27 results
| Library Name | Percentage | Expression |
|---|---|---|
| Ciona intestinalis whole animal Ciona intestinalis whole animal |
|
0 clone(s) / 0 |
| Nori Satoh unpublished cDNA library Nori Satoh unpublished cDNA library |
|
0 clone(s) / 5,577 |
| Nori Satoh unpublished cDNA library, young adult Nori Satoh unpublished cDNA library, young adult |
|
0 clone(s) / 31,366 |
| Nori Satoh unpublished cDNA library, cleavage stage embryo Nori Satoh unpublished cDNA library, cleavage stage embryo |
|
1 clone(s) / 15,579 |
| Nori Satoh unpublished cDNA library, egg Nori Satoh unpublished cDNA library, egg |
|
0 clone(s) / 31,100 |
| Nori Satoh unpublished cDNA library, larva Nori Satoh unpublished cDNA library, larva |
|
0 clone(s) / 26,704 |
| Nori Satoh unpublished cDNA library, tailbud embryo Nori Satoh unpublished cDNA library, tailbud embryo |
|
1 clone(s) / 26,680 |
| directional larval cDNA library directional larval cDNA library |
|
0 clone(s) / 39 |
| Ascidian hemocytes cDNA library Ascidian hemocytes cDNA library |
|
0 clone(s) / 0 |
| K. Inaba unpublished cDNA library, testis K. Inaba unpublished cDNA library, testis |
|
0 clone(s) / 5,468 |
| Stratagene UniZAP whole-larva library Stratagene UniZAP whole-larva library |
|
0 clone(s) / 0 |
| Ciona intestinalis larva Ciona intestinalis larva |
|
0 clone(s) / 0 |
| Nori Satoh unpublished cDNA library, blood cells Nori Satoh unpublished cDNA library, blood cells |
|
0 clone(s) / 29,579 |
| Nori Satoh unpublished cDNA library, endostyle Nori Satoh unpublished cDNA library, endostyle |
|
0 clone(s) / 2,556 |
| Nori Satoh unpublished cDNA library, cleaving embryo Nori Satoh unpublished cDNA library, cleaving embryo |
|
2 clone(s) / 16,939 |
| Nori Satoh unpublished cDNA library, gastrula and neurula Nori Satoh unpublished cDNA library, gastrula and neurula |
|
1 clone(s) / 25,258 |
| Nori Satoh unpublished cDNA library, gonad Nori Satoh unpublished cDNA library, gonad |
|
0 clone(s) / 16,936 |
| Nori Satoh unpublished cDNA library, neural complex Nori Satoh unpublished cDNA library, neural complex |
|
0 clone(s) / 10,463 |
| Nori Satoh unpublished cDNA library, heart Nori Satoh unpublished cDNA library, heart |
|
2 clone(s) / 13,243 |
| Yutaka Satou unpublished cDNA library, adult digestive gland Yutaka Satou unpublished cDNA library, adult digestive gland |
|
0 clone(s) / 17,765 |
| Yutaka Satou unpublished cDNA library, embryo whole animal Yutaka Satou unpublished cDNA library, embryo whole animal |
|
0 clone(s) / 17,872 |
| Yutaka Satou unpublished cDNA library, mature adult whole animal Yutaka Satou unpublished cDNA library, mature adult whole animal |
|
1 clone(s) / 107,314 |
| Nori Satoh unpublished cDNA library, juvenile whole animal Nori Satoh unpublished cDNA library, juvenile whole animal |
|
0 clone(s) / 24,372 |
| Nori Satoh unpublished cDNA library, mature adult whole animal Nori Satoh unpublished cDNA library, mature adult whole animal |
|
1 clone(s) / 17,126 |
| Ciona intestinalis whole animal stage3 juvenile Ciona intestinalis whole animal stage3 juvenile |
|
0 clone(s) / 3,798 |
| Yutaka Satou unpublished library (cicx) Yutaka Satou unpublished library (cicx) |
|
0 clone(s) / 2,031 |
| Gateway compatible cien cDNA library, Ciona intestinalis mixed embryonic stages (Egg to Neurula) Gateway compatible cien cDNA library, Ciona intestinalis mixed embryonic stages (Egg to Neurula) |
|
2 clone(s) / 188,431 |
3 results
OVERVIEW
Click here to see the RNA-Seq Pipeline Protocol.
