WormMine

WS297

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 182nd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 182 min post first-cleavage Ce WBls:0000293
  The time period encompassing the 181st minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 181 min post first-cleavage Ce WBls:0000292
  The time period encompassing the 180th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 180 min post first-cleavage Ce WBls:0000291
  The time period encompassing the 179th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 179 min post first-cleavage Ce WBls:0000290
  The time period encompassing the 186th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 186 min post first-cleavage Ce WBls:0000297
  The time period encompassing the 185th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 185 min post first-cleavage Ce WBls:0000296
  The time period encompassing the 184th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 184 min post first-cleavage Ce WBls:0000295
  The time period encompassing the 183rd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 183 min post first-cleavage Ce WBls:0000294
  The time period encompassing the 190th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 190 min post first-cleavage Ce WBls:0000301
  The time period encompassing the 189th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 189 min post first-cleavage Ce WBls:0000300
  The time period encompassing the 188th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 188 min post first-cleavage Ce WBls:0000299
  The time period encompassing the 187th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 187 min post first-cleavage Ce WBls:0000298
  The time period encompassing the 194th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 194 min post first-cleavage Ce WBls:0000305
  The time period encompassing the 193rd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 193 min post first-cleavage Ce WBls:0000304
  The time period encompassing the 192nd minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 192 min post first-cleavage Ce WBls:0000303
  The time period encompassing the 191st minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 191 min post first-cleavage Ce WBls:0000302
  The time period encompassing the 198th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 198 min post first-cleavage Ce WBls:0000309
  The time period encompassing the 197th minute post first cleavage at 20 Centigrade with respect to Sulston's lineage tree. 197 min post first-cleavage Ce WBls:0000308