WormMine: Gene WBGene00194914

• WormBase Gene ID: WBGene00194914
• Gene Name: F44D12.16
• Sequence Name: F44D12.16
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in male based on RNA-seq studies. Is affected by several genes including ash-2; hsf-1; and dpy-21 based on RNA-seq and microarray studies. Is affected by five chemicals including Tamoxifen; resveratrol; and Acrylamide based on RNA-seq and microarray studies.
• Biotype: SO:0001217
• Genetic Position: :±
• Length (nt): 948

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00194914

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:F44D12.16.1	F44D12.16.1	899	IV: 10029079-10030026

Other

1 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:F44D12.16	F44D12.16	57	IV: 10029667-10029698

5 RNAi Result

• WBRNAi00047278
• WBRNAi00047280
• WBRNAi00014928
• WBRNAi00014930
• WBRNAi00023466

21 Allele

• gk964278
• gk964078
• gk964500
• gk962765
• WBVar01795135
• WBVar01795134
• WBVar02037054
• WBVar01966874
• gk963204
• WBVar01856553
• WBVar01856556
• WBVar01856555
• WBVar01856554
• gk572032
• gk210049
• gk508612
• gk210050
• gk760688
• gk210047
• gk920915
• gk210048

1 Chromosome

• WormBase ID: IV
• Organism: Caenorhabditis elegans
• Length (nt): 17493829

1 Chromosome Location

• Feature . Primary Identifier: WBGene00194914
• Start: 10029079
• End: 10030026
• Strand: 1

2 Data Sets

• WormBaseAcedbConverter
• C. elegans genomic annotations (GFF3 Gene)

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrIV_10030027..10032971
• Length (nt): 2945
• Chromosome Location: IV: 10030027-10032971
• Organism: Caenorhabditis elegans