You can show/hide lines in the charts by clicking on it in the legend part.
You can see more details by clicking on a point and then, on the link which will appear.
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 Ciona intestinalis (Roscoff, France) were fertilized by a mixture of sperm of two individuals and development was followed microscopically. Embryos were snapfrozen in liquid nitrogen at the appropriate stage and kept at -80°C. Samples at stage 0, 8, 12, 15, 21, 26 were collected from the same fertilzation, while sample from stage 11 was independently collected from a different individual. Total RNA was prepared with the RNA II kit of Magerey Nagel and the quality was checked with the Bioanalyzer, all 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). Reads were aligned onto C.robusta genome and considered to reflect the expression of the C.robusta orthologous genes.
| Assay platform | Illumina HiSeq 2000 | |
| Layout | Paired-end | |
| Stranded | Yes | |
| Read length | 49 | |
| Normalized data types |
|
|
| Wild type - Replica 1 | ||
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 0 (Unfertilized egg) | |
| C. robusta formely Ciona int. type A, Stage 8 (64-cell) | ||
| C. robusta formely Ciona int. type A, Stage 11 (early gastrula) | ||
| C. robusta formely Ciona int. type A, Stage 12 (mid gastrula) | ||
| C. robusta formely Ciona int. type A, Stage 15 (mid neurula) | ||
| C. robusta formely Ciona int. type A, Stage 21 (mid tailbud I) | ||
| C. robusta formely Ciona int. type A, Stage 26 (hatching larva) | ||
| Wild type - Replica 2 | ||
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 0 (Unfertilized egg) | |
| C. robusta formely Ciona int. type A, Stage 8 (64-cell) | ||
| C. robusta formely Ciona int. type A, Stage 11 (early gastrula) | ||
| C. robusta formely Ciona int. type A, Stage 12 (mid gastrula) | ||
| C. robusta formely Ciona int. type A, Stage 15 (mid neurula) | ||
| C. robusta formely Ciona int. type A, Stage 21 (mid tailbud I) | ||
| C. robusta formely Ciona int. type A, Stage 26 (hatching larva) | ||
Ciona robusta adults were obtained from the National Bio-Resource Project for Ciona (NBRP, Japan). 50 unperturbed and Foxd-morphant embryos were collected at the 32-, 64-, and 112-cell stages. RNA was extracted using a Dynabeads mRNA DIRECT Purification Kit (Thermo Fischer Scientific) and libraries were made with an Ion Total RNA-Seq kit ver 2 (Thermo Fischer Scientific). The libraries were sequenced with an Ion PGM instrument (Thermo Fischer Scientific).
| Assay platform | Ion Torrent PGM | |
| Layout | Single-end | |
| Stranded | Yes | |
| Read length | 20-365 | |
| Normalized data types |
|
|
| Wild type | ||
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 6a (early 32-cell) | |
| C. robusta formely Ciona int. type A, Stage 8 (64-cell) | ||
| C. robusta formely Ciona int. type A, Stage 10 (112-cell) | ||
| Mutant | ||
| Deregulated molecule(s) | KH2012:KH.C8.890 - | |
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 6a (early 32-cell) | |
| C. robusta formely Ciona int. type A, Stage 8 (64-cell) | ||
| C. robusta formely Ciona int. type A, Stage 10 (112-cell) | ||
The purpose of this project is to identify genes positively and negatively regulated by signaling molecules that belongs to the TGFbeta superfamily.
| Assay platform | Illumina HiSeq 2500 | |
| Layout | Single-end | |
| Stranded | Yes | |
| Read length | 101 | |
| Normalized data types |
|
|
| Wild type | ||
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 13 (late gastrula) | |
| Mutant 1 | ||
| Deregulated molecule(s) | KH2012:KH.C4.125 - | |
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 13 (late gastrula) | |
| Mutant 2 | ||
| Deregulated molecule(s) | KH2012:KH.C2.573 - | |
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 13 (late gastrula) | |
13 results
Vegetal view of a WT Ciona robusta 32-cell stage embryo probed for Pinhead (KH.C2.1069) expression.
Pinhead is not yet expressed at the 32-cell stage.
