- WBPaper00049018:SWSN-2.2_interacting
N.A.
Proteins associated with SWSN-2.2 in young adult stage, according to co-immunoprecipitation with anti-SWSN-2.2 antibody and mass spectrometry analysis.
- WBPaper00050514:CEBP-1_interacting
CHIP-seq. Authors conducted peak calling using a CLC Genomics Workbench 6.0.
Transcripts physically interacting with CEBP-1 protein, according to CHIP-Seq analysis by immunoprecipitating FLAG-CEBP-1-associated withh DA fragments using anti-FLAG antibody.
- WBPaper00029237:CSN-5_interacting
Proteins with more than 2 peptides above a score of 40 were accepted as confident matches. In the case of proteins smaller than 10 kDa, single-peptide matches were accepted after manual validation.
Proteins immunopurified with CSN-5 antibody and considered as subunits of the CSN protein complex, according to proteomics analysis.
- WBPaper00029237:CUL-3_interacting
Proteins with more than 2 peptides above a score of 40 were accepted as confident matches. In the case of proteins smaller than 10 kDa, single-peptide matches were accepted after manual validation.
Proteins immunopurified with CUL-3 antibody and considered as subunits of the CSN protein complex, according to proteomics analysis.
- WBPaper00029237:CSN-2_interacting
Proteins with more than 2 peptides above a score of 40 were accepted as confident matches. In the case of proteins smaller than 10 kDa, single-peptide matches were accepted after manual validation.
Proteins immunopurified with CSN-2 antibody and considered as subunits of the CSN protein complex, according to proteomics analysis.
- WBPaper00037901:GLD-1_mRNA_targets
Authors calculated the mean IP enrichment from the two analyses and given a cutoff of three-fold, they identified 948 reproducibly enriched mRNAs (14.2%) from of a total of 6635 detected by the array.
948 reproductively enriched mRNAs that co-immunoprecipitate with GLD-1. To identify GLD-1 mRNA targets, authors performed immunoprecipitation (IP) of GLD-1, followed by microarray analysis of the co-IPed mRNAs (RIP-chip). Extracts from young adult transgenic worms expressing a rescuing FLAG and GFP-tagged GLD-1, hereafter referred to as tagged GLD-1, were subjected to IP in triplicate with anti-FLAG (aFLAG IP) or anti-MYC (aMYC IP) antibodies as controls. Comparison of aFLAG IP versus aMYC IP to input revealed a large population of GLD-1-associated transcripts. Authors additionally performed complementary aFLAG IPs upon worms expressing either tagged GLD-1(GGF IP) or non-tagged GLD-1(N2 IP). Comparing transcript 'IP-enrichment values' from both approaches revealed a correlation of 0.96, which indicated high reproducibility of GLD-1 association with specific mRNAs even on a quantitative level.