- WBPaper00065623:59
CellRanger, DecontX, Monocle3, Louvain algorithm.
Single-cell RNA-Seq cell group 59 expressed in: Uterine muscle .
- WBPaper00064624:iHg-induced_aggregome
N.A.
Proteins that aggregated specifically because of exposure to inorganic mercury. Day 1 adult animals were exposed to inorganic mercury for 24 hours. Authors identified 89 proteins that aggregated specifically in iHg-exposed C.elegans, whereas 59 proteins aggregated independently of iHg exposure. This expression cluster is iHg epecific.
- WBPaper00028802:intestine_unique
To select a set of genes that are candidates to be expressed strongly and exclusively in the intestine, authors consider only genes for which the I/S tag ratio >= 3 and for which the tag number in the intestine library is >= 50. One hundred genes meet these two criteria. Twenty of these 100 genes encode ribosomal proteins or are involved in ribosome assembly, suggesting that the intestine persists as the major site of ribosome synthesis in the adult worm. However, because most ribosomal protein genes are unique in the genome and therefore must be widely expressed at other developmental stages, these genes were removed from the list to leave the set of 80 highly-expressed intestine-specific or intestine-enriched (non-ribosomal) genes.
Genes with unique expression in intestine, according to SAGE analysis on dissected intestine.
- WBPaper00062056:lin-37(n758)_upregulated
A gene model was built based on the WS260 annotation. Tag counts for each gene were extracted from STAR aligned BAM files, anddifferential gene expression between N2 and mutant backgrounds was tested using DESeq2. A false discovery rate(FDR) < 0.01 and LFC > 0.5849 was used to define genes as upregulated, and FDR < 0.01 and LFC < -1 was used to define genes asdownregulated.
Transcripts that showed significantly increased expression in lin-37(n758) comparing to in N2 animals at starved L1 larva stage.
- WBPaper00062056:dpl-1(n2994)_downregulated
A gene model was built based on the WS260 annotation. Tag counts for each gene were extracted from STAR aligned BAM files, anddifferential gene expression between N2 and mutant backgrounds was tested using DESeq2. A false discovery rate(FDR) < 0.01 and LFC > 0.5849 was used to define genes as upregulated, and FDR < 0.01 and LFC < -1 was used to define genes asdownregulated.
Transcripts that showed significantly decreased expression in dpl-1(n2994) comparing to in N2 animals at starved L1 larva stage.
- WBPaper00062056:efl-1(se1)_downregulated
A gene model was built based on the WS260 annotation. Tag counts for each gene were extracted from STAR aligned BAM files, anddifferential gene expression between N2 and mutant backgrounds was tested using DESeq2. A false discovery rate(FDR) < 0.01 and LFC > 0.5849 was used to define genes as upregulated, and FDR < 0.01 and LFC < -1 was used to define genes asdownregulated.
Transcripts that showed significantly decreased expression in efl-1(se1) comparing to in N2 animals at starved L1 larva stage.
- WBPaper00062056:lin-35(n745)_downregulated
A gene model was built based on the WS260 annotation. Tag counts for each gene were extracted from STAR aligned BAM files, anddifferential gene expression between N2 and mutant backgrounds was tested using DESeq2. A false discovery rate(FDR) < 0.01 and LFC > 0.5849 was used to define genes as upregulated, and FDR < 0.01 and LFC < -1 was used to define genes asdownregulated.
Transcripts that showed significantly decreased expression in lin-35(n745) comparing to in N2 animals at starved L1 larva stage.
- WBPaper00062056:lin-36(we31)_downregulated
A gene model was built based on the WS260 annotation. Tag counts for each gene were extracted from STAR aligned BAM files, anddifferential gene expression between N2 and mutant backgrounds was tested using DESeq2. A false discovery rate(FDR) < 0.01 and LFC > 0.5849 was used to define genes as upregulated, and FDR < 0.01 and LFC < -1 was used to define genes asdownregulated.
Transcripts that showed significantly decreased expression in lin-36(we31) comparing to in N2 animals at starved L1 larva stage.
- WBPaper00062056:lin-37(n758)_downregulated
A gene model was built based on the WS260 annotation. Tag counts for each gene were extracted from STAR aligned BAM files, anddifferential gene expression between N2 and mutant backgrounds was tested using DESeq2. A false discovery rate(FDR) < 0.01 and LFC > 0.5849 was used to define genes as upregulated, and FDR < 0.01 and LFC < -1 was used to define genes asdownregulated.
Transcripts that showed significantly decreased expression in lin-37(n758) comparing to in N2 animals at starved L1 larva stage.