS CUI [1,1])
DNA_Concentration
Item
Affymetrix PicoGreen concentration of the DNA sample
text
C0444245 (UMLS CUI [1,1])
C4085938 (UMLS CUI [1,2])
C0389638 (UMLS CUI [1,3])
C1446561 (UMLS CUI [1,4])
CVpct
Item
Coefficient of variation between two pico readings for a sample.
text
C0389638 (UMLS CUI [1,1])
C1975904 (UMLS CUI [1,2])
dQC
Item
Dish QC metric.
text
C0034378 (UMLS CUI [1,1])
C0699680 (UMLS CUI [1,2])
Cluster_CR
Item
The Axiom GT1 cluster call rate of the best array.
text
C3846158 (UMLS CUI [1,1])
Het_Rate
Item
(# heterozygous SNP genotypes)/(total # SNPs called)
text
C0752046 (UMLS CUI [1,1])
C4288115 (UMLS CUI [1,2])
Sample_Status
Item
Status of the sample based on Affymetrix QC metrics.
string
C0370003 (UMLS CUI [1,1])
C0449438 (UMLs CUI [1, 2])
Item
Name of the center which conducted genotyping
string
C1707515 (UMLS CUI [1,1])
Genotyping_Center
Code List
Name of the center which conducted genotyping
CL Item
not available (indicating no depositied genotypes for this sample) (NA)
C0686905 (UMLS CUI [1,1])
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