Scale bar : 100 μm.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | No expression - |
Vegetal view of a WT Ciona robusta 64-cell stage embryo probed for Pinhead (KH.C2.1069) expression.
Original annotation : Pinhead is first transiently and weakly expressed in the presumptive mesenchyme (A7.6 blastomeres) at the 64-cell stage. Arrowheads point to non-epidermal lineage.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | A7.6 cell pair - |
Animal view of a WT Ciona robusta gastrula embryo probed for Pinhead (KH.C2.1069) expression.
Pinhead is expresses is observed in the posterior ventral epidermal cells (arrow) and in the presumptive dorsal nerve cord (arrowheads).
Original annotation : Strong continuous expression occurs in the posterior ventral epidermal cells.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | b9.33 cell pair - b9.37 cell pair - b9.38 cell pair - ventral posterior tail epidermis - |
Animal (ventral) view of a WT Ciona robusta neurula embryo probed for Pinhead (KH.C2.1069) expression.
Expression is observed in the ventral epidermis.
Original annotation : This epidermal expression
expands anteriorally to the entire ventral epidermis
up to the neurula stage.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | ventral anterior tail epidermis - ventral head epidermis - ventral posterior tail epidermis - |
Lateral view of a WT Ciona robusta early tailbud embryo probed for Pinhead (KH.C2.1069) expression.
Expression is observed in the ventral trunk epidermis and in the ventral endoderm.
Original annotation : At the tailbud stage, the
ventral epidermal expression is restricted to the trunk region (arrow). Pinhead is also expressed in the ventral endoderm (arrowhead).
Insert is a ventral view of the trunk region.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | ventral anterior head endoderm (A7.1 line) - ventral head epidermis - |
Lateral view of a Ciona robusta early tailbud embryo probed for Pinhead (KH.C2.1069) expression and injected with morpholinos against Admp.
No expression can be observed.
Original annotation : Pinhead
expression was suppressed in Admp morphant.
Insert is a ventral view of the trunk region.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | No expression - |
Lateral view of a Ciona robusta early tailbud embryo probed for Pinhead (KH.C2.1069) expression and injected with morpholinos against Bmp2/4.
No expression can be observed.
Original annotation : Pinhead
expression was suppressed in Bmp2/4 morphant.
Insert is a ventral view of the trunk region.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | No expression - |
In WT Ciona robusta early tailbud embryo, Pinhead (KH.C2.1069) is expressed in the ventral trunk epidermis and in the ventral endoderm.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | ventral anterior head endoderm (A7.1 line) - ventral head epidermis - |
Ventral view of a Ciona robusta early tailbud embryo probed for Pinhead (KH.C2.1069) expression and injected with morpholinos against Admp in the the anterior vegetal (A-line) cells at the 8-cell stage.
Ventral head epidermal expression is not affected by the injection of Admp in A-line cells.
Scale bar : 100 μm.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | ventral head epidermis - |
Ventral view of a Ciona robusta early tailbud embryo probed for Pinhead (KH.C2.1069) expression and injected with morpholinos against Admp in the the anterior animal (a-line) cells at the 8-cell stage.
Ventral head epidermal expression is lost following the injection of Admp in a-line cells. Some expression seems to remain in the ventral neck epidermis.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | No expression - ventral midline anterior tail epidermis - |
Pinhead is expressed in the ventral trunk epidermis and in the ventral endoderm of WT Ciona robusta early tailbud embryos.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | ventral anterior head endoderm (A7.1 line) - ventral head epidermis - |
ventral view of a Ciona robusta early tailbud embryo probed for Pinhead (KH.C2.1069) expression and electroporated with Dll-b>Bmp2/4 overexpression consruct.
Pinhead is expressed in the entire head epidermis.
Original annotation : Overexpression of Bmp2/4 in the entire epidermis under the Dll-b upstream sequence resulted in up-regulation of Pinhead.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | head epidermis - |
Lateral view of a Ciona robusta early tailbud embryo probed for Pinhead (KH.C2.1069) expression and electroporated with Dll-b>noggin overexpression consruct.
No expression is observed.
Original annotation : Overexpression of noggin in the entire epidermis under the Dll-b upstream sequence resulted in down-regulation of Pinhead.
| Stained molecule | KH2012:KH.C2.1069 (KH.C2.1069) |
| Stained region(s) | No expression - |
