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| Nori Satoh unpublished cDNA library Nori Satoh unpublished cDNA library |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| Nori Satoh unpublished cDNA library, young adult Nori Satoh unpublished cDNA library, young adult |
|
2 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| Nori Satoh unpublished cDNA library, cleavage stage embryo Nori Satoh unpublished cDNA library, cleavage stage embryo |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| Nori Satoh unpublished cDNA library, egg Nori Satoh unpublished cDNA library, egg |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| Nori Satoh unpublished cDNA library, larva Nori Satoh unpublished cDNA library, larva |
|
4 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| Nori Satoh unpublished cDNA library, tailbud embryo Nori Satoh unpublished cDNA library, tailbud embryo |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| K. Inaba unpublished cDNA library, testis K. Inaba unpublished cDNA library, testis |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| Nori Satoh unpublished cDNA library, blood cells Nori Satoh unpublished cDNA library, blood cells |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| Nori Satoh unpublished cDNA library, endostyle Nori Satoh unpublished cDNA library, endostyle |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| Nori Satoh unpublished cDNA library, cleaving embryo Nori Satoh unpublished cDNA library, cleaving embryo |
|
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| Nori Satoh unpublished cDNA library, gastrula and neurula Nori Satoh unpublished cDNA library, gastrula and neurula |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| Nori Satoh unpublished cDNA library, gonad Nori Satoh unpublished cDNA library, gonad |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| Nori Satoh unpublished cDNA library, neural complex Nori Satoh unpublished cDNA library, neural complex |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| Nori Satoh unpublished cDNA library, heart Nori Satoh unpublished cDNA library, heart |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| Yutaka Satou unpublished cDNA library, adult digestive gland Yutaka Satou unpublished cDNA library, adult digestive gland |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| Yutaka Satou unpublished cDNA library, embryo whole animal Yutaka Satou unpublished cDNA library, embryo whole animal |
|
0 clone(s) / 17,872 |
| Yutaka Satou unpublished cDNA library, mature adult whole animal Yutaka Satou unpublished cDNA library, mature adult whole animal |
|
0 clone(s) / 107,314 |
| Nori Satoh unpublished cDNA library, juvenile whole animal Nori Satoh unpublished cDNA library, juvenile whole animal |
|
7 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) |
|
1 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) | |
25 results
Conversion to Aniseed format of Ghost database entry from Imai et al. (2004) Development 131(16).
Original annotation:
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : No distinct zygotic signal was detected
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : No distinct zygotic signal was detected.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : No distinct zygotic signal was detected.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : No distinct zygotic signal was detected.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : No distinct zygotic signal was detected.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : No distinct zygotic signal was detected.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : No distinct zygotic signal was detected.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | whole embryo - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : No distinct zygotic signal was detected.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : nervous system.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | a line neural plate - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : nervous system, nerve cord.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | anterior sensory vesicle - tail nerve cord - |
Lateral view of an early tailbud wild type embryo probed for Ci-FGF3 expression.
Numbers indicate the number of embryos showing expression over the total number of embryos analysed. 'r' indicates severely reduced expression or expression on only one side of the embryo.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | central nervous system - |
Lateral view of an early tailbud stage embryo probed for En and Fgf3/7/10/22 expression
Original annotation :
Ci-Fgf3/7/10/22 is expressed in the ventral row of the nerve cord and the posterior part of the brain.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | neck - tail nerve cord - visceral ganglion - |
View of an early tailbud embryo in which A7.4 and a7.10 cells were ablated at 64-cell stage and probed for Ci-FGF3 expression.
Numbers indicate the number of embryos showing expression over the total number of embryos analysed. 'r' indicates severely reduced expression or expression on only one side of the embryo.
Original annotation:
Removal of a7.10 together with A7.4 ('FPablated') resulted in a complete loss of FGF3 expression.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Lateral view of an early tailbud embryo in which A7.4 cells were ablated at 64-cell stage and probed for Ci-FGF3 expression.
Numbers indicate the number of embryos showing expression over the total number of embryos analysed. 'r' indicates severely reduced expression or expression on only one side of the embryo.
Original annotation:
Ventral neural tissue was not entirely absent in these embryos, as assayed by Ciona FGF3 expression, with a small domain of expression persisting in the anterior part of the central nervous system.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | visceral ganglion - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : nervous system, nerve cord, unidentifiable.
Comment : The identity of the cells in the inside of the trunk could not be determined.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | posterior sensory vesicle - tail nerve cord - visceral ganglion - |
Lateral view of a mid tailbud wild type embryo probed for Ci-FGF3 expression.
Original Annotation :
Ci-FGF3 is expressed in the ventralmost row of cells, which constitutes the rudimentary floor plate of the nerve cord in tailbud stage embryos and is located immediately above the midline of the notochord.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - ventral TNC ependymal precursors (keel cells) - |
Lateral view of a mid tailbud embryo probed for Fgf3/7/10/22 expression. Fgf3/7/10/22 is expressed along the tail nerve cord in the ventral cells derived from medial cells of A-neural plate.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | ventral TNC ependymal precursors (keel cells) - ventral VG ependymal precursors - |
Dorsal view of a mid tailbud embryo probed for Fgf3/7/10/22 expression and treated with SB431542 (Nodal inhibitor) until early gastrula stage. SB431542-treatment has little effect on Fgf3/7/10/22 expression.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | central nervous system - |
Lateral view of a mid tailbud embryo probed for Fgf3/7/10/22 expression. Fgf3/7/10/22 is expressed along the tail nerve cord in the ventral cells derived from medial cells of A-neural plate.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | neck - tail nerve cord - visceral ganglion - |
Lateral view of a mid tailbud embryo probed for Fgf3/7/10/22 expression, where Snail is overexpressed in medial lateral neural plate (electroporation of pETR>Snail). Fgf3/7/10/22 expression is strongly repressed.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Lateral view of a mid tailbud embryo probed for Fgf3/7/10/22 expression, where Nodal is overexpressed in animal territories (electroporation of pFOG>Nodal). Fgf3/7/10/22 expression is strongly repressed.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | No expression - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FGF3/7/10/22.
Expression pattern : nervous system, nerve cord, unidentifiable.
Comment : The identity of the cells in the inside of the trunk could not be determined.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | posterior sensory vesicle - tail nerve cord - visceral ganglion - |
Lateral view of a late tailbud probed for Fgf3/7/10/22 expression. Fgf3/7/10/22 is expressed along the tail nerve cord in the ventral cells derived from medial cells of A-neural plate.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | rostral trunk epidermal neurones (RTEN) - ventral TNC ependymal cells (keel cells) - |
Lateral view of a late tailbud probed for Fgf3/7/10/22 expression, following injection of Snail morpholino (Snail-MO (Imai's 25mer MO)).
Original annotation : Following injection of Snail morpholinos, Fgf3/7/10/22 remains expressed in the tail nerve chord, it was difficult to assess if ectopic expression occurred.
| Stained molecule | KH2012:KH.S406.19 (FGF10; FGF3; FGF7) |
| Stained region(s) | ventral TNC ependymal cells (keel cells) - |
