Sequence: Z28377 Z28375 Z28376. |
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Expr12
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Embryonic expression consisting of three components. 1. A subset of cells in the AB lineage, initially organized in two clusters, from when the AB lineage is dividing to give 32 cells until the lineage forms 128 cells. Descendants of AB.alpa, AB.alpp, AB.araa, AB.plaa, AB.plpa, AB.praa, AB.prpa. 2. Members of the D cell lineage, starting as Da/Dp divide and ending once 16 cells have been generated in this lineage. 3. Z1 and Z4, from the end of their migration to the germ line progenitors, until shortly after hatching. |
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90 cell embryo(author) = 88-cell embryo(curator). CeMyoD :Basic Helix-loop-helix transcription factor. Related to the vertebrate MyoD family that is involved in the regulation of striated muscle cell fate.Vertebrate Homologs: Mammalian factors MyoD, MRF-4, Myf-5, myogenin.Invertebrate Homologs: Drosophila protein "Nautilus", sea urchin "SUM-1". Legacy Data: Author "Seydoux GC" "Krause MW". Date 1995-08. Function: Putative null mutation (cc450) of L. Chen and A.Fire suggests important role for CeMyoD in body wall muscle cell function and morphogenesis. CeMyoD is not required for bwm cell fate determination but is for proper bwm cell differentiation |
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Expr56
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Antibody staining: Transient nuclear staining in early MS lineage identical to lacZ pattern. Stable nuclear expression begins in the 2 daughters of D at the ~90 cell stage, then C and MS lineages that give rise to body wall muscle cells (bwm). The lone AB bwm appears positive after born. At pretzel stage, nuclear staining in the 6 GLR cells. Staining persists throughout postembryonic development in bwm cells, including post-embryonically born bwm. lacZ reporter gene expression: Multiple constructs with multiple lines. Transient expression in 2 MS daughters and the 4 MS granddaughters. Stable expression begins at ~90 cell stage in two daughters of D. Then on in C, MS lineages that give rise to body wall muscle precursors. At pretzel stage, hlh-1 is also expressed in the 6 GLR cells. positive hybridisation to RNA (in _situ) same as lacZ pattern except RNA appears to go away at bean stage and reappear later in embryogenesis |
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CeE/Da = hlh-2 in the article. |
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Expr1470
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CeE/DA can first be detected in both nuclei of 2-cell embryos. Staining persists apparently in all nuclei of the early embryo for the first 150-200 minutes of development (100-200 cells). By 270 minutes of development (approx. 350 cells) a dramatic change in antibody staining has occurred in which persistent staining is seen in progressively fewer blastomeres. Most, but not all, blastomeres that initially retain CeE/DA antibody staining at this stage are neurons or their immediate precursors. There are a few neuronal precursors that are located away from the neuronal clusters in the embryo (for example the postembryonic neuroblast W), for which antibody staining was not detected. Therefore, although persistent antibody staining is largely restricted to neurons or their precursors, not every such cell is antibody-positive. CeE/DA-antibody staining is transient for the majority of these cells, with the staining progressively lost as differentiation and morphogenesis occur. This is most clearly evident at the 1.5-fold stage of embryogenesis, in which a lateral view of the embryo shows staining in the head, ventral nerve cord and tail. As the embryo begins elongating, the level of CeE/DA-antibody staining decreases in these cells. Note that most of these cells are postmitotic. Although the majority of cells lose CeE/DA-antibody staining during the later half of embryogenesis, a small percentage of cells remain antibody-positive through the remainder of embryogenesis and after hatching. There are 14 of these continually staining cells in the head and seven more in the tail region. Of the 14 head cells, 5 are pharyngeal. The pharyngeal nuclei have been identified, as two pharyngeal muscle nuclei (pm5L and R) and three pharyngeal gland cell nuclei (g1P, g2L and R). The remaining nine CeE/DA antibody-positive cells in the head are outside of the pharynx and are located in the neuronal cluster between the nerve ring and the posterior pharyngeal bulb. There are four bilateral pairs of stained nuclei and one positive nucleus lying along the ventral mid-line. Using hlh-2::GFP reporter strains and DiI staining, three of the bilateral pairs of neurons have been identified as ADL (L and R) and ASH (L and R) and RIC (L and R). The large number of neurons in this area makes it difficult to identify unambiguously each of the remaining three CeE/DA antibody-positive cells. The seven tail cells with nuclei that remain CeE/DA antibody-positive throughout embryonic development include the two Q neuroblasts and five cells were tentatively identified as DVA (an interneuron), the bilateral pair of intestinal muscle cells, the anal depressor muscle and the anal sphincter muscle. The two intestinal and two anal muscle cells are postmitotic and are non-striated muscles. CeE/Da is not detected in bodywall muscles. In addition to the 21 cells that are CeE/DA antibody-positive at hatching, there are several additional cells detected immunologically during subsequent development. One prominent set of cells that becomes CeE/DA antibody-positive during the L3 stage are the 16 developing vulval and uterine muscle cells (non-striated). These nuclei remain antibody-positive in the mature vulva, although staining intensity appears to decrease. Another prominent pair of postembryonic, CeE/DA antibody-positive nuclei are the distal tip cells (DTC). The DTC nuclei are CeE/DA antibody-positive from the start of gonad elongation in larval development and remain positive in adulthood. Very faint antibody staining can also be detected in the syncytial gonad. |
