Anglais

This sample attributes table includes body site where sample was collected, analyte type, histological type, tumor status, sample batch, RIN, genotyping and sequencing centers, and sample use (n=3 variables).

5 Formulaires  
pht006302
Description

pht006302

Alias
UMLS CUI [1,1]
C3846158
De-identified Sample ID
Description

SAMPLE_ID

Type de données

string

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

BODY_SITE

Type de données

string

Alias
UMLS CUI [1,1]
C0449705
Analyte Type
Description

ANALYTE_TYPE

Type de données

string

Alias
UMLS CUI [1,1]
C4744818
Tumor status
Description

IS_TUMOR

Type de données

text

Alias
UMLS CUI [1,1]
C0475752
Cell or tissue type or subtype of sample
Description

HISTOLOGICAL_TYPE

Type de données

string

Alias
UMLS CUI [1,1]
C2347026
UMLS CUI [1,2]
C0007634
UMLS CUI [1,3]
C0332307
UMLS CUI [2,1]
C2347026
UMLS CUI [2,2]
C0007634
UMLS CUI [2,3]
C0449560
UMLS CUI [3,1]
C1292533
UMLS CUI [3,2]
C0332307
UMLS CUI [4,1]
C1292533
UMLS CUI [4,2]
C0449560
RNA extraction and library creation batch; sequencing pool
Description

BATCH

Type de données

string

Alias
UMLS CUI [1,1]
C0035668
UMLS CUI [1,2]
C0185115
UMLS CUI [1,3]
C0023621
UMLS CUI [1,4]
C1706214
UMLS CUI [1,5]
C1948031
UMLS CUI [1,6]
C1561491
UMLS CUI [1,7]
C1509144
RNA Integrity Number
Description

RIN

Type de données

string

Alias
UMLS CUI [1,1]
C1882531
Name of the center which conducted genotyping
Description

GENOTYPING_CENTER

Type de données

string

Alias
UMLS CUI [1,1]
C1301943
UMLS CUI [1,2]
C0565990
UMLS CUI [1,3]
C1285573
Name of the center which conducted sequencing
Description

SEQUENCING_CENTER

Type de données

string

Alias
UMLS CUI [1,1]
C1301943
UMLS CUI [1,2]
C0565990
UMLS CUI [1,3]
C1561491
Fusion use
Description

FUSION_USE

Type de données

text

Alias
UMLS CUI [1,1]
C1293131
UMLS CUI [1,2]
C1524063
Used for analysis or not
Description

USE_ME

Type de données

text

Alias
UMLS CUI [1,1]
C0936012
UMLS CUI [2,1]
C1298908
UMLS CUI [2,2]
C0936012
Reason not used for analysis
Description

REASON

Type de données

string

Alias
UMLS CUI [1,1]
C0566251
UMLS CUI [1,2]
C1298908
UMLS CUI [1,3]
C0936012
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Similar models

This sample attributes table includes body site where sample was collected, analyte type, histological type, tumor status, sample batch, RIN, genotyping and sequencing centers, and sample use (n=3 variables).

5 Formulaires
Name
Type
Description | Question | Decode (Coded Value)
Type de données
Alias
Item Group
pht006302
C3846158 (UMLS CUI [1,1])
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])
ANALYTE_TYPE
Item
Analyte Type
string
C4744818 (UMLS CUI [1,1])
Item
Tumor status
text
C0475752 (UMLS CUI [1,1])
IS_TUMOR
Code List
Tumor status
CL Item
Not a tumor (N)
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])
C2347026 (UMLS CUI [2,1])
C0007634 (UMLS CUI [2,2])
C0449560 (UMLS CUI [2,3])
C1292533 (UMLS CUI [3,1])
C0332307 (UMLS CUI [3,2])
C1292533 (UMLS CUI [4,1])
C0449560 (UMLS CUI [4,2])
BATCH
Item
RNA extraction and library creation batch; sequencing pool
string
C0035668 (UMLS CUI [1,1])
C0185115 (UMLS CUI [1,2])
C0023621 (UMLS CUI [1,3])
C1706214 (UMLS CUI [1,4])
C1948031 (UMLS CUI [1,5])
C1561491 (UMLS CUI [1,6])
C1509144 (UMLS CUI [1,7])
RIN
Item
RNA Integrity Number
string
C1882531 (UMLS CUI [1,1])
GENOTYPING_CENTER
Item
Name of the center which conducted genotyping
string
C1301943 (UMLS CUI [1,1])
C0565990 (UMLS CUI [1,2])
C1285573 (UMLS CUI [1,3])
SEQUENCING_CENTER
Item
Name of the center which conducted sequencing
string
C1301943 (UMLS CUI [1,1])
C0565990 (UMLS CUI [1,2])
C1561491 (UMLS CUI [1,3])
Item
Fusion use
text
C1293131 (UMLS CUI [1,1])
C1524063 (UMLS CUI [1,2])
FUSION_USE
Code List
Fusion use
CL Item
CAGE-seq (CAGE-seq)
CL Item
EPIC_chip (EPIC_chip)
CL Item
Omni2.5M_chip_genotype;imputed_genotype (Omni2.5M_chip_genotype;imputed_genotype)
CL Item
WGBS (WGBS)
CL Item
WGS (WGS)
CL Item
bulkATAC-seq (bulkATAC-seq)
CL Item
mRNA-seq (mRNA-seq)
CL Item
miRNA_seq (miRNA_seq)
CL Item
scRNA-seq (scRNA-seq)
CL Item
snATAC-seq (snATAC-seq)
Item
Used for analysis or not
text
C0936012 (UMLS CUI [1,1])
C1298908 (UMLS CUI [2,1])
C0936012 (UMLS CUI [2,2])
USE_ME
Code List
Used for analysis or not
CL Item
Not used for analysis (0)
CL Item
Used for analysis (1)
REASON
Item
Reason not used for analysis
string
C0566251 (UMLS CUI [1,1])
C1298908 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
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