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Experiment: Carrera Bergua: Functional genomics of shoot meristem dormancy.
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-61
This experiment is an integral part of BBSRC Exploiting Genomics grant: 233/EGA16203. Functional genomics shoot meristem dormancy. Dormancy is an active state in which cell division is repressed. We are interested in the regulation of the transitions of dormancy and activity in shoot meristems in seeds. Abscisic acid (ABA) is involved in the dormancy process. Different general ABA biosynthesis and sensitivity mutants have been characterised in Arabidopsis showing reduced dormancy levels (aba1-1, abi1-1 and abi3-4) (Leon-kloosterziel et al 1996, Holdsworth et al 1999), viviparous fus3-8 mutant seeds (Baumlein et al 1994), and also seed-specific no dormant mutant seed rdo2 (koornneef et al 1996).
We will compare the transcriptome of wildtype dormant seed with those of freshly harvested seed of the non-dormant mutants abi1-1, aba1-1, rdo2 and viviparous mutant seeds fus3-8 and abi3-4. This will allow us to distinguish germination-related genes from genes specifically expressed during seed dormancy.
About the ExperimenterName: | Dr Esther Carrera Bergua |
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Head of Lab Name: | Prof Mike Holdsworth |
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Lab:
| Agricultural and Environmental Sciences |
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Institute:
| University of Nottingham |
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Address: | Sutton Bonington Campus Loughborough
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Postcode:
| LE12 5RD |
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Country:
| UK |
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| Telephone Number:
| +44 (0)115 951 6046 |
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Fax Number:
| +44 (0) 1275 394007 |
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All of the data available in this website/database is free, and you
are free to do whatever you please with it. If you intend to publish
work based on any of this data, please acknowledge us, contact the
experimenter above, and either acknowledge them or use them as
co-authors in the work.
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| About this ExperimentExperiment Type:
| genetic_modification_design |
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Number of Slides: | 36 |
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| Experimental Parameters:
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parameter | gene_knock_out |
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Quality Control Measures Taken:
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no-plants-pooled | 100 mg seed |
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References:
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| Other Information:
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Slides in this Experiment
Hybridisation Set: Carrera Begua_genome_Rep1
Slide: Carrera Begua_1-1_lar_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-4_ido_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-7_aba_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-11_abi1_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-12_abi1-Rep3_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-13_abi3_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-16_fus_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-19_rdo_Rep1_ATH1 | | |
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Tissue:
| dormant and germinating seeds |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-22_CVI-24hr-dormancy_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-25_CVI-24hr-ripening_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-28_CVI-20hr-ripening_Rep1_ATH1 | | |
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Tissue:
| 20h imbibed after-ripened seeds |
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Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 20h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-31_cts1-24hr-dormancy_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-34_cts1-24hr-ripening_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Hybridisation Set: Carrera Begua_genome_Rep2
Slide: Carrera Begua_1-2_lar_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-5_ido_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-8_aba_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-14_abi3_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-17_fus_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-20_rdo_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-23_CVI-24hr-dormancy_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-26_CVI-24hr-ripening_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 20h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-29_CVI-20hr-ripening_Rep2_ATH1 | | |
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Tissue:
| 20h imbibed after-ripened seeds |
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Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 20h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-32_cts1-24hr-dormancy_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-35_cts1-24hr-ripening_Rep2_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Hybridisation Set: Carrera Begua_genome_Rep3
Slide: Carrera Begua_1-3_lar_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-6_ido_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-9_aba_Rep3_ATH1 | | |
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Tissue:
| dormant and germinating seeds |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Fresh seeds from no-open yellow siliques were harvested and embibed for 24h in
water and 0.7% agarose, before RNA extraction. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-10_abi1_Rep1_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-15_abi3_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-18_fus_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-21_rdo_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-24_CVI-24hr-dormancy_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Plant Ontology terms for this tissue type: | |
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| | | Unknown PO Term! | Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-27_CVI-24hr-ripening_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-30_CVI-20hr-ripening_Rep3_ATH1 | | |
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Tissue:
| 20h imbibed after-ripened seeds |
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Diseased:
| Normal |
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in vivo Treatment:
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 20h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-33_cts1-24hr-dormancy_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed freshly harvested seed from undehissed yellow siliques |
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Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Prior to RNA extraction, freshly harvested seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Carrera Begua_1-36_cts1-24hr-ripening_Rep3_ATH1 | | |
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Tissue:
| 24h imbibed after-ripened seeds |
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Diseased:
| Normal |
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in vivo Treatment:
| |
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Treatment | Mature Seeds were harvested and stored under constant conditions (24C, 30 % relative humidity, dark) for two months. Prior to RNA extraction, seeds were imbibed for 24h on water-agarose media in constant light at 22C. |
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Other Information:
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|
Protocols for BioSource 1 |
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Problems? Comments? Suggestions? Contact the Affymetrix Team