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EBI Databases Nucleotide Databases IPD ESTDAB

IPD-ESTDAB Database

ESTDAB Database Dictionary Version 1.3

The dictionary represents a detailed list of all markers and the acceptable values for each of their associated fields. Where possible the accepted values have been listed, for example Gender can be M, F or Unknown. Within the list of acceptable values a comma separates the entries, so in the above example Gender is listed as M, F, Unknown. Some fields may contain a numerical value or a text string, in these cases a simple description has been provided.


Cell Source

Name Field Group
Cell Type B-LCL, Melanoma, Uveal Melanoma, Unknown Pawelec
Tissue of Origin Axillary Lymph Node, Lymph Node, Primary Tumour, Secondary Tumour, Skin, Unknown Pawelec
Gender M, F, Unknown Pawelec
Ethnic Origin Description of ethnic origin Pawelec
Morphology Epithelial, Fibroblast, Unknown Pawelec
Medium Used RPMI 1640 10%FBS Pawelec
Mycoplasma Status Negative, Positive, Unknown Pawelec
Comments Free Text Comments Pawelec

PrimarySearch Determinants


High Resolution HLA Typing

HLA RSCA Typing Data

Marker

 Allele 1 Allele 2 Group
HLA-A ND, Allele String ND, Allele String Marsh
HLA-B ND, Allele String ND, Allele String Marsh
HLA-C ND, Allele String ND, Allele String Marsh
HLA-DRB1 ND, Allele String ND, Allele String Marsh
HLA-DRB3 ND, Allele String ND, Allele String Marsh
HLA-DRB4 ND, Allele String ND, Allele String Marsh
HLA-DRB5 ND, Allele String ND, Allele String Marsh
HLA-DQA1 ND, Allele String ND, Allele String Marsh
HLA-DQB1 ND, Allele String ND, Allele String Marsh
HLA-DPA1 ND, Allele String ND, Allele String Marsh
HLA-DPB1 ND, Allele String ND, Allele String Marsh

HLA and Related Genes, Surface Expression

FACS Data
Marker Conditions Normalised Score Intensity Group
HLA-A, B, C Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-A Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-B Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-C Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-Bw4 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-Bw6 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-DR Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-DQ Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-DP Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-E Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
HLA-G Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido
MICA Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
MICB Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
MICA/B Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
Beta2Microglobulin Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Garrido

Tumour Associated Antigens

Real Time PCR Data
Marker Score Group
BAGE

ND, -, +, ++, +++

 Straten
BUC1

ND, -, +, ++, +++

 Straten
GAGE

ND, -, +, ++, +++

 Straten
gp100

ND, -, +, ++, +++

 Straten
MAGE1

ND, -, +, ++, +++

 Straten
MAGE2

ND, -, +, ++, +++

 Straten
MAGE3

ND, -, +, ++, +++

 Straten
MAGE4

ND, -, +, ++, +++

 Straten
MAGE6

ND, -, +, ++, +++

 Straten
MAGE10

ND, -, +, ++, +++

 Straten
MTA1

ND, -, +, ++, +++

 Straten
NA17-A

ND, -, +, ++, +++

 Straten
NMP-2

ND, -, +, ++, +++

 Straten
T17

ND, -, +, ++, +++

 Straten
T128

ND, -, +, ++, +++

 Straten
T21

ND, -, +, ++, +++

 Straten
TACC1D

ND, -, +, ++, +++

 Straten
Chromium Release Assay Data
Marker Specificity Ratio Lysis (%) Group
MART1(-27-35) ND, HLA Type Numerical Ratio Percentage Straten
gp100 (-209-217) ND, HLA Type Numerical Ratio Percentage Straten
gp100 (-154-162) ND, HLA Type Numerical Ratio Percentage Straten
Immunohistochemistry Data
Marker Score Group
gp100 ND, -, +, ++, +++ Straten

Cytokine Secretions

Cytokine Secretion Data
Marker Substrate - Plastic Substrate - Matrigel Group
Interleukin 6 Numerical value picograms/ml Numerical value picograms/ml Kiessling
Interleukin 8 Numerical value picograms/ml Numerical value picograms/ml Kiessling
Interleukin 10 Numerical value picograms/ml Numerical value picograms/ml Kiessling
Interferon Gamma Numerical value picograms/ml Numerical value picograms/ml Kiessling
TGF Beta Numerical value picograms/ml Numerical value picograms/ml Kiessling
TNF Alpha Numerical value picograms/ml Numerical value picograms/ml Kiessling

