WormMine

WS294

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 both embryonic and larval stages.
Primary Identifier  WBPaper00037950:bodywall-muscle_CoreEnriched
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1 Anatomy Terms

Definition Name Synonym Primary Identifier
type of 95 cells that make up muscles of the body wall. body wall muscle cell body muscle cell WBbt:0006804

121 Genes

WormBase Gene ID Gene Name Sequence Name Organism
WBGene00000035 ace-1 W09B12.1 Caenorhabditis elegans
WBGene00000177 aqp-9 K07A1.16 Caenorhabditis elegans
WBGene00000186 ark-1 C01C7.1 Caenorhabditis elegans
WBGene00000822 csq-1 F40E10.3 Caenorhabditis elegans
WBGene00001131 dys-1 F15D3.1 Caenorhabditis elegans
WBGene00001863 him-4 F15G9.4 Caenorhabditis elegans
WBGene00002030 hst-3.1 F40H3.5 Caenorhabditis elegans
WBGene00002040 hum-7 F56A6.2 Caenorhabditis elegans
WBGene00002247 lam-1 W03F8.5 Caenorhabditis elegans
WBGene00002268 lec-5 ZK1248.16 Caenorhabditis elegans
WBGene00002976 lev-9 T07H6.5 Caenorhabditis elegans
WBGene00003169 mec-5 E03G2.3 Caenorhabditis elegans
WBGene00003371 mlc-3 F09F7.2 Caenorhabditis elegans
WBGene00003495 mup-2 T22E5.5 Caenorhabditis elegans
WBGene00003515 myo-3 K12F2.1 Caenorhabditis elegans
WBGene00003565 ncs-3 K03E6.3 Caenorhabditis elegans
WBGene00003812 nrf-5 F55B12.5 Caenorhabditis elegans
WBGene00003929 pat-2 F54F2.1 Caenorhabditis elegans
WBGene00004790 sgn-1 F07H5.2 Caenorhabditis elegans
WBGene00004910 snf-11 T03F7.1 Caenorhabditis elegans
WBGene00006319 sup-10 R09G11.1 Caenorhabditis elegans
WBGene00006495 cpna-1 F31D5.3 Caenorhabditis elegans
WBGene00006634 tsp-8 F33C8.3 Caenorhabditis elegans
WBGene00006663 twk-8 ZC410.4 Caenorhabditis elegans
WBGene00006667 twk-12 F29F11.4 Caenorhabditis elegans
WBGene00006672 twk-18 C24A3.6 Caenorhabditis elegans
WBGene00006692 twk-42 W06D12.2 Caenorhabditis elegans
WBGene00006781 unc-45 F30H5.1 Caenorhabditis elegans
WBGene00006824 unc-95 Y105E8A.6 Caenorhabditis elegans
WBGene00006852 unc-129 C53D6.2 Caenorhabditis elegans

2 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
  A developmental life stage of the nematode Caenorhabditis elegans that occurs from egg hatching until adulthood. larva Ce WBls:0000023

0 Processes

0 Regulated By Gene

0 Regulated By Molecule