| Algorithm | Raw data from each experiment were downloaded from the Stanford Microarray Database into Excel files and processed as follows: (i) sort by Spot Flag and discard any rows where the Spot Flag value was nonzero, indicating a bad PCR; (ii) sort by Failed and discard any rows where the Failed value was nonzero, indicating abnormal hybridization; (iii) import into a common file for each type of experiment (i.e., lin-14 or lin-4) the columns from each raw experimental file [RAT2(R/G), which shows a log base 2 transformed ratio of normalized red/green signal for each spot; name of spot (Wormbase designation); chromosome location and description (www.wormbase.org)]; (iv) calculate an average RAT2(R/G) based on the 2 or 3 values (avg; any rows which had only one good experimental value were discarded); (v) calculate a standard deviation (stdev) for the average value; (vi) calculate a t value for each spot by using the formula t = avg*[sqrt(n - 1)]/stdev, where n is the number of experiments for which good data exist, sqrt is square root, and stdev is standard deviation; (vii) sort by absolute t value and discard any rows with a t value below 4.303 (below 95% confidence interval for three experiments) or below 12.706 (below 95% confidence interval for two experiments); (viii) sort by absolute average value and discard any rows with average values below 1.0 (less than twofold change compared to control). | Description | Class G gene expression showed down regulation in lin-14(lf) in L1, down regulation in lin-4(lf) in L2. |
| Primary Identifier | WBPaper00026952:class_G |
| WormBase Gene ID | Gene Name | Sequence Name | Organism |
|---|---|---|---|
| WBGene00008506 | tkt-1 | F01G10.1 | Caenorhabditis elegans |
| WBGene00010317 | idh-1 | F59B8.2 | Caenorhabditis elegans |
| WBGene00019962 | cysl-3 | R08E5.2 | Caenorhabditis elegans |
| WBGene00019963 | rips-1 | R08E5.3 | Caenorhabditis elegans |
| WBGene00020128 | R193.2 | R193.2 | Caenorhabditis elegans |
| WormBase Gene ID | Gene Name | Sequence Name | Organism |
|---|---|---|---|
| WBGene00002993 | lin-4 | F59G1.6 | Caenorhabditis elegans |
| WBGene00003003 | lin-14 | T25C12.1 | Caenorhabditis elegans |
