- WBPaper00065623:21
CellRanger, DecontX, Monocle3, Louvain algorithm.
Single-cell RNA-Seq cell group 21 expressed in: Mitotic germ cells .
- WBPaper00060661:hypoxia_downregulated
Fold change > 2, p-value < 0.05.
Transcripts that showed significantly decreased expression at animals treated with 7% oxygen, comparing to animals grown at 21% oxygen.
- WBPaper00060661:hypoxia_upregulated
Fold change > 2, p-value < 0.05.
Transcripts that showed significantly increased expression at animals treated with 7% oxygen, comparing to animals grown at 21% oxygen.
- WBPaper00050801:DPY-21_dauer_regulome
Authors identified genes differentially expressed between wild-type and eak-7;akt-1 double mutant animals [fold change >= 1.5 and false discovery rate (FDR) < 0.05]. Authors then compared the transcriptomes of eak-7;akt-1 double mutants to those of eak-7;akt-1 animals harboring mutations in dpy-21, set-4, daf-16, or daf-12, and identified genes that are differentially expressed in the opposite direction as in wild-type relative to eak-7;akt-1. Annotated gene expression data output from CuffDiff v2.2.1 was read into R version 3.2.1 for six comparisons: eak-7;akt-1 compared to (1) wild-type, (2) daf-16(mu86);eak-7;akt-1, (3) daf-12;eak-7;akt-1, (4) set-4(n4600);eak-7;akt-1, (5) set-4(dp268);eak-7;akt-1, and (6) dpy-21;eak-7;akt-1. Authors filtered genes by the following criteria: (1) status = OK for wild-type vs. eak-7;akt-1, (2) fold change (FC) >= 1.5 or FC <= 1/1.5 for wild-type vs. eak-7;akt-1 and (3) FDR < 0.05 for at least two separate comparisons.
Genes regulated by DPY-21, according to whole transcriptome profiling to compare genome-wide regulatory influences of DPY-21 and SET-4 to those of the key transcription factors controlling dauer arrest in eak-7;akt-1 animals, DAF-16 and DAF-12.