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 significantly enriched (> 2x, FDR < 5%) in a particular cell-type versus a reference sample of all cells at the same stage.
Primary Identifier  WBPaper00037950:coelomocytes_embryo_enriched
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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

567 Genes

WormBase Gene ID Gene Name Sequence Name Organism
WBGene00000048 acr-9 C40C9.2 Caenorhabditis elegans
WBGene00000062 acr-23 F59B1.9 Caenorhabditis elegans
WBGene00000176 aqp-8 K02G10.7 Caenorhabditis elegans
WBGene00000179 aqp-11 ZK525.2 Caenorhabditis elegans
WBGene00000181 ard-1 F01G4.2 Caenorhabditis elegans
WBGene00000221 atf-4 T04C10.4 Caenorhabditis elegans
WBGene00000222 atf-6 F45E6.2 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
WBGene00000485 che-3 F18C12.1 Caenorhabditis elegans
WBGene00000524 clc-3 ZK563.4 Caenorhabditis elegans
WBGene00000535 cpi-1 K08B4.6 Caenorhabditis elegans
WBGene00000583 cof-2 C48E7.5 Caenorhabditis elegans
WBGene00000764 coq-4 T03F1.2 Caenorhabditis elegans
WBGene00000767 coq-8 C35D10.4 Caenorhabditis elegans
WBGene00000784 cpr-4 F44C4.3 Caenorhabditis elegans
WBGene00000845 cup-4 C02C2.3 Caenorhabditis elegans
WBGene00000892 cyn-16 Y17G7B.9 Caenorhabditis elegans
WBGene00000894 dab-1 M110.5 Caenorhabditis elegans
WBGene00000900 daf-4 C05D2.1 Caenorhabditis elegans
WBGene00000912 daf-16 R13H8.1 Caenorhabditis elegans
WBGene00000982 dhs-19 T11F9.11 Caenorhabditis elegans
WBGene00000993 dhs-30 T25G12.7 Caenorhabditis elegans
WBGene00000998 dig-1 K07E12.1 Caenorhabditis elegans
WBGene00001035 dnj-17 T03F6.2 Caenorhabditis elegans
WBGene00001106 dsl-4 F16B12.2 Caenorhabditis elegans
WBGene00001173 egl-4 F55A8.2 Caenorhabditis elegans
WBGene00001177 egl-8 B0348.4 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