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| Status |
Public on Sep 21, 2010 |
| Title |
RIP-chip analysis of the C. elegans GLD-2 and RNP-8 protein |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Other
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| Summary |
C. elegans GLD-2 forms an active PAP with multiple RNA-binding partners to regulate diverse aspects of germline and early embryonic development. One GLD-2 partner, RNP-8, was previously shown to influence oocyte fate specification. To identify transcripts selectively associated with both GLD-2 and RNP-8, we employ a genomic approach using the method of RNA immunoprecipitation followed by microarray analysis (RIP-chip).
We used microarrays to identify mRNAs selectively associated with either GLD-2 or RNP-8.
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| Overall design |
Worm extracts were prepared from synchronized adult C. elegans (15 h after L4 stage). For GLD-2 IP, an immoblized anti-GLD-2 antibody was then used to purify the GLD-2 complexes from either wild-type (N2) or gld-2(RNAi) worm extracts. RNA was then extracted from the pellets and analyzed on C.elegans Affymetrix genechip. Four biological replicates were performed, each sample processed in parallel. For RNP-8 IP, an immoblized anti-RNP-8 antibody was then used to purify the RNP-8 complexes from either wild-type (N2) or rnp-8(q784) worm extracts and three biological replicates were performed. For wt or gld-2(RNAi) samples, total RNA was extracted from worm extracts and hybridized on C.elegans Affymetrix genechip.
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| Contributor(s) |
Kim KW, Kimble J |
| Citation(s) |
20855596 |
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| Submission date |
Aug 27, 2010 |
| Last update date |
Jul 06, 2016 |
| Contact name |
Judith Kimble |
| E-mail(s) |
jekimble@wisc.edu
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| Phone |
608-262-6188
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| Fax |
608-265-5820
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| Organization name |
University of Wisconsin-Madison
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| Department |
HHMI / Biochemistry
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| Street address |
433 Babcock Drive
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| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53706-1544 |
| Country |
USA |
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| Platforms (1) |
| GPL200 |
[Celegans] Affymetrix C. elegans Genome Array |
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| Samples (21)
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| GSM587853 |
GLD-2 wt-IP, biological replicate 1 |
| GSM587854 |
GLD-2 wt-IP, biological replicate 2 |
| GSM587855 |
GLD-2 wt-IP, biological replicate 3 |
| GSM587856 |
GLD-2 wt-IP, biological replicate 4 |
| GSM587857 |
GLD-2 gld-2(RNAi)-IP, biological replicate 1 |
| GSM587858 |
GLD-2 gld-2(RNAi)-IP, biological replicate 2 |
| GSM587859 |
GLD-2 gld-2(RNAi)-IP, biological replicate 3 |
| GSM587860 |
GLD-2 gld-2(RNAi)-IP, biological replicate 4 |
| GSM587861 |
RNP-8 wt-IP, biological replicate 1 |
| GSM587862 |
RNP-8 wt-IP, biological replicate 2 |
| GSM587863 |
RNP-8 wt-IP, biological replicate 3 |
| GSM587864 |
RNP-8 rnp-8(q784)-IP, biological replicate 1 |
| GSM587865 |
RNP-8 rnp-8(q784)-IP, biological replicate 2 |
| GSM587866 |
RNP-8 rnp-8(q784)-IP, biological replicate 3 |
| GSM587867 |
wild-type total RNA, biological replicate 1 |
| GSM587868 |
wild-type total RNA, biological replicate 2 |
| GSM587869 |
wild-type total RNA, biological replicate 3 |
| GSM587870 |
wild-type total RNA, biological replicate 4 |
| GSM587871 |
gld-2(RNAi), biological replicate 1 |
| GSM587872 |
gld-2(RNAi), biological replicate 2 |
| GSM587873 |
gld-2(RNAi), biological replicate 3 |
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| Relations |
| BioProject |
PRJNA130659 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE23843_RAW.tar |
41.8 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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