Secondary Search Determinants


Antigen Processing

Western Blot Data
Marker Conditions Presence Group
Heavy Chain Initial Conditions,
After 72 hours, IFN-Gamma Induced 		ND, -, +, ++, +++, ++++ Kiessling
LMP2 Initial Conditions,
After 72 hours, IFN-Gamma Induced 		ND, -, +, ++, +++, ++++ Kiessling
LMP7 Initial Conditions,
After 72 hours, IFN-Gamma Induced 		ND, -, +, ++, +++, ++++ Kiessling
MECL1 Initial Conditions,
After 72 hours, IFN-Gamma Induced 		ND, -, +, ++, +++, ++++ Kiessling
TAP1 Initial Conditions,
After 72 hours, IFN-Gamma Induced 		ND, -, +, ++, +++, ++++ Kiessling
TAP2 Initial Conditions,
After 72 hours, IFN-Gamma Induced 		ND, -, +, ++, +++, ++++ Kiessling

Apoptosis

FACS Data
Marker Conditions Normalised Score Intensity Group
B7H1 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD11a Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Solano
CD11b Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Solano
CD48 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Solano
CD49d Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Solano
CD56 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Solano
CD57 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Solano
CD95 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD95L Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD112 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD155 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
gp100 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
PD-1 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
TRAIL-R1 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
TRAIL-R2 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
TRAIL-R3 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
TRAIL-R4 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
RNA Protection Assay
Marker Score Group
caspase-8

ND, -, +/-, +, ++, +++

 Garrido
cIAP1

ND, -, +/-, +, ++, +++

 Garrido
cIAP2

ND, -, +/-, +, ++, +++

 Garrido
DR3 TRAMP APO3

ND, -, +/-, +, ++, +++

 Garrido
FADD

ND, -, +/-, +, ++, +++

 Garrido
FAF

ND, -, +/-, +, ++, +++

 Garrido
FAP

ND, -, +/-, +, ++, +++

 Garrido
Fas

ND, -, +/-, +, ++, +++

 Garrido
FasL

ND, -, +/-, +, ++, +++

 Garrido
NAIP

ND, -, +/-, +, ++, +++

 Garrido
RIP

ND, -, +/-, +, ++, +++

 Garrido
TNFRp55

ND, -, +/-, +, ++, +++

 Garrido
TRADD

ND, -, +/-, +, ++, +++

 Garrido
TRAF1

ND, -, +/-, +, ++, +++

 Garrido
TRAF2

ND, -, +/-, +, ++, +++

 Garrido
TRAF3

ND, -, +/-, +, ++, +++

 Garrido
TRAF4

ND, -, +/-, +, ++, +++

 Garrido
TRAIL

ND, -, +/-, +, ++, +++

 Garrido
TRPM2

ND, -, +/-, +, ++, +++

 Garrido
XIAP

ND, -, +/-, +, ++, +++

 Garrido
Western Blot Data
Marker Score Group
APAF1 ND, -, +, ++ Pawelec
BAX ND, -, +, ++ Pawelec
Bcl 2 ND, -, +, ++ Pawelec
Bcl w ND, -, +, ++ Pawelec
Bcl xL ND, -, +, ++ Pawelec
Bcl xS ND, -, +, ++ Pawelec
Bid ND, -, +, ++ Pawelec
FliP ND, -, +, ++ Pawelec

Cytokine Polymorphisms

Cytokine Polymorphism Data
Marker Position Polymorphism Polymorphsim Group
Interleukin 6 -174 (Promoter)

A,C,G,T

A,C,G,T

 Naumova
Interleukin 10 -1082

A,C,G,T

A,C,G,T

 Naumova
Interleukin 10 -819

A,C,G,T

A,C,G,T

 Naumova
Interleukin 10 -592

A,C,G,T

A,C,G,T

 Naumova
Interleukin 10 +571

A,C,G,T

A,C,G,T

Naumova
Interferon Gamma -333

A,C,G,T

A,C,G,T

 Naumova
Interferon Gamma -+874 (intron 1)

