- WBPaper00045618:puf-8_upregulated
DEXSeq (version 1.2.0) was used for differential expression analysis, with FDR cutoff of <0.01 and a minimum fold change requirement of 2-fold and excluded transcripts with <10 read counts.
Transcripts more abundant in puf-8(q725) fbf-1(ok91);lip-1(zh15) than in fbf-1(ok91);lip-1(zh15).
- WBPaper00045618:puf-8_downregulated
DEXSeq (version 1.2.0) was used for differential expression analysis, with FDR cutoff of <0.01 and a minimum fold change requirement of 2-fold and excluded transcripts with <10 read counts.
Transcripts less abundant in puf-8(q725) fbf-1(ok91);lip-1(zh15) than in fbf-1(ok91);lip-1(zh15).
- WBPaper00055804:FBF-1-FBF-2-associated_spermatogenic-enriched
DESeq2 v1.18.1, p < 0.01
Transcripts that bind FLAG-FBF-1 and FLAG-FBF-2 as detected by iCLIP analysis, with significantly higher expression in spermatogenic animals fem-3(q22) (JK5140 and JK5545) comparing to oogenic animals (JK5181 and JK5182).
- WBPaper00055804:FBF-1-FBF-2-associated_oogenic-enriched
DESeq2 v1.18.1, p < 0.01
Transcripts that bind FLAG-FBF-1 and FLAG-FBF-2 as detected by iCLIP analysis, with significantly lower expression in spermatogenic animals fem-3(q22) (JK5140 and JK5545) comparing to oogenic animals (JK5181 and JK5182).
- WBPaper00045618:fbf-1_upregulated
DEXSeq (version 1.2.0) was used for differential expression analysis, with FDR cutoff of <0.01 and a minimum fold change requirement of 2-fold and excluded transcripts with <10 read counts.
Transcripts more abundant in puf-8(q725) fbf-1(ok91);lip-1(zh15) than in puf-8(q725);lip-1(zh15).
- WBPaper00045618:fbf-1_downregulated
DEXSeq (version 1.2.0) was used for differential expression analysis, with FDR cutoff of <0.01 and a minimum fold change requirement of 2-fold and excluded transcripts with <10 read counts.
Transcripts less abundant in puf-8(q725) fbf-1(ok91);lip-1(zh15) than in puf-8(q725);lip-1(zh15).
- WBPaper00035905:FBF-1_Associated
SAM assigns a score to each probe set and estimates their false discovery rates (FDRs). SAM deemed 4722 probe sets as significantly enriched at an FDR of 2.25% or lower.
FBF-associated probe sets (FDR <2.25%)
- WBPaper00045217:prg-1_progressively_regulated
Genes with more than 2-fold change in expression level are considered differentially expressed.
Genes altered by more than 2-Fold in late versus early generation prg-1 mutants and prg-1; daf-2 mutants. Samples include prg-1(pk2290), prg-1(n4357), prg-1(tm872), prg-1(pk2290); daf-2(e1368), prg-1(pk2290); daf-2(e1370), prg-1(tm872); daf-2(e1370), prg-1(tm872); daf-2(m41).
- WBPaper00059609:malt-1_ilc-17.1_nfki-1_downregulated
Cufflinks (v2.2.1). q < 0.05.
Transcripts that showed significantly decreased expression in malt-1(db1194);npr-1(ad609) animals, in npr-1(ad609) ilc-17.1(tm5218) animals, and in npr-1(ad609) nfki-1(db1198) animals, comparing to the wild type control npr-1(ad609).