Information was obtained from: ftp://ftp.biosciencedbc.jp/archive/open-tggates/LATEST/README_e.html. Note that not all of the id types are relevant for the in vitro data which is made using human samples in our case.
CEL file attributes
|CEL file attributes
|Description of data contents
|List of attribute information explain about each CEL file.
|open_tggates_cel_file_attribute.zip (199 KB)
Data items are the following:
|Bar-code assigned to each GeneChip in order to indentify. Bar-code matches CEL file name without extension.
|In the project, HG-U133_Plus_2 was used for human and Rat230_2 was used for rat.
|ID assigned to each test which can be indentified by a combination of COMPOUND_NAME, SPECIES, EXP_TEST_TYPE, and SINGLE_REPEAT_TYPE. IDs for in vivo tests are assigned from #0040. IDs for in vitro tests are assigned from #5000.
|ID assigned to each group which can be identified by a combination of DOSE_LEVEL and SACRIFICE_PERIOD. IDs are in double digits. (e.g. 01, 16)
|ID assigned to each individual/sample within a group. IDs are in single digit.
|Organ evaluated in tests. Liver or Kidney.
|ID assigned to each tissue section which was used to acquire gene expression data. IDs are in a single letter.
|Abbreviated compound name
|Number assigned to each compound. Numbers are not in serial order.
|Type of test. In vivo test or in vitro test.
|Type of in vivo test. Single-dose test or 28-day repeat-dose test.
|Gender. Male or Female.
|Rat strain used with in vivo tests
|Age of animal (weeks). Only rats at 6 weeks of age were used.
|Sampling time or period.
|Unit of dose
|Dose level. The ascending order of the levels is Control, Low, Middle, High.