At all developmental stages, CeE/DA antibody staining is nuclear (except in the germline). |
Three methods, lacZ, gfp, antibody staining results all mixed together. Lots of unextracted cell objects buried in pattern text. |
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Expr841
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PAL-1 produced from zygotic transcripts is seen initially in C and D lineage cells that also expressed maternally derived PAL-1. As gastrulation begins, expression is seen in only Ca and Cp and then in their daughters, of which 2 are hypodermoblasts (Caa and Cpa) and 2 are myoblasts (Cap and Cpp). The GFP reporter is first detected at the late 2C-cell stage and then more strongly in the 4 daughters. At about 100 cells, expression is also detected in the 2 D-lineage myoblasts. Thereafter, PAL-1 continues to be detected in all C and D descendants until the end of gastrulation at about 350 cells. At about 180 cells (midgastrulation), the C hypodermal precursors, which express more strongly than the muscle precursors, form a characteristic double row on each side of the dorsal midline in the posterior. Thereafter, PAL-1 decreases in these cells and is no longer detectable with antibody after 350 500 cells. At about 250 cells, expression is detected in two AB cells that border the posterior left edge of the mesectodermal cell layer that is closing the ventral gastrulation cleft (ABplpappp and ABplppppp) and slightly later in the right homolog of one of them (ABprppppp). The daughters and granddaughters of these cells, generated after the cleft closes, continue to express strongly along the ventral midline until about the time of hatching. Beginning at about 360 cells, as morphogenesis begins, weak transient expression is detected in the posterior ectodermal P cells and occasionally in posterior V cells as both groups move ventrally. During this period the V cells become the lateral seam cells, and the P cells undergo their terminal embryonic divisions as they complete hypodermal enclosure of the embryo. Meanwhile, in the interior, pal-1 expression, detectable both with antibody and with reporter constructs, appears at about 350 cells in 2 Ea descendents near the middle of the gut primordium (the int5 pair) and in 2 anteriorly located MS descendants which migrate to the posterior and become the mesoblast M and the right intestinal muscle (mu intR). During early morphogenesis as the embryo develops through the comma stage and begins to elongate, all the pal-1-expressing cells (approximately 50) are located in the posterior ventral region, except for the 2 midgut cells which lie more dorsally. The descendants of ABpl/rppppp, as well as mu intR, move into the elongating tail and participate in formation of the rectal and associated intestinal muscles, as well as the ventral tail hypodermis. Expression diminishes during elongation and by hatching is detectable only in the 2 gut cells, M, mu intR, and 10 cells descended from ABpl/rppppp. |
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In situ hybridization showed that ceh-13 mRNA was not present at early embryonic stages. It appeared first in E.p and then in the AB.xxxp cells, only a short time before CEH-13. Transgenic Marker: rol-6(su1006). Subcellular localization: : Nuclear in E.p, cytoplasmic in AB.xxxp. Nuclear in E.p and Ab.xxxp daughters. In situ hybridization showed that ceh-13 mRNA was not present at early embryonic stages. It appeared first in E.p and then in the AB.xxxp cells, only a short time before CEH-13. Transgenic Marker: rol-6(su1006). |
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Expr513
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Expressed weakly in intestinal precursor, E.p, at 26-cell stage embryo at the beginning of gastrulation. Expressed in E.p and AB.xxxp daughters and in D.a and D.p. See Expression pattern 512 for expression later in development. |
Nuclear in E.p, cytoplasmic in AB.xxxp. Nuclear in E.p and Ab.xxxp daughters. |
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Expr514
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E.p and daughters during gastrulation, then fades during morphogenesis. No staining seen in larval or adult intestine; AB.xxxp and their daughters during gastrulation; D.a and D.p during gastrulation; unidentified anterior embryonic cells, other cells in AB, MS and D lineages throughout embryogenesis. Strongly expressed in H2L, H2R, V1L, V1R at comma stage embryo. Also seen in anterior dorsal hypodermal cells and anterior body wall muscle cells at comma stage Embryo. Ventral nerve cord, lateral hypodermal and dorsal hypodermal cells show strong expression at L1. H2L and H2R show weak expression at L1. V1.pxx cells do not show expression at L1, but all V1 through V4 descendants show expression at L2. Expressed in male tail at unspecified stage. |
