WormMine: AnatomyTerm WBbt:0005854

• Definition: embryonic cell
• Name: Eplpp
• Primary Identifier: WBbt:0005854

3 Children

Definition	Name	Synonym	Primary Identifier
Intestinal cell of the nineth intestinal ring, left side.	int9L embryonic	lineage name: Eplppp	WBbt:0004347
Intestinal cell of the eighth intestinal ring, left side.	int8L embryonic	lineage name: Eplppa	WBbt:0004348
nucleus of pedigree Eplpp	Eplpp nucleus		WBbt:0001989

0 Expression Clusters

10 Expression Patterns

• Primary Identifier: Expr158
• Remark: Other strain-- UL776 sdm did a blastP search of the Y47D3A.16 peptide against SWIR and came up with a ribosomal protein S6 kinase hit. [21/07/00] sdm followed up the genomic fragment and identified it as Y47D3A.16
• Pattern: This expression pattern has two components. In embryos expression is seen in cells of the E-lineage from the 4E cell stage until after elongation. In larvae and adults, expression is seen in the pharynx and hypodermal cells throughout the worm.

• Primary Identifier: Expr163
• Remark: Other strain-- UL844
• Pattern: Expression is seen in the cells of the E-lineage from the 8E cell stage. Consistent with this expression is seen in all intestinal cells in larvae and adults. Some anterior expression in the head hypodermis and pharynx is also occasionally seen.

• Primary Identifier: Expr91
• Remark: early embryo(author) = proliferating embryo(curator). Other Authors "Bauer PK" "Hope IA"Date 1997-06 pre-comma embryo(author) = bean embryo(curator).
• Pattern: This simple pattern shows expression in the E lineage in early embryos. Staining can be seen upto 16 E cells. No expression is observed beyond comma stage embryo.

• Primary Identifier: Expr103
• Remark: Other strain-- UL123
• Pattern: This strain exhibits strong expression in the embryo. Expression is first seen in the 50-80 cell embryo and extends through to adulthood. It appears that most of the AB cells in the embryo stain, and what appears to be the cells of the C lineage. Some embryos exhibit staining in the two rows of nuclei that are the E lineage. All embryonic staining is very intense, and it spreads to the cytoplasm giving blue embryos, therefore obscuring the DAPI staining, making it difficult to count the number of cells in the embryos as each component begins expressing. This intense staining fades as the embryo ages, sometimes leaving blue comma stage embryos with no distinct nuclei staining. Hypodermal expression is seen in the 3 fold stage of embryogenesis and in young larvae which most probably are C-derived hyp-7 nuclei. Expression weakens as the worm gets older and is much less frequently expressed in adults. Some adults do show staining in the anterior hypodermal nuclei (hyp-3, hyp-4) and in the anterior hypodermal seam cells, also some nuclei stain in the tail.

• Primary Identifier: Expr10421
• 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: Expr10516
• 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: Expr2123
• Remark: Clone = pUL#L450A Strain = UL925
• Pattern: Expression is seen in the E-cell lineage and intestinal cells throughout embryonic development and in early larval stages. This gene has homology to hexose transporters.

• Primary Identifier: Expr10320
• 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: Expr672
• Remark: This information was extracted from published material (Archana Sharma-Oates, Andrew Mounsey and Ian A. Hope).
• Pattern: First detection at 2E cell stage and persists in E lineage throughout embryogenesis (expression pattern same as Ab).

• Primary Identifier: Expr673
• Remark: This information was extracted from published material (Archana Sharma-Oates, Andrew Mounsey and Ian A. Hope).
• Pattern: ELT-2 protein first detected at 2E cell stage (half way through cell cycle and following E-cell ingression associated with gastrulation). At 44-46 cell stage, expression is observed in 2E cells. During all subsequent stages of embryogenesis, ELT-2 protein is detected in all gut lineage, staining is nuclear localized. Protein persists in nuclei of all gut cells, in all larval stages, as well as in adults. Above pattern for male and hermaphrodite.

7 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
	The C. elegans life stage spanning 350-620min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The stage that embryo starts elongation until elongation is over.		elongating embryo Ce	WBls:0000015
	The C. elegans life stage spanning 290-350min after first cleavage at 20 Centigrade. Proliferate from 421 cells to 560 cells. The stage when embryo just finished gastrulation and is enclosing.		enclosing embryo Ce	WBls:0000013
	The C. elegans life stage spanning 100-290min after first cleavage at 20 Centigrade. Proliferate from 28 cells to 421 cells. Referring to the whole period of gastrulation.		gastrulating embryo Ce	WBls:0000010
	The C. elegans life stage spanning 0-350min after first cleavage at 20 Centigrade. Proliferate from 1 cell to 560 cells. From start of first cleavage until cleavage is over.		proliferating embryo Ce	WBls:0000004
	The C. elegans life stage spanning 350-390min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. Emrbyo elongation started but have not formed comma shape yet. The shape of embryo looks like a lima bean. A stage right before comma embryo. Also called lima embryo or lima bean stage.		bean embryo Ce	WBls:0000016
	The C. elegans life stage spanning 210-350min after first cleavage at 20 Centigrade. Proliferate from 421 cells to 560 cells. The stage before the fast cleavage of cells finishes.		late cleavage stage embryo Ce	WBls:0000014

3 Parents

Definition	Name	Synonym	Primary Identifier
embryonic cell	Eplp		WBbt:0006496
A cell that is the E blast cell or is a lineal descendant of E.	E lineage cell		WBbt:0005208
cell that exists in and is part of an embryo.	embryonic cell		WBbt:0007028