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| Status |
Public on Sep 01, 2013 |
| Title |
affy_ath_2012_05-Arabidopsis Ubiquitin-Like Proteases characterization |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by array
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| Summary |
affy_ath_2012_05 - affy_ath_2012_05 - The main objective is to determinate the influence of Ubiquitin-Like Proteases in plant transcriptional modulation. The experiment will also allow us to find what transcriptional cues are particularly affected in the mutants relatively to wild-type.-Seeds were stratified for 3 days at 4ºC in the dark. Afterwards, seeds were surface sterilized, sown onto MS media and grown at 23ºC, with 100 µE light condition, in long days (16h L/8h D). Each MS plate was dived in four, corresponding to a genotype (Col, AB, SIZ1 or SAB), and 10 seeds were sown per genotype. After 10 days, seedlings were collected and frozen in liquid nitrogen. Each replicate was made of ~40 seedlings coming from 4 different MS plates. Frozen plant material was grounded in an eppendorf tube using a mini pestle. RNA was extracted using RNeasy Plant Mini kit (QIAGEN cat.74904), following the manufacturer instructions (QIAGEN, Hilden, Germany). The RNA samples were DNase treated (Recombinant DNase I, Takara Biotechnology, Dalian, China) and subsequently cleaned by column using RNeasy Plant Mini kit (QIAGEN, Hilden, Germany).
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| Overall design |
12 arrays - ATH1; gene knock out
Col [wild type]
AB [knock out / insertional mutagen /T-Dna]
SIZ1 [knock out / insertional mutagen /T-Dna]
SAB [knock out / insertional mutagen /T-Dna]
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| Web link |
http://urgv.evry.inra.fr/CATdb
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| Contributor(s) |
Huguet S, Bejarano E, Castro P, Balzergue S, Martin-Magniette M |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jan 30, 2013 |
| Last update date |
Jun 12, 2017 |
| Contact name |
stephanie huguet |
| E-mail(s) |
huguet@evry.inra.fr
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| Organization name |
inra
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| Street address |
2 rue gaston cremieux
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| City |
evry |
| ZIP/Postal code |
91000 |
| Country |
France |
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| Platforms (1) |
| GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
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| Samples (12)
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| GSM1074047 |
COL_1 with array type ATH1 from Affymetrix |
| GSM1074048 |
SIZ_3 with array type ATH1 from Affymetrix |
| GSM1074049 |
COL_2 with array type ATH1 from Affymetrix |
| GSM1074050 |
COL_3 with array type ATH1 from Affymetrix |
| GSM1074051 |
SAB_1 with array type ATH1 from Affymetrix |
| GSM1074052 |
AB_1 with array type ATH1 from Affymetrix |
| GSM1074053 |
SAB_2 with array type ATH1 from Affymetrix |
| GSM1074054 |
AB_2 with array type ATH1 from Affymetrix |
| GSM1074055 |
AB_3 with array type ATH1 from Affymetrix |
| GSM1074056 |
SIZ_1 with array type ATH1 from Affymetrix |
| GSM1074057 |
SIZ_2 with array type ATH1 from Affymetrix |
| GSM1074058 |
SAB_3 with array type ATH1 from Affymetrix |
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| Relations |
| BioProject |
PRJNA188668 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE43883_RAW.tar |
18.7 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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