1 result
OVERVIEW
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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) | ||
28 results
Halocynthia roretzi 4-cell stage embryo probed for FoxA and PEM expressions.
FoxA zygotic transcription is detected in the somatic, but not in the germline lineage. FoxA mRNA is stained Dark blue or brown. PEM mRNA is stained red for identification of germline cells. Anterior is to the left.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A line - |
Halocynthia roretzi 4-cell stage embryo probed for FoxA and PEM expressions, and injected with PEM MO.
FoxA ectopic zygotic transcription in PEM knockdown embryos is marked with yellow arrowheads. Anterior is to the left.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | whole embryo - |
Halocynthia roretzi 4-cell stage embryo probed for FoxA expression, and injected with PEM mRNA.
FoxA somatic expression disappears in PEM mRNA injected embryos.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Halocynthia roretzi 8-cell stage embryo probed for FoxA and PEM expressions.
Zygotic transcription is detected in the somatic, but not in the germline lineage. FoxA mRNA is stained Dark blue or brown. PEM mRNA is stained red for identification of germline cells. Anterior is to the left. Lateral view.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - |
Halocynthia roretzi 8-cell stage embryo probed for FoxA expression and injected with PEM MO.
Ectopic zygotic transcription in PEM knockdown embryos is marked with yellow arrowheads.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | whole embryo - |
Halocynthia roretzi 8-cell stage embryo probed for FoxA expression and injected with PEM mRNA.
Somatic expression disappears in PEM mRNA injected embryos.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Vegetal view with anterior up of a WT Halocynthia roretzi early 16-cell stage embryo probed for FoxA expression.
FoxA is expressed in A5.1, A5.2 and B5.1 blastomere pairs.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - B5.1 cell pair - |
Vegetal view with anterior up of Halocynthia roretzi early 16-cell stage embryos probed for FoxA expression and injected with PEM MO.
FoxA is expressed in A5.1, A5.2 and B5.1 blastomere (as in WT conditions), and ectopic expression is observed in B5.2 blastomere(s) (arrowheads).
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - B5.1 cell pair - B5.2 cell pair - |
Vegetal view of a Halocynthia roretzi 32-cell stage embryo probed for FoxA expression.
Zygotic transcription is detected in the somatic, but not in the germline lineage. FoxA mRNA is stained Dark blue or brown. PEM mRNA is stained red for identification of germline cells. Anterior is to the top.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.3 cell pair - B6.1 cell pair - |
Vegetal view of a Halocynthia roretzi 32-cell stage embryo probed for FoxA expression and injected with 300pg of PEM MO.
No ectopic expression is observed.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.3 cell pair - B6.1 cell pair - |
Vegetal view of a Halocynthia roretzi 32-cell stage embryo probed for FoxA expression and injected with 100pg of PEM MO.
No ectopic expression is observed.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.3 cell pair - B6.1 cell pair - |
Vegetal view of a Halocynthia roretzi 32-cell stage embryo probed for FoxA expression and injected with PEM mRNA.
Somatic expression disappears in PEM mRNA injected embryos.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Vegetal view with anterior up of a WT Halocynthia roretzi early 32-cell stage embryo probed for FoxA expression.
FoxA is expressed in A6.1, A6.2, A6.3, A6.4 and B6.1 blastomere pairs.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.2 cell pair - A6.3 cell pair - A6.4 cell pair - B6.1 cell pair - |
Vegetal view with anterior up of a Halocynthia roretzi early 32-cell stage embryo probed for FoxA expression and injected with PEM mRNA.
Expression is lost.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Vegetal view of a Halocynthia roretzi 32-cell stage embryo probed for FoxA expression and injected with 300pg of PEM MO.
No ectopic expression is observed.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.3 cell pair - B6.1 cell pair - |
Vegetal view of a Halocynthia roretzi 32-cell stage embryo probed for FoxA expression and injected with 100pg of PEM MO.
No ectopic expression is observed.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.3 cell pair - B6.1 cell pair - |
Vegetal view of a Halocynthia roretzi 32-cell stage embryo probed for FoxA expression and injected with control MO.
FoxA is expressed in A6.2, A6.1, A6.3, A6.4 and B6.1 blastomer pairs.
Arrowheads represent Hr-FoxA expression in the A-line notochord lineage (A6.2 and A6.4).
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.2 cell pair - A6.3 cell pair - A6.4 cell pair - B6.1 cell pair - |
Vegetal view of a Halocynthia roretzi 32-cell stage embryo probed for FoxA expression and injected with Hr-Fgf9/16/20 MO.
FoxA is expressed in A6.2, A6.1, A6.3, A6.4 and B6.1 blastomer pairs, as in WT conditions.
Arrowheads represent Hr-FoxA expression in the A-line notochord lineage (A6.2 and A6.4).
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.2 cell pair - A6.3 cell pair - A6.4 cell pair - B6.1 cell pair - |
Vegetal view with anterior up of a WT Halocynthia roretzi 64-cell stage embryo probed for FoxA expression.
