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Status |
Public on Jul 14, 2008 |
Title |
Global Analysis of the Drosophila NELF complex |
Organism |
Drosophila melanogaster |
Experiment type |
Expression profiling by array
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Summary |
To determine the physiological targets of the NELF complex, and provide insight into the mechanism of NELF activity in vivo. Keywords: gene expression, transcription elongation, stress response
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Overall design |
Drosophila melanogaster S2 cells, obtained from the Drosophila Genomics Resource Center, were untreated, or treated with dsRNA for 72 hours, as described in Armknecht, S. et al. (2005) Methods in Enzymology, 392: pp. 55-73. Total RNA was then extracted using the RNeasy RNA extraction kit, with on column DNAse digestion (Qiagen), according to manufacturer’s protocol. Gene expression analysis was conducted using Drosophila Genome 2.0 Genechip® arrays (Affymetrix, Santa Clara, CA). Starting with 1ug of total RNA, biotin-labeled cRNA was produced using the Affymetrix 3’ Amplification One-Cycle Target labeling kit according to manufacturer’s protocol. For each array, 10ug of amplified cRNAs were fragmented and hybridized to the array for 16 hours in a rotating hybridization oven using the Affymetrix Eukaryotic Target Hybridization Controls and protocol. Slides were stained and washed as indicated in the Antibody Amplification Stain for Eukaryotic Targets protocol using the Affymetrix Fluidics Station FS450. Arrays were then scanned with an Affymetrix Scanner 3000 and data was obtained using the Genechip® Operating Software (Version 1.2.0.037) and imported into the Rosetta Resolver system (Version 6.0).
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Contributor(s) |
Gilchrist DA, Lee C, Collins J, Ghosh S, Gilmour DS, Adelman K |
Citation(s) |
18628398 |
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Submission date |
Oct 26, 2006 |
Last update date |
Aug 28, 2018 |
Contact name |
NIEHS Microarray Core |
E-mail(s) |
microarray@niehs.nih.gov, liuliw@niehs.nih.gov
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Organization name |
NIEHS
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Department |
DIR
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Lab |
Microarray Core
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Street address |
111 T.W. Alexander Drive
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City |
RTP |
State/province |
NC |
ZIP/Postal code |
27709 |
Country |
USA |
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Platforms (1) |
GPL1322 |
[Drosophila_2] Affymetrix Drosophila Genome 2.0 Array |
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Samples (9)
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GSM142334 |
LacZ treated 0610_Dm_S2_LacZ-treated_1 |
GSM142335 |
LacZ treated 0610_Dm_S2_LacZ-treated_3 |
GSM142336 |
LacZ treated 0610_Dm_S2_LacZ-treated_2 |
GSM142337 |
NELF depleted 0610_Dm_S2_NELF-depleted_3 |
GSM142338 |
NELF depleted 0610_Dm_S2_NELF-depleted_1 |
GSM142339 |
NELF depleted 0610_Dm_S2_NELF-depleted_2 |
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Relations |
BioProject |
PRJNA97699 |
Supplementary file |
Size |
Download |
File type/resource |
GSE6141_RAW.tar |
17.6 Mb |
(http)(custom) |
TAR (of CEL) |
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