|
| Status |
Public on Jun 09, 2009 |
| Title |
SNEP: Simultaneous detection of nucleotide and expression polymorphisms using Affymetrix GeneChip |
| Platform organism |
Oryza sativa |
| Sample organisms |
Oryza sativa Indica Group; Oryza sativa Japonica Group |
| Experiment type |
Expression profiling by array
|
| Summary |
Nucleotide polymorphisms can potentially influence the hybridization of mRNA to 25-mer oligonucleotides. Because Affymetrix Rice Genome Array was designated mainly for Nipponbare genome of Oryza sativa, the expression level of other varieties could not be estimated correctly. We tried to apply new approaches to estimate expression level by discerning the probe-level differential hybridization.
|
| |
|
| Overall design |
Nipponbare and 93-11 replicates were analyzed.
|
| |
|
| Contributor(s) |
Horiuchi Y, Harushima Y, Kurata N |
| Citation(s) |
19419536 |
| |
| Submission date |
May 28, 2009 |
| Last update date |
Dec 27, 2017 |
| Contact name |
Nori Kurata |
| E-mail(s) |
[email protected]
|
| Phone |
+81-55-981-6808
|
| Fax |
+81-55-981-6879
|
| Organization name |
National Institute of Genetics
|
| Lab |
Plant Genetics Lab.
|
| Street address |
1111 Yata
|
| City |
Mishima |
| ZIP/Postal code |
411-8540 |
| Country |
Japan |
| |
|
| Platforms (1) |
| GPL2025 |
[Rice] Affymetrix Rice Genome Array |
|
| Samples (10)
|
| GSM409421 |
Nipponbare_young panicle 2cm, biological rep1 |
| GSM409422 |
Nipponbare_young panicle 2cm, biological rep2 |
| GSM409427 |
Nipponbare_young panicle 2cm, biological rep3 |
| GSM409428 |
Nipponbare_young panicle 2cm, biological rep4 |
| GSM409429 |
Nipponbare_young panicle 2cm, biological rep5 |
| GSM409430 |
9311_young panicle 2cm, biological rep1 |
| GSM409431 |
9311_young panicle 2cm, biological rep2 |
| GSM409432 |
9311_young panicle 2cm, biological rep3 |
| GSM409433 |
9311_young panicle 2cm, biological rep4 |
| GSM409434 |
9311_young panicle 2cm, biological rep5 |
|
| Relations |
| BioProject |
PRJNA115105 |
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