A,C,G,T

A,C,G,T

 Naumova
TGF Beta -988

A,C,G,T

A,C,G,T

 Naumova
TGF Beta -800

A,C,G,T

A,C,G,T

 Naumova
TGF Beta -509

A,C,G,T

A,C,G,T

 Naumova
TGF Beta +652

A,C,G,T

A,C,G,T

Naumova
TGF Beta +653

A,C,G,T

A,C,G,T

 Naumova
TGF Beta +713

A,C,G,T

A,C,G,T

 Naumova
TGF Beta +788

A,C,G,T

A,C,G,T

 Naumova
TGF Beta +869

A,C,G,T

A,C,G,T

 Naumova
TGF Beta +915

A,C,G,T

A,C,G,T

Naumova
TGF Beta codon 10

A,C,G,T

A,C,G,T

 Naumova
TGF Beta codon 25

A,C,G,T

A,C,G,T

Naumova
TNF Alpha -1031

A,C,G,T

A,C,G,T

 Naumova
TNF Alpha -863

A,C,G,T

A,C,G,T

 Naumova
TNF Alpha -857

A,C,G,T

A,C,G,T

 Naumova
TNF Alpha -851

A,C,G,T

A,C,G,T

 Naumova
TNF Alpha -574

A,C,G,T

A,C,G,T

Naumova
TNF Alpha -376

A,C,G,T

A,C,G,T

 Naumova
TNF Alpha -308

A,C,G,T

A,C,G,T

 Naumova
TNF Alpha -238

A,C,G,T

A,C,G,T

 Naumova
TNF Alpha +488

A,C,G,T

A,C,G,T

 Naumova

DNA Profile

DNA Profile Data
Marker Score Score Group
Amelogenin X,Y, Unknown Pawelec
CSF1PO 6, 7, 8, 9, 10, 10.3, 11, 12, 13, 14, 15 6, 7, 8, 9, 10, 10.3, 11, 12, 13, 14, 15 Pawelec
D13S317 5, 8, 9, 10, 11, 12, 13, 14, 15 5, 8, 9, 10, 11, 12, 13, 14, 15 Pawelec
D3S1358 9, 11, 12, 13, 14,15, 15.2, 16, 17, 18, 19, 20 9, 11, 12, 13, 14,15, 15.2, 16, 17, 18, 19, 20 Pawelec
D5S818 7, 8, 9, 10, 11,12, 13, 14, 15, 16 7, 8, 9, 10, 11,12, 13, 14, 15, 16 Pawelec
D7S820 6,6.3, 7, 8, 9, 10, 11, 12, 13, 14, 15 6,6.3, 7, 8, 9, 10, 11, 12, 13, 14, 15 Pawelec
FGA 15, 16, 16.2,17, 18, 18.2, 19, 19.2, 20, 20.2, 21,
21.2, 22, 22.2, 22.3, 23, 23.2,24, 24.2, 25, 25.2,
26, 26.2, 27, 27.2, 28, 28.2, 29 30, 30.2, 34.2, 46.2 		15, 16, 16.2,17, 18, 18.2, 19, 19.2, 20, 20.2, 21,
21.2, 22, 22.2, 22.3, 23, 23.2,24, 24.2, 25, 25.2,
26, 26.2, 27, 27.2, 28, 28.2, 29, 30, 30.2, 34.2, 46.2		 Pawelec
THO1 4, 5, 6, 6.1, 7, 7.1, 7.3, 8, 8.3, 9,9.3, 10, 11, 13.3 4, 5, 6, 6.1, 7, 7.1, 7.3, 8, 8.3, 9,9.3, 10, 11, 13.3 Pawelec
TPOX 6, 7, 8, 9, 10, 11,12, 13 6, 7, 8, 9, 10, 11,12, 13 Pawelec
vWA 11,12, 13, 14, 15, 15.2, 16, 17, 18, 19, 20, 21, 22
 11,12, 13, 14, 15, 15.2, 16, 17, 18, 19, 20, 21, 22
 Pawelec

