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 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:intestine_larva_SelectivelyEnriched

1 Anatomy Terms

Definition Name Synonym Primary Identifier
A chain of very large cuboidal cells forming a wide central lumen in which food arrives from the posterior pharynx, is digested, and from which waste products proceed to the rectum. Intestinal rings form in groups of two and four cells surrounding the common lumen; thus the epithelium is only one cell deep at any point, with neighboring cells firmly secured to their neighbors by apical adherens junctions. These cells have very large nuclei and many large vacuoles, yolk granules, and other inclusions; the latter increase in number and electron density as the animal ages. intestine gut WBbt:0005772

438 Genes

WormBase Gene ID Gene Name Sequence Name Organism
WBGene00000084 aex-1 D2030.10 Caenorhabditis elegans
WBGene00000139 amx-3 F25C8.2 Caenorhabditis elegans
WBGene00000169 aqp-1 F32A5.5 Caenorhabditis elegans
WBGene00000178 aqp-10 ZK1321.3 Caenorhabditis elegans
WBGene00000203 arx-5 Y37D8A.1 Caenorhabditis elegans
WBGene00000212 asm-2 ZK455.4 Caenorhabditis elegans
WBGene00000302 cav-2 C56A3.7 Caenorhabditis elegans
WBGene00000412 cdr-1 F35E8.11 Caenorhabditis elegans
WBGene00000458 ceh-37 C37E2.5 Caenorhabditis elegans
WBGene00000522 clc-1 C09F12.1 Caenorhabditis elegans
WBGene00000539 cln-3.1 F07B10.1 Caenorhabditis elegans
WBGene00000541 cln-3.3 ZC190.1 Caenorhabditis elegans
WBGene00000787 cps-6 C41D11.8 Caenorhabditis elegans
WBGene00000799 crn-6 K04H4.6 Caenorhabditis elegans
WBGene00000981 dhs-18 C45B11.3 Caenorhabditis elegans
WBGene00000988 dhs-25 F09E10.3 Caenorhabditis elegans
WBGene00000991 dhs-28 M03A8.1 Caenorhabditis elegans
WBGene00001250 elt-2 C33D3.1 Caenorhabditis elegans
WBGene00001465 flr-1 F02D10.5 Caenorhabditis elegans
WBGene00001468 flr-4 F09B12.6 Caenorhabditis elegans
WBGene00001476 fmo-1 K08C7.2 Caenorhabditis elegans
WBGene00001505 fut-1 K08F8.3 Caenorhabditis elegans
WBGene00001581 gfi-1 F57F4.3 Caenorhabditis elegans
WBGene00001629 gly-4 Y116F11B.12 Caenorhabditis elegans
WBGene00001749 gst-1 R107.7 Caenorhabditis elegans
WBGene00001753 gst-5 R03D7.6 Caenorhabditis elegans
WBGene00001754 gst-6 F11G11.3 Caenorhabditis elegans
WBGene00001755 gst-7 F11G11.2 Caenorhabditis elegans
WBGene00001761 gst-13 T26C5.1 Caenorhabditis elegans
WBGene00001770 gst-22 F21H7.1 Caenorhabditis elegans

1 Life Stages

Remark Definition Other Name Public Name Primary Identifier
  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