WormBase Tree Display for Expression_cluster: WBPaper00026952:class_E

WBPaper00026952:class_E Description: Class E gene expression showed no change in lin-14(lf) in L1, up regulation in lin-4(lf) in L2.
  Species: Caenorhabditis elegans
  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).
  Reference: WBPaper00026952
  Microarray_results (322)
  Gene (342)
  Attribute_of: Microarray_experiment: WBPaper00026952:N2b_vs_lin-4b
      WBPaper00026952:N2_vs_lin-14(n179ts)
      WBPaper00026952:N2c_vs_lin-4c
      WBPaper00026952:N2_vs_lin-14(n179ts)_rep2
      WBPaper00026952:N2a_vs_lin-4a
  Regulation: Regulated_by_gene: WBGene00003003
      WBGene00002993