1 result
OVERVIEW
Click here to see the RNA-Seq Pipeline Protocol.
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Be careful, FPKM & RPKM does not permit you to compare a gene across different conditions or experiments.
OVERVIEW
Be careful, RLE and 2RLE does not permit you to compare a gene across different experiments.
Oocytes of a single individual of Halocynthia roretzi (Aomori, Japan) were fertilized by sperms of an another single individual and development was followed microscopically. Embryos were snapfrozen in liquid nitrogen at the appropriate stage and kept at -80°C. Total RNA was prepared with the AGPC method and the quality was checked with the Bioanalyzer, most samples had a RIN value of higher than 9. Strand specific libraries were constructed and the sequencing (50PE) was performed with Illumina HiSeq 2000 technology (BGI, Hong Kong, China).
| Assay platform | Illumina HiSeq 2000 | |
| Layout | Paired-end | |
| Stranded | Yes | |
| Read length | 49 | |
| Normalized data types |
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| Wild type - Replica 1 | ||
| Territories | whole embryo - | |
| Biomaterial(s) | H.roretzi, Stage 0 (Unfertilized egg) | |
| H.roretzi, Stage 8 (64-cell) | ||
| H.roretzi, Stage 12 (mid gastrula) | ||
| H.roretzi, Stage 21 (mid tailbud I) | ||
| H.roretzi, Stage 26 (hatching larva) | ||
| Wild type - Replica 2 | ||
| Territories | whole embryo - | |
| Biomaterial(s) | H.roretzi, Stage 0 (Unfertilized egg) | |
| H.roretzi, Stage 8 (64-cell) | ||
| H.roretzi, Stage 12 (mid gastrula) | ||
| H.roretzi, Stage 15 (mid neurula) | ||
| H.roretzi, Stage 21 (mid tailbud I) | ||
| H.roretzi, Stage 26 (hatching larva) | ||
7 results
Vegetal view of a control Halocynthia roretzi 110-cell stage embryo probed for Snail expression and treated with DMSO.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blasomer pairs.
Original comment: Expression of the Snail gene is not restricted to muscle cell lineages but also occurs in precursor cells of mesenchyme, notochord and neural tube.
White arrows indicate the absence of ectopic gene expression in germline cells.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
Scale bar, 100 μm
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a control Halocynthia roretzi 110-cell stage embryo probed for Snail expression and treated with DMSO.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B8.15, B8.5, B8.6, B8.7 and B8.8 blastomer pairs.
Original comment: Expression of the Snail gene is not restricted to muscle cell lineages but also occurs in precursor cells of mesenchyme, notochord and neural tube.
Yellow arrows indicate absence of ectopic gene expression in the germline.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
Scale bar, 100 μm
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B8.15 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression and treated with GSK126, a selective inhibitor of EZH2 used to inhibit H3K27me3.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs, as in WT conditions.
White arrows indicate the absence of ectopic gene expression in germline cells.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression, injected with a control MO and treated with GSK126, a selective inhibitor of EZH2 used to inhibit H3K27me3.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs, as in WT conditions
White arrows indicate the absence of ectopic gene expression in germline cells.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression and treated with GSK126, a selective inhibitor of EZH2 used to inhibit H3K27me3.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs, as in WT conditions.
White arrows indicate the absence of ectopic gene expression in germline cells.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression, injected with a control MO and treated with GSK126, a selective inhibitor of EZH2 used to inhibit H3K27me3.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs, as in WT conditions
White arrows indicate the absence of ectopic gene expression in germline cells.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression, injected with Pem MOs and treated with GSK126, a selective inhibitor of EZH2 used to inhibit H3K27me3.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs as in WT conditions, but also in B7.6 the germline precursors.
Original comment: Germline ectopic Snail expression was observed in Pem- and H3K27me3-deficient germline cells at the 110-cell stage (red arrow).
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.6 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression, injected with Pem MOs and treated with GSK126, a selective inhibitor of EZH2 used to inhibit H3K27me3.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs as in WT conditions, but also in B7.6 the germline precursors.
Original comment: Germline ectopic Snail expression was observed in Pem- and H3K27me3-deficient germline cells at the 110-cell stage (red arrow).
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.6 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression, injected with Pem MOs and treated with DMSO as control.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs, as in WT conditions.
White arrows indicate the absence of ectopic gene expression in germline cells.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a control Halocynthia roretzi 110-cell stage embryo probed for Snail expression and treated with DMSO.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blasomer pairs.
Original comment: Expression of the Snail gene is not restricted to muscle cell lineages but also occurs in precursor cells of mesenchyme, notochord and neural tube.
White arrows indicate the absence of ectopic gene expression in germline cells.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
Scale bar, 100 μm
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a control Halocynthia roretzi 110-cell stage embryo probed for Snail expression and treated with DMSO.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B8.15, B8.5, B8.6, B8.7 and B8.8 blastomer pairs.
Original comment: Expression of the Snail gene is not restricted to muscle cell lineages but also occurs in precursor cells of mesenchyme, notochord and neural tube.
Yellow arrows indicate absence of ectopic gene expression in the germline.
The number represents the proportion of embryos showing ectopic gene expression in the germline.
Scale bar, 100 μm
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B8.15 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression, injected with Pem MOs and treated with GSK126, a selective inhibitor of EZH2 used to inhibit H3K27me3.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs as in WT conditions, but also in B7.6 the germline precursors.
Original comment: Germline ectopic Snail expression was observed in Pem- and H3K27me3-deficient germline cells at the 110-cell stage (red arrow).
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.6 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Vegetal view of a Halocynthia roretzi 110-cell stage embryo probed for Snail expression, injected with Pem MOs and treated with GSK126, a selective inhibitor of EZH2 used to inhibit H3K27me3.
Snail is expressed in A8.5, A8.6, A8.13 and A8.14 (notochord precursors), A8.15 and A8.16 (nerve chord precursors), B7.5, B7.7, B8.15, B8.16, B8.5, B8.6, B8.7 and B8.8 blastomer pairs as in WT conditions, but also in B7.6 the germline precursors.
Original comment: Germline ectopic Snail expression was observed in Pem- and H3K27me3-deficient germline cells at the 110-cell stage (red arrow).
The number represents the proportion of embryos showing ectopic gene expression in the germline.
| Stained molecule | Harore.CG.MTP2014.S184.g04760 (SNAI1; SNAI2; SNAI3) |
| Stained region(s) | A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - B7.5 cell pair - B7.6 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