FoxA is expressed in A7.1, A7.2, A7.3, A7.4, A7.5, A7.6, A7.7, B7.1, B7.2 and B7.3 cell pairs.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.3 cell pair - A7.5 cell pair - A7.6 cell pair - A7.7 cell pair - B7.1 cell pair - B7.2 cell pair - B7.3 cell pair - |
Vegetal view with anterior up of a Halocynthia roretzi 64-cell stage embryo probed for FoxA expression and injected with Macho-1 mRNA.
FoxA is expressed in A7.1, A7.2, A7.3, A7.4, A7.5, A7.6 and A7.7 cell pairs.
Original annotation: FoxA expression in the anterior half of the vegetal hemisphere is normal, while that in the posterior half disappears on the injected side (arrowheads).
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.3 cell pair - A7.5 cell pair - A7.6 cell pair - A7.7 cell pair - |
Vegetal view of a Halocynthia roretzi 64-cell stage embryo probed for FoxA expression and injected with a control MO.
FoxA is expressed in A7.1, A7.2, A7.3, A7.5, A7.6, A7.7, B7.1, B7.2 and B7.3 blastomer pairs.
Arrowheads represent Hr-FoxA expression in the A-line notochord lineage (A7.3 and A7.7).
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.3 cell pair - A7.5 cell pair - A7.6 cell pair - A7.7 cell pair - B7.1 cell pair - B7.2 cell pair - B7.3 cell pair - |
Vegetal view of a Halocynthia roretzi 64-cell stage embryo probed for FoxA expression and injected with Hr-β-catenin MO.
FoxA expression is lost.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Vegetal view of a Halocynthia roretzi 64-cell stage embryo probed for FoxA expression and injected with Hr-β-catenin MO.
FoxA expression is lost.
Arrowheads represent Hr-FoxA lost expression in the A-line notochord lineage (A7.3 and A7.7).
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Vegetal view of a Halocynthia roretzi 64-cell stage embryo probed for FoxA expression and injected with Fgf9/16/20 MO.
FoxA is expressed in A7.1, A7.2, A7.5, A7.6, B7.1 and B7.2 blastomer pairs.
Arrowheads represent Hr-FoxA lost expression in the A-line notochord lineage (A7.3 and A7.7).
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.5 cell pair - A7.6 cell pair - B7.1 cell pair - B7.2 cell pair - |
Vegetal view of a WTHalocynthia roretzi 64-cell stage embryo probed for FoxA expression.
FoxA is expressed in A7.1, A7.2, A7.3, A7.5, A7.6, A7.7, B7.1, B7.2 and B7.3 blastomer pairs.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.3 cell pair - A7.5 cell pair - A7.6 cell pair - A7.7 cell pair - B7.1 cell pair - B7.2 cell pair - B7.3 cell pair - |
Animal view of a Halocynthia roretzi 64-cell stage embryo probed for FoxA expression and injected with Hr-β-catenin mRNA.
FoxA is ectopically expressed in animal territories (arrowhead).
Original comment: Over-expression of a stable form of Hr-β-catenin RNA caused ectopic, although very weak, expression of Hr-FoxA.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - b line - |
Animal view of a Halocynthia roretzi 64-cell stage embryo probed for FoxA expression and injected with Hr-FoxDa mRNA.
FoxA expression is lost.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Vegetal views with anterior up of WT Halocynthia roretzi 110-cell stage embryos probed for FoxA expression.
FoxA is expressed in A7.1, A7.2, A7.5, A7.6, A8.13, A8.14, A8.5, A8.6, B7.1, B7.2, B8.5 and B8.6 cell pairs.
It is expressed in B8.5 (black and red arrowheads) but not in B7.7 (white arrowheads) mesenchyme-lineage cells.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.5 cell pair - A7.6 cell pair - A8.13 cell pair - A8.14 cell pair - A8.5 cell pair - A8.6 cell pair - B7.1 cell pair - B7.2 cell pair - B8.5 cell pair - B8.6 cell pair - |
Vegetal views with anterior up of Halocynthia roretzi 110-cell stage embryos probed for FoxA expression and injected with PEM MO.
FoxA is expressed in WT territories (A7.1, A7.2, A7.5, A7.6, A8.13, A8.14, A8.5, A8.6, B7.1, B7.2, B8.5 (red arrowhead) and B8.6) and ectopic expression is observed in B7.7 blastomeres (mesenchyme-lineage cells, white arrowhead) and other cells in the posterior region of the vegetal hemisphere.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.5 cell pair - A7.6 cell pair - A8.13 cell pair - A8.14 cell pair - A8.5 cell pair - A8.6 cell pair - B7.1 cell pair - B7.2 cell pair - B7.7 cell pair - B8.5 cell pair - B8.6 cell pair - B line - |
Vegetal view with anterior up of a Halocynthia roretzi 110-cell stage embryo probed for FoxA expression and injected with PEM and beta-catenin MOs.
FoxA expression is lost
Ectopic expression caused by PEM knockdown is eliminated by simultaneous knockdown of beta-catenin.
| Stained molecule | Harore.CG.MTP2014.S31.g08208 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
