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:A-class-motor-neurons_embryo_SelectivelyEnriched
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2 Anatomy Terms

Definition Name Synonym Primary Identifier
Neuron class of twelve motoneurons, distributed along the ventral cord, which innervate ventral body muscles. VA neuron   WBbt:0005339
Neuron class of nine ventral cord motor neuron, innervates dorsal muscle. DA neuron   WBbt:0005278

113 Genes

WormBase Gene ID Gene Name Sequence Name Organism
WBGene00000501 cho-1 C48D1.3 Caenorhabditis elegans
WBGene00000936 dbl-1 T25F10.2 Caenorhabditis elegans
WBGene00001079 dpy-20 T22B3.1 Caenorhabditis elegans
WBGene00001249 elt-1 W09C2.1 Caenorhabditis elegans
WBGene00001456 flp-13 F33D4.3 Caenorhabditis elegans
WBGene00001607 gln-6 C28D4.3 Caenorhabditis elegans
WBGene00001987 hot-2 Y39B6A.48 Caenorhabditis elegans
WBGene00002063 ife-5 Y57A10A.30 Caenorhabditis elegans
WBGene00002084 ins-1 F13B12.5 Caenorhabditis elegans
WBGene00003245 mig-13 F43C9.4 Caenorhabditis elegans
WBGene00003747 nlp-9 E03D2.2 Caenorhabditis elegans
WBGene00004084 pph-2 C29E6.3 Caenorhabditis elegans
WBGene00004780 ser-7 C09B7.1 Caenorhabditis elegans
WBGene00005016 sqt-1 B0491.2 Caenorhabditis elegans
WBGene00005020 sqv-2 Y110A2AL.14 Caenorhabditis elegans
WBGene00006068 sto-6 Y71H9A.2 Caenorhabditis elegans
WBGene00006662 twk-7 F22B7.7 Caenorhabditis elegans
WBGene00006668 twk-13 R04F11.4 Caenorhabditis elegans
WBGene00006690 twk-39 C24H11.8 Caenorhabditis elegans
WBGene00006691 twk-40 T28A8.1 Caenorhabditis elegans
WBGene00006743 unc-3 Y16B4A.1 Caenorhabditis elegans
WBGene00006744 unc-4 F26C11.2 Caenorhabditis elegans
WBGene00006745 unc-5 B0273.4 Caenorhabditis elegans
WBGene00006748 unc-8 R13A1.4 Caenorhabditis elegans
WBGene00007290 C04B4.2 C04B4.2 Caenorhabditis elegans
WBGene00007776 dmd-4 C27C12.6 Caenorhabditis elegans
WBGene00008142 C47E8.3 C47E8.3 Caenorhabditis elegans
WBGene00008270 C53A5.13 C53A5.13 Caenorhabditis elegans
WBGene00008382 D1081.4 D1081.4 Caenorhabditis elegans
WBGene00008610 nanp-1 F09C3.2 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