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Expr10472
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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/ |
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hlh-1 is called CeMyoD in the article. |
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Expr1389
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The pattern of expression in larvae and adults was identical whether assayed by antibody staining or reporter gene. CeMyoD is expressed only in body wall muscle cells. CeMyoD antibody stained in the nuclei of very early embryonic blastomeres at about 120 min postfertilization. Staining initially is seen only in the two daughter cells of the D blastomere. Shortly after, CeMyoD is observed in the two daughters of both C.ap and C.pp. Staining is not seen in any of the embryonic blastomeres that produce other types of tissues, including pharyngeal muscle. |
Nuclear staining with the CeMyoD antibody is observed in all descendants of the immunopositive early blastomeres as they continue to divide and ultimately differentiate into body wall muscles. |
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Expr10284
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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/ |
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Expr10425
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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/ |
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Expr10429
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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/ |
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Expr10314
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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/ |
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Expr10447
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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/ |
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Expr10448
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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/ |
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Expr10446
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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/ |
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Expr10313
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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/ |
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Reporter gene fusion type not specified. |
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Expr2615
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The hnd-1 reporters expressed GFP in the MS, C and D embryonic lineages. Expression was first observed in four MS great-granddaughters, four C great-granddaughters and two D daughters. Expression continued through one cell division and then became difficult to detect using hnd-1(FL)::GFP. hnd-1(N)::GFP remained detectable in some cells within these MS and C lineages, but disappeared from most body muscle cells by the comma stage of embryogenesis. Then, the hnd-1 reporters were expressed in Z1 and Z4 as they approached the primordial germ cells to form the gonadal primordium. Shortly after the primordium was assembled, hnd-1(N)::GFP expression was reduced or disappeared. GFP was not detected in the somatic and germline precursors at hatching or post-embryonically. Therefore, hnd-1 appears to be expressed during embryogenesis in mesodermal precursor cells that generate predominantly body wall muscle, and then in somatic gonadal precursor cells. |
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Expr10334
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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/ |
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Expr10335
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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/ |
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Expr10336
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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/ |
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Expr10337
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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/ |
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Expr10212
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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/ |
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Reporter gene fusion type not specified. T14G12.4 = fkh-2 |
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Expr1472
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expression was observed in the descendants of the D founder cell. T14G12.4::gfp expression was also detected in many other cells more anteriorly that probably overlap with, but are not identical to, those of the AB founder cell lineage that express the pes-1::gfp fusion gene. |
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Expr10377
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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/ |
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