Table 11

Experimental factor values example. The Characteristics categories used in column headings (i.e., the terms in square brackets) are taken from the MGED Ontology "BioMaterialCharacteristics" class [26]. The values contained in the body of these columns may be either free text, or terms from an ontology as indicated by an "OI" tag in the column heading (relating to the MAGEv2 concept "OntologyIndividual"). For example, the "OI:nci_meta" tag indicates that terms are taken from the NCI Metathesaurus [27]. The sources for these database tags ("nci_meta", "CTO") are defined in the IDF, as shown in Table 3. Biological replicates are indicated by shared experimental factor values ("Time" in this example; the columns containing experimental factors would be specified in the accompanying IDF). Most of the protocols have been omitted for brevity. Please see the detailed MAGE-TAB specification document [22] for more information.

Source ID

Characteristics [CellLine]

Characteristics [CellType] OI:CTO

Characteristics [DiseaseState] OI:nci_meta

Characteristics [Organism] OI:ncbitax

Protocol REF

ParameterValue [Time]

Unit [TimeUnit] OI:MO

Hybridization ID

ArrayDesign REF


ARP1-0h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

0

hours

H_ARP1-0h

A-AFFY-33

ARP2-0h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

0

hours

H_ARP2-0h

A-AFFY-33

ARP3-0h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

0

hours

H_ARP3-0h

A-AFFY-33

ARP1-2h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

2

hours

H_ARP1-2h

A-AFFY-33

ARP2-2h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

2

hours

H_ARP2-2h

A-AFFY-33

ARP3-2h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

2

hours

H_ARP3-2h

A-AFFY-33

ARP1-4h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

4

hours

H_ARP1-4h

A-AFFY-33

ARP2-4h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

4

hours

H_ARP2-4h

A-AFFY-33

ARP3-4h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

4

hours

H_ARP3-4h

A-AFFY-33

ARP1-6h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

6

hours

H_ARP1-6h

A-AFFY-33

ARP2-6h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

6

hours

H_ARP2-6h

A-AFFY-33

ARP3-6h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

6

hours

H_ARP3-6h

A-AFFY-33

ARP1-8h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

8

hours

H_ARP1-8h

A-AFFY-33

ARP2-8h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

8

hours

H_ARP2-8h

A-AFFY-33

ARP3-8h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

8

hours

H_ARP3-8h

A-AFFY-33

ARP1-10h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

10

hours

H_ARP1-10h

A-AFFY-33

ARP2-10h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

10

hours

H_ARP2-10h

A-AFFY-33

ARP3-10h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

10

hours

H_ARP3-10h

A-AFFY-33

ARP1-12h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

12

hours

H_ARP1-12h

A-AFFY-33

ARP2-12h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

12

hours

H_ARP2-12h

A-AFFY-33

ARP3-12h

MOLT4

T cell

acute lymphoblastic leukemia

Homo sapiens

P-XMPL-3

12

hours

H_ARP3-12h

A-AFFY-33


Rayner et al. BMC Bioinformatics 2006 7:489   doi:10.1186/1471-2105-7-489

Open Data