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.
From: A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB
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 |