Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:C35B1.9.1 | C35B1.9.1 |
342
 |
IV: 4080148-4080946 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:C35B1.9 | C35B1.9 |
240
|
IV: 4080196-4080277 |
11 Allele
| Public Name |
|---|
| gk963722 |
| gk963908 |
| WBVar02111380 |
| WBVar01630600 |
| gk881925 |
| WBVar01649670 |
| WBVar01649671 |
| gk429713 |
| WBVar02020501 |
| WBVar01953640 |
| gk199403 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00195006 | 4080148 | 4080946 | -1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrIV_4080147..4080147 | 1 | IV: 4080147-4080147 | Caenorhabditis elegans |
9 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Genes found to be regulated by low-copy overexpression of sir-2.1 with p < 0.014. | N.A. | WBPaper00026929:sir-2.1_overexpression_regulated | |
| Transcripts that showed significantly increased expression in set-2(zr2012) animals at embryo stage, comparing to in N2 animals. | DESeq2 (v2.1.8.3) was used to determine DE genes and to generate principal component and scatter plots. DE genes with FDR < 0.05 were analysed using g:Profiler with Bonferroni correction. | WBPaper00060014:set-2(zr2012)_upregulated | |
| Genes found to be regulated in daf-16(mgDf50) by resveratrol treatment with p < 0.01. | N.A. | WBPaper00026929:Resveratrol_regulated_daf-16 | |
| siRNAs that showed significantly lower expression (log2fold > 2, padj < 0.01) in hermaphrodite gonad (somatic gonad plus germine) than in male gonad (somatic gonad plus germine). | DESeq2 v1.13.8, fold change > 2, FDR < 0.01. | WBPaper00056161:male_enriched_siRNA | |
| Transcripts that showed significantly increased expression in eat-2(ad465) comparing to in N2. | Student's t-test, fold change > 2, p-value < 0.05. | WBPaper00055386:eat-2(ad465)_upregulated | |
| Bacteria Diet: L. plantarum with pdxH mutant vs. L. plantarum | Transcripts that showed significantly decreased expression in N2 animals fed with L. plantarum with pdxH mutant, comparing to in N2 animals fed with L. plantarum. | GFold3, logFC < -1 or > 1. | WBPaper00066703:L.plantarum-pdxH_downregulated |
| Genome-wide analysis of developmental and sex-regulated gene expression profile. | self-organizing map | cgc4489_group_9 | |
| Transcripts that showed significantly decreased expression in adr-1(tm668) comparing to in N2 at L4 larva stage. | DESeq2, fold change > 2, FDR < 0.05. | WBPaper00066511:adr-1(tm668)_downregulated | |
| Transcripts that showed significantly decreased expression in his-3(RNAi) comparing to in vector control animals. | The limma package47 was used for differential expression. Genes with a Benjamini-Hochberg adjusted P-value <0.05 and an absolute log fold change of 2 were considered differentially expressed. | WBPaper00053402:his-3(RNAi)_downregulated |
3 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr1145970 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 | |||
| Expr2019655 | Single cell embryonic expression. Only cell types with an expression fraction of greater 0.2 of the maximum expressed fraction are labeled (Full data can be downloaded from http://caltech.wormbase.org/pub/wormbase/datasets-published/packer2019/). The colors represent the broad cell class to which the cell type has been assigned. The size of the point is proportional to the log2 of the numbers of cells in the dataset of that cell type. Interactive visualizations are available as a web app (https://cello.shinyapps.io/celegans/) and can also be installed as an R package (https://github.com/qinzhu/VisCello.celegans). | |||
| Expr2001432 | Single cell embryonic expression. Only cell types with an expression fraction of greater 0.2 of the maximum expressed fraction are labeled (Full data can be downloaded from http://caltech.wormbase.org/pub/wormbase/datasets-published/packer2019/). The colors represent the broad cell class to which the cell type has been assigned. The size of the point is proportional to the log2 of the numbers of cells in the dataset of that cell type. Interactive visualizations are available as a web app (https://cello.shinyapps.io/celegans/) and can also be installed as an R package (https://github.com/qinzhu/VisCello.celegans). |