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Status |
Public on Aug 21, 2015 |
Title |
LB_OP_M_V_D4_R1 |
Sample type |
RNA |
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Source name |
Drosophila mojavensis LB09
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Organism |
Drosophila mojavensis |
Characteristics |
genotype: Wild-type phenotype: normal population: Las Bocas, Sonora host diet: Organ Pipe gender: male group: virgin length of egg to adult development time: 17 day DEVT tissue: whole organism
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Growth protocol |
Bottle cultures were established at moderate larval densities to minimize nutritionally caused maternal/environmental effects from the vial cultures and maintained in an incubator programmed on a 14:10 LD photoperiod that cycled from 27° to 17° C.
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Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA). Invitrogen Superscript Double-Stranded cDNA Synthesis kits were used to synthesize double-stranded cDNA. Each cDNA sample was quantified using a NanoDrop spectrophotometer (NanoDrop Technologies).
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Label |
Cy3
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Label protocol |
cDNA samples were labeled with Cy3 using a NimbleGen (Roche Diagnostics) One Color DNA Labeling kit.
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Hybridization protocol |
Hybridizations with custom NimbleGen 12-plex microarrays were performed with a NimbleGen Hybridization System 4.
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Scan protocol |
Array scanning was performed with a GenePix 4000B scanner (Molecular Devices) and associated software at 532 nm, with photomultiplier gain settings that resulted in less than one in 105 normalized counts at saturation.
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Description |
This sample is of wild-type Drosophila mojavensis originally from Las Bocas, Sonora. These virgin males were raised on fermented Organ pipe cactus. 17 days DEVT flies were collected.
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Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
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Submission date |
Aug 20, 2015 |
Last update date |
Aug 25, 2015 |
Contact name |
Allen G. Gibbs |
E-mail(s) |
allen.gibbs@unlv.edu
|
Phone |
702-895-3203
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Organization name |
University of Nevada
|
Department |
School of Life Sciences
|
Lab |
Gibbs Lab
|
Street address |
4505 S Maryland Parkway
|
City |
Las Vegas |
State/province |
Nevada |
ZIP/Postal code |
89154 |
Country |
USA |
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Platform ID |
GPL16433 |
Series (1) |
GSE72231 |
Preadult life history variation determines adult transcriptome expression |
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