WormMine

WS295

Intermine data mining platform for C. elegans and related nematodes

Expression Cluster :

Algorithm  A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes. Description  Genes that show selective expression in a subset of cell types vs broadly expressed in many cell types. Correspond to 20% - 57% of enriched_genes for a given cell type.
Primary Identifier  WBPaper00037950:coelomocytes_embryo_SelectivelyEnriched
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1 Anatomy Terms

Definition Name Synonym Primary Identifier
A free-floating spherical cell lying in the pseudocoelomic cavity of larvae and adult C. elegans which can endocytose many compounds, possibly for immune surveillance. There are six coelomocytes in adult hermaphrodites, and they display prominent cytoplasmic inclusions and vacuoles. coelomocyte   WBbt:0005751

244 Genes

WormBase Gene ID Gene Name Sequence Name Organism
WBGene00000181 ard-1 F01G4.2 Caenorhabditis elegans
WBGene00000267 bre-2 Y39E4B.9 Caenorhabditis elegans
WBGene00000448 pros-1 K12H4.1 Caenorhabditis elegans
WBGene00000454 ceh-33 C10G8.7 Caenorhabditis elegans
WBGene00000455 ceh-34 C10G8.6 Caenorhabditis elegans
WBGene00000524 clc-3 ZK563.4 Caenorhabditis elegans
WBGene00000535 cpi-1 K08B4.6 Caenorhabditis elegans
WBGene00000583 cof-2 C48E7.5 Caenorhabditis elegans
WBGene00000845 cup-4 C02C2.3 Caenorhabditis elegans
WBGene00000894 dab-1 M110.5 Caenorhabditis elegans
WBGene00000912 daf-16 R13H8.1 Caenorhabditis elegans
WBGene00000993 dhs-30 T25G12.7 Caenorhabditis elegans
WBGene00000998 dig-1 K07E12.1 Caenorhabditis elegans
WBGene00001106 dsl-4 F16B12.2 Caenorhabditis elegans
WBGene00001377 eya-1 C49A1.4 Caenorhabditis elegans
WBGene00001386 far-2 F02A9.3 Caenorhabditis elegans
WBGene00001395 fat-3 W08D2.4 Caenorhabditis elegans
WBGene00001480 fmo-5 H24K24.5 Caenorhabditis elegans
WBGene00001559 gei-1 F45H7.2 Caenorhabditis elegans
WBGene00001604 gln-3 Y105C5B.28 Caenorhabditis elegans
WBGene00001629 gly-4 Y116F11B.12 Caenorhabditis elegans
WBGene00001643 gly-18 F22D6.11 Caenorhabditis elegans
WBGene00001752 gst-4 K08F4.7 Caenorhabditis elegans
WBGene00001767 gst-19 F37B1.8 Caenorhabditis elegans
WBGene00001804 gur-3 ZC504.5 Caenorhabditis elegans
WBGene00001837 hda-4 C10E2.3 Caenorhabditis elegans
WBGene00002253 lbp-1 F40F4.3 Caenorhabditis elegans
WBGene00002254 lbp-2 F40F4.2 Caenorhabditis elegans
WBGene00002269 lec-6 Y55B1AR.1 Caenorhabditis elegans
WBGene00002601 let-381 F26B1.7 Caenorhabditis elegans

1 Life Stages

Remark Definition Other Name Public Name Primary Identifier
  The whole period of embryogenesis in the nematode Caenorhabditis elegans, from the formation of an egg until hatching. embryo Ce WBls:0000003

0 Processes

0 Regulated By Gene

0 Regulated By Molecule