WormMine

WS295

Intermine data mining platform for C. elegans and related nematodes

Expression Pattern :

Pattern  Inferred Expression. EPIC dataset. http://epic.gs.washington.edu/ Large-scale cellular resolution compendium of gene expression dynamics throughout development. This reporter was inferred to be expressing in this cell or one of its embryonic progenitor cells as described below. To generate a compact description of which cells express a particular reporter irrespective of time, the authors defined a metric "peak expression" for each of the 671 terminal ("leaf") cells born during embryogenesis. For each of these cells, the peak expression is the maximal reporter intensity observed in that cell or any of its ancestors; this has the effect of transposing earlier expression forward in time to the terminal set of cells. This metric allows straightforward comparisons of genes' cellular and lineal expression overlap, even when the expression occurs with different timing and despite differences in the precise time point that curation ended in different movies, at the cost of ignoring the temporal dynamics of expression, a topic that requires separate treatment. For simplicity, the authors use the term "expressing cells" to mean the number of leaf cells (of 671) with peak expression greater than background (2000 intensity units) and at least 10% of the maximum expression in that embryo. Quantitative expression data for all cells are located here: ftp://caltech.wormbase.org/pub/wormbase/datasets-published/murray2012/ Primary Identifier  Expr10458
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16 Anatomy Terms

Definition Name Synonym Primary Identifier
embryonic cell Capp   WBbt:0006098
embryonic cell Caap   WBbt:0005921
embryonic cell Cppp   WBbt:0006268
embryonic cell Capa   WBbt:0006444
embryonic cell ABarpaapa   WBbt:0005844
embryonic cell Cpapp   WBbt:0005897
embryonic cell Caaaa   WBbt:0005899
embryonic cell Cpapa   WBbt:0005962
embryonic cell MSppppp   WBbt:0006016
embryonic cell Cpaaa   WBbt:0006212
embryonic cell MSppppa   WBbt:0006218
embryonic cell Caaap   WBbt:0006267
embryonic cell ABarpppp   WBbt:0006532
embryonic cell Cpaap   WBbt:0006594
embryonic cell ABarpaapp   WBbt:0006620
embryonic cell ABarpppa   WBbt:0006689

1 Genes

WormBase Gene ID Gene Name Sequence Name Organism
WBGene00006545 tbx-8 T07C4.2 Caenorhabditis elegans

106 Life Stages

Remark Definition Other Name Public Name Primary Identifier
  The time period encompassing the 158th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 158 min post first-cleavage Ce WBls:0000269
  The time period encompassing the 157th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 157 min post first-cleavage Ce WBls:0000268
  The time period encompassing the 156th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 156 min post first-cleavage Ce WBls:0000267
  The time period encompassing the 155th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 155 min post first-cleavage Ce WBls:0000266
  The time period encompassing the 162nd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 162 min post first-cleavage Ce WBls:0000273
  The time period encompassing the 161st minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 161 min post first-cleavage Ce WBls:0000272
  The time period encompassing the 160th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 160 min post first-cleavage Ce WBls:0000271
  The time period encompassing the 159th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 159 min post first-cleavage Ce WBls:0000270
  The time period encompassing the 166th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 166 min post first-cleavage Ce WBls:0000277
  The time period encompassing the 165th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 165 min post first-cleavage Ce WBls:0000276
  The time period encompassing the 164th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 164 min post first-cleavage Ce WBls:0000275
  The time period encompassing the 163rd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 163 min post first-cleavage Ce WBls:0000274
  The time period encompassing the 202nd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 202 min post first-cleavage Ce WBls:0000313
  The time period encompassing the 201st minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 201 min post first-cleavage Ce WBls:0000312
  The time period encompassing the 200th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 200 min post first-cleavage Ce WBls:0000311
  The time period encompassing the 199th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 199 min post first-cleavage Ce WBls:0000310
  The time period encompassing the 206th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 206 min post first-cleavage Ce WBls:0000317
  The time period encompassing the 205th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 205 min post first-cleavage Ce WBls:0000316
  The time period encompassing the 204th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 204 min post first-cleavage Ce WBls:0000315
  The time period encompassing the 203rd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 203 min post first-cleavage Ce WBls:0000314
  The time period encompassing the 210th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 210 min post first-cleavage Ce WBls:0000321
  The time period encompassing the 209th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 209 min post first-cleavage Ce WBls:0000320
  The time period encompassing the 208th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 208 min post first-cleavage Ce WBls:0000319
  The time period encompassing the 207th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 207 min post first-cleavage Ce WBls:0000318
  The time period encompassing the 214th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 214 min post first-cleavage Ce WBls:0000325
  The time period encompassing the 213rd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 213 min post first-cleavage Ce WBls:0000324
  The time period encompassing the 212nd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 212 min post first-cleavage Ce WBls:0000323
  The time period encompassing the 211st minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 211 min post first-cleavage Ce WBls:0000322
  The time period encompassing the 218th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 218 min post first-cleavage Ce WBls:0000329
  The time period encompassing the 217th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 217 min post first-cleavage Ce WBls:0000328