WormMine

WS295

Intermine data mining platform for C. elegans and related nematodes

Expression Cluster :

Algorithm  To identify the differentially expressed genes in each treatment authors used linear models per toxicant and temperature (gene expression = Toxicant (effect) + error). The lm function in R stats package was used to implement the linear models analysis with recommended default options. For threshold determination authors used a permutation approach. For each of the 23,232 permutations used authors randomly picked a transcript (array spot), which could only be picked once. Authors combined all the expression values of this transcript and randomly distributed them over the replicates and used them in the linear model. In this way authors obtained a threshold for each of the toxicants. Authors used a -log10 p-value 2 as common threshold for the analysis, which resembles to the following FDR per toxicant: 0.0155 for CPF at 24 centigrade, 0.0148 for DZN at 24 centigrade, 0.0168 for CPF+DZN at 24 centigrade, 0.0142 for CPF at 16 centigrade, 0.0151 for DZN at 16 centigrade, and 0.0148 for CPF+DZN, at 16 centigrade. Description  Genes with differential expression under 0.5mg/l Diazinon (DZN) treatment at 24 centigrade.
Primary Identifier  WBPaper00040210:Diazinon_24C_regulated

0 Anatomy Terms

1000 Genes

WormBase Gene ID Gene Name Sequence Name Organism
WBGene00000002 aat-1 F27C8.1 Caenorhabditis elegans
WBGene00000023 abt-5 Y53C10A.9 Caenorhabditis elegans
WBGene00000037 ace-3 Y48B6A.8 Caenorhabditis elegans
WBGene00000041 aco-2 F54H12.1 Caenorhabditis elegans
WBGene00000066 act-4 M03F4.2 Caenorhabditis elegans
WBGene00000072 add-1 F39C12.2 Caenorhabditis elegans
WBGene00000079 adr-1 H15N14.1 Caenorhabditis elegans
WBGene00000092 ags-3 F32A6.4 Caenorhabditis elegans
WBGene00000095 aha-1 C25A1.11 Caenorhabditis elegans
WBGene00000099 air-2 B0207.4 Caenorhabditis elegans
WBGene00000101 aka-1 D1022.7 Caenorhabditis elegans
WBGene00000103 akt-2 F28H6.1 Caenorhabditis elegans
WBGene00000111 alh-5 T08B1.3 Caenorhabditis elegans
WBGene00000117 alh-11 F42G9.5 Caenorhabditis elegans
WBGene00000145 apc-11 F35G12.9 Caenorhabditis elegans
WBGene00000147 aph-1 VF36H2L.1 Caenorhabditis elegans
WBGene00000149 apl-1 C42D8.8 Caenorhabditis elegans
WBGene00000195 arr-1 F53H8.2 Caenorhabditis elegans
WBGene00000216 asp-3 H22K11.1 Caenorhabditis elegans
WBGene00000217 asp-4 R12H7.2 Caenorhabditis elegans
WBGene00000224 atgp-1 F26D10.9 Caenorhabditis elegans
WBGene00000237 bam-2 Y71F9AR.1 Caenorhabditis elegans
WBGene00000238 bar-1 C54D1.6 Caenorhabditis elegans
WBGene00000239 bas-1 C05D2.4 Caenorhabditis elegans
WBGene00000249 bir-1 T27F2.3 Caenorhabditis elegans
WBGene00000253 bli-3 F56C11.1 Caenorhabditis elegans
WBGene00000281 cah-3 K05G3.3 Caenorhabditis elegans
WBGene00000405 cdk-1 T05G5.3 Caenorhabditis elegans
WBGene00000443 ceh-20 F31E3.1 Caenorhabditis elegans
WBGene00000460 ceh-39 T26C11.7 Caenorhabditis elegans

1 Life Stages

Remark Definition Other Name Public Name Primary Identifier
  The fourth stage larva. At 25 Centigrade, it ranges 40-49.5 hours after fertilization, 26-35.5 hours after hatch. L4 larva Ce WBls:0000038

0 Processes

0 Regulated By Gene

1 Regulated By Molecule

Name Primary Identifier
Diazinon WBMol:00004357