Extra Cellular Matrix

Cell Adhesion Data
Marker Score Group
Collagen ND, -, +, ++, +++, ++++ Laidler
Fibronectin ND, -, +, ++, +++, ++++ Laidler
Laminin ND, -, +, ++, +++, ++++ Laidler
Glycosyltranserase Data
Marker Score Group
FUT1 ND, +, - Laidler
FUT4 ND, +, - Laidler
MGAT5 ND, +, - Laidler
SIAT3 ND, +, - Laidler
SIAT4C ND, +, - Laidler
Lectin Data
Marker Molecular Weight Presence Group
DSA < 30, 31-40, 41-50, 51-60, 61-70, 71-80, 81-90, 91-100,
101-110, 110-120, 121-130, 131-140, 141-150, 151-160,
161-170, 171-180, 181-190, 191-200, > 200
 ND, -, +, ++, +++, ++++, +++++ Laidler
GNA < 30, 31-40, 41-50, 51-60, 61-70, 71-80, 81-90, 91-100,
101-110, 110-120, 121-130, 131-140, 141-150, 151-160,
161-170, 171-180, 181-190, 191-200, > 200		 ND, -, +, ++, +++, ++++, +++++ Laidler
LTA < 30, 31-40, 41-50, 51-60, 61-70, 71-80, 81-90, 91-100,
101-110, 110-120, 121-130, 131-140, 141-150, 151-160,
161-170, 171-180, 181-190, 191-200, > 200
 ND, -, +, ++, +++, ++++, +++++ Laidler
MAA < 30, 31-40, 41-50, 51-60, 61-70, 71-80, 81-90, 91-100,
101-110, 110-120, 121-130, 131-140, 141-150, 151-160,
161-170, 171-180, 181-190, 191-200, > 200		 ND, -, +, ++, +++, ++++, +++++ Laidler
PHA-L < 30, 31-40, 41-50, 51-60, 61-70, 71-80, 81-90, 91-100,
101-110, 110-120, 121-130, 131-140, 141-150, 151-160,
161-170, 171-180, 181-190, 191-200, > 200
 ND, -, +, ++, +++, ++++, +++++ Laidler
SBA < 30, 31-40, 41-50, 51-60, 61-70, 71-80, 81-90, 91-100,
101-110, 110-120, 121-130, 131-140, 141-150, 151-160,
161-170, 171-180, 181-190, 191-200, > 200		 ND, -, +, ++, +++, ++++, +++++
Laidler
SNA < 30, 31-40, 41-50, 51-60, 61-70, 71-80, 81-90, 91-100,
101-110, 110-120, 121-130, 131-140, 141-150, 151-160,
161-170, 171-180, 181-190, 191-200, > 200		 ND, -, +, ++, +++, ++++, +++++
Laidler

Surface Markers

FACS Data
Marker Conditions Normalised Score Intensity Group
CD40 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD44 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD54 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD58 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD80 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD86 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD95 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
CD95L Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
ULBP1 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
ULBP2 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
ULBP3 Initial Conditions,
After 48 hours, IFN-Gamma Induced 		ND, -, +/-, +, ++, +++ Numerical Value Pawelec
Immunohistochemistry Data
Marker Score Group
E-Cadherin

ND, -, +, ++

 Pawelec
K-Cadherin ND, -, +, ++ Pawelec
N-Cadherin ND, -, +, ++ Pawelec
P-Cadherin ND, -, +, ++ Pawelec
VE-Cadherin ND, -, +, ++ Pawelec
Survivin ND, -, +, ++ Pawelec

EpiGenetic Analysis

EpiGenetic Analysis Data
Marker Genetic Event Presence Details of Event Group
APC Mutation, Deletion, Methylation ND, +, - Free Text Comments Goldberg
brAF Mutation ND, +, - Free Text Comments Goldberg
CDK4 Mutation ND, +, - Free Text Comments Goldberg
CTNNB1 Mutation ND, +, - Free Text Comments Goldberg
NRAS Mutation ND, +, - Free Text Comments Goldberg
p16 Mutation, Deletion, Methylation ND, +, - Free Text Comments Goldberg
p27 Mutation, Deletion, Methylation ND, +, - Free Text Comments Goldberg
PTEN Mutation, Methylation ND, +, - Free Text Comments Goldberg
RASSF1A Mutation, Deletion, Methylation ND, +, - Free Text Comments Goldberg
RB1 Mutation, Methylation ND, +, - Free Text Comments Goldberg
TP53 Mutation ND, +, - Free Text Comments Goldberg

Information

For further information regarding the ESTDAB project please visit http://www.medizin.uni-tuebingen.de/estdab/.

For information regarding IPD please contact IPD Support.


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