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| Nori Satoh unpublished cDNA library Nori Satoh unpublished cDNA library |
|
1 clone(s) / 5,577 |
| Nori Satoh unpublished cDNA library, young adult Nori Satoh unpublished cDNA library, young adult |
|
1 clone(s) / 31,366 |
| Nori Satoh unpublished cDNA library, cleavage stage embryo Nori Satoh unpublished cDNA library, cleavage stage embryo |
|
0 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| Nori Satoh unpublished cDNA library, egg Nori Satoh unpublished cDNA library, egg |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| Nori Satoh unpublished cDNA library, larva Nori Satoh unpublished cDNA library, larva |
|
46 clone(s) / 26,704 |
| Nori Satoh unpublished cDNA library, tailbud embryo Nori Satoh unpublished cDNA library, tailbud embryo |
|
2 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| K. Inaba unpublished cDNA library, testis K. Inaba unpublished cDNA library, testis |
|
1 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| Nori Satoh unpublished cDNA library, blood cells Nori Satoh unpublished cDNA library, blood cells |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| Nori Satoh unpublished cDNA library, endostyle Nori Satoh unpublished cDNA library, endostyle |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| Nori Satoh unpublished cDNA library, cleaving embryo Nori Satoh unpublished cDNA library, cleaving embryo |
|
1 clone(s) / 16,939 |
| Nori Satoh unpublished cDNA library, gastrula and neurula Nori Satoh unpublished cDNA library, gastrula and neurula |
|
0 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| Nori Satoh unpublished cDNA library, gonad Nori Satoh unpublished cDNA library, gonad |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| Nori Satoh unpublished cDNA library, neural complex Nori Satoh unpublished cDNA library, neural complex |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| Nori Satoh unpublished cDNA library, heart Nori Satoh unpublished cDNA library, heart |
|
0 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| Yutaka Satou unpublished cDNA library, adult digestive gland Yutaka Satou unpublished cDNA library, adult digestive gland |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| Yutaka Satou unpublished cDNA library, embryo whole animal Yutaka Satou unpublished cDNA library, embryo whole animal |
|
9 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 |
|
0 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) |
|
0 clone(s) / 188,431 |
2 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) | ||
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) | |
20 results
Conversion to Aniseed format of Ghost database entry from Satou Y et al., Development 2001; 128:2893-2904.
Original annotation: epidermis along the ventral midline of the trunk. Expression pattern: Nerve cord. No picture available.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | tail nerve cord - |
Conversion to Aniseed format of Ghost database entry from Satou Y et al., Development 2001; 128:2893-2904.
Original annotation: epidermis along the ventral midline of the trunk. Expression pattern: Nerve cord
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | tail nerve cord - |
Lateral view of an early tailbud stage wild type embryo probed for cilv038e16 expression.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | tail nerve cord - |
View of the precursors of the tail epidermis (b4.2 blastomeres) that were isolated at the eight-cell stage and treated with bFGF. Explants were probed for cilv038e16 expression. This nerve cord marker was expressed in some cells of these explants. Controls sibling embryo show the wild type pattern of the gene and explants treated with BSA. bFGF-treated explants comprise CNS (especially dorsal tail nerve cord) and epidermis midline cells.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | epidermis - tail nerve cord - |
View of the precursors of the tail epidermis (b4.2 blastomeres) that were isolated at the eight-cell stage and treated with BMP4. Explants were probed for cilv038e16 expression. This nerve cord marker was not expressed throughout these explants. Controls sibling embryo show the wild type pattern of the gene and explants treated with BSA.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | No expression - |
Lateral view of an early tailbud embryo showing expression in the nerve cord, part of the visceral ganglion, and anterior-most sensory vesicle.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | anterior sensory vesicle - lateral TNC ependymal precursors - visceral ganglion - |
Lateral view of a mid tailbud embryo showing loss of expression from the nerve cord after inhibition of MEK signalling by PD184352 treatment at the 8 cell stage.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | No expression - |
View of the precursors of the tail epidermis (b4.2 blastomeres) that were isolated at the eight-cell stage and treated with BSA. Explants were probed for cilv038e16 expression. This tail nerve cord marker was not expressed throughout these explants. Control sibling embryo shows the wild type pattern of the gene.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | No expression - |
Lateral view of a tailbud stage embryo with anterior to the left stained with KH.C7.391.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | tail nerve cord - |
Lateral view with dorsal to the top (anterior to the left) of a 19-stage embryo (early tailbud I) stained with KH.C7.391 after injection of a Otx morpholino (Otx MO). Expression was suppressed in the embryo.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | No expression - |
Lateral view of a tailbud stage embryo with anterior to the left stained with KH.C7.391.
Original annotation: Expression was observed in the dorsal nerve cord.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | anterior anterior sensory vesicle - tail nerve cord - |
Lateral view of a tailbud stage embryo with anterior to the left stained with KH.C7.391 after U0126 treatment at the 8-cell stage. White arrow indicates loss of expression.
Original annotation: Expression was lost in the dorsal nerve cord.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | No expression - |
Lateral view of a tailbud stage embryo with anterior to the left stained with KH.C7.391 after SB431542 treatment at the 16-cell stage. White arrows indicates loss of expression.
Original annotation: Expression was lost in the dorsal nerve cord.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | No expression - |
Lateral view with anterior to the left and dorsal to the Expression was observed in the dorsal nerve cord.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | tail nerve cord - visceral ganglion - |
Lateral view with anterior to the left and dorsal to the top of a tailbud stage embryo stained with KH.C7.391 after OtxHDenR overexpression, a dominant negative form of Otx, at the 16-cell stage. Expression was lost in the whole embryo (black arrow).
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of Ghost database entry from Satou Y et al., Development 2001; 128:2893-2904. Original annotation: epidermis along the vetral midline of the trunk. Expression pattern: Epidermis Endodermal strand Nerve cord
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | endodermal strand - epidermis - tail nerve cord - |
Mid tailbud wild type embryo probed for cilv018g21 expression (no picture available in the article).
cilv018g21 was expressed in the nervous system.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | nervous system - |
Mid tailbud embryos probed for cilv018g21 expression (no picture available in the article) following the injection of Ci-Rga-MO.
cilv018g21 expression was lost (in 64% of embryos) or reduced (in 36% of embryos) in the nervous system.
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of Ghost database entry from Satou Y et al., Development 2001; 128:2893-2904. Original annotation: epidermis along the vetral midline of the trunk. Expression pattern: Epidermis Endodermal strand Nerve cord
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | endodermal strand - epidermis - tail nerve cord - |
Conversion to Aniseed format of Ghost database entry from Kusakabe T et al., Dev Biol. 2002; 242:188-203. Original annotation: . Expression pattern: not clear
| Stained molecule | KH2012:KH.C7.391 (KH.C7.391) |
| Stained region(s) | whole embryo - |