26 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Maternal class (M): genes that are called present in at least one of the three PC6 replicates.	A modified Welch F statistic was used for ANOVA. For each gene, regressed error estimates were substituted for observed error estimates. The substitution is justified by the lack of consistency among the most and least variable genes at each time point. Regressed error estimates were abundance-dependent pooled error estimates that represented a median error estimate from a window of genes of similar abundance to the gene of interest. A randomization test was used to compute the probability Pg of the observed F statistic for gene g under the null hypothesis that developmental time had no effect on expression. P-values were not corrected for multiple testing.	[cgc5767]:expression_class_M
	Transcripts that showed significantly decreased expression in dissected female germline comparing to in dissected male germline.	Log2 Fold change > 2 or <-1, p-value < 0.05.	WBPaper00053599:female_vs_male_downregulated
	Transcripts that showed significantly increased expression in ilc-17.1(syb5296) comparing to in N2 animals at L4 larva stage.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00066594:ilc-17.1(syb5296)_upregulated
	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
	Embryonic class (E): genes that significantly increase in abundance at some point during embryogenesis.	A modified Welch F statistic was used for ANOVA. For each gene, regressed error estimates were substituted for observed error estimates. The substitution is justified by the lack of consistency among the most and least variable genes at each time point. Regressed error estimates were abundance-dependent pooled error estimates that represented a median error estimate from a window of genes of similar abundance to the gene of interest. A randomization test was used to compute the probability Pg of the observed F statistic for gene g under the null hypothesis that developmental time had no effect on expression. P-values were not corrected for multiple testing.	[cgc5767]:expression_class_E
	Genes found to be regulated in daf-16(mgDf50) by resveratrol treatment with p < 0.01.	N.A.	WBPaper00026929:Resveratrol_regulated_daf-16
	Genes down-regulated after 24 hour exposure to colistin.	Gene lists were created using a cutoff P-value of < 0.05, 2-fold change.	WBPaper00045673:colistin_downregulated
	Maternal-embryonic class (ME): genes that are in the intersection of the maternal and embryonic classes.	A modified Welch F statistic was used for ANOVA. For each gene, regressed error estimates were substituted for observed error estimates. The substitution is justified by the lack of consistency among the most and least variable genes at each time point. Regressed error estimates were abundance-dependent pooled error estimates that represented a median error estimate from a window of genes of similar abundance to the gene of interest. A randomization test was used to compute the probability Pg of the observed F statistic for gene g under the null hypothesis that developmental time had no effect on expression. P-values were not corrected for multiple testing.	[cgc5767]:expression_class_ME
	Transcripts that showed significantly decreased expression in ash-2(RNAi) comparing to in wild type animals injected with vector.	Differential mRNA expression using DESeq2. mRNAs with a FDR < 0.05 and fold change > 2 considered differentially expressed.	WBPaper00066232:ash-2(RNAi)_downregulated_WT
Bacteria: B.subtilis	Transcripts that showed significantly increased expression when animals were fed by probiotic bacteria strain B.subtilis PXN21 comparing to animals fed with OP50 from L1 till day 1 adult.	edgeR 3.16.5, FDR < 0.05, fold change > 2.	WBPaper00059117:B.subtilis_upregulated
	Transcripts that showed significantly increased expression in hlh-26(ok1453) animals exposed to E. faecium for 8 hours, comparing to N2 animals exposed to E. faecium for 8 hours.	Fold change > 2.	WBPaper00062585:hlh-26(ok1453)_upregulated_E.faecium
	Transcripts enriched in male him-5(e1490 animals, comparing to in N2 hermaphrodite animals from L3 larva to young adult stages.	DESeq FDR < 0.01.	WBPaper00050231:male_enriched
	Genes with more than 2 fold increase of expression after 500 mg/l acrylamide treatment comparing with control.	Two-sided t-test, p < 0.005.	WBPaper00031184:acrylamide_upregulated
	Transcripts that showed significantly increased expression in hpl-2(tm1489) comparing to in N2 animals.	DESeq2, adjusted p-value < 0.05, log2 fold change > 2 or < -2.	WBPaper00054493:hpl-2(tm1489)_upregulated
	Transcripts that showed significantly decreased expression after 24 hour exposure to 20umol/l Triclosan at L4 larva stage.	Fold change > 2, p-value < 0.05.	WBPaper00051387:Triclosan_downregulated
	Transcripts that showed significantly decreased expression in animals exposed to 400uM tamoxifen from L1 to L4 larva stage.	DEseq2, fold change > 2	WBPaper00064505:tamoxifen_downregulated
	Early embryonic development gene expression profile.	QT clustering	[cgc5767]:cluster_2
	Transcripts that showed significantly decreased expression in dpy-21(e428) comparing to in N2 during L3 stage.	DESeq v1.6.3. Fold change > 1.5.	WBPaper00050370:dpy-21(e428)_L3_downregulated
	Genes that are significantly down regulated in tdp-1(ok803) poly(A) RNA-seq verses in N2.	DESeq v1.14, with cut-off p-value < 0.05 and FDR < 0.1.	WBPaper00046012:tdp-1(ok803)_downregulated
	Transcripts that showed significantly increased expression in hsf-1(RNAi) comparing to in ash-2 animals injected with vector.	Differential mRNA expression using DESeq2. mRNAs with a FDR < 0.05 and fold change > 2 considered differentially expressed.	WBPaper00066232:hsf-1(RNAi)_upregulated_ash-2
Bacteria: E.coli purE mutant	Transcripts that showed significantly increased expression in animals fed with E.coli purE mutant, comparing to animals fed with wild typr bacteria BW25113.	Differential gene expression between the C. elegans fed with purE and BW25113 were analyzed by the Huada Online Analysis Software (Dr. Tom) using read count. The fold change > 2 and Q-value < 0.05 indicated significantly different gene expressions.	WBPaper00066093:E.coli-purE_upregulated
	Embryonic (E) subclasses are based on the earliest significant increase(abbreviated pi for primary increase).	A modified Welch F statistic was used for ANOVA. For each gene, regressed error estimates were substituted for observed error estimates. The substitution is justified by the lack of consistency among the most and least variable genes at each time point. Regressed error estimates were abundance-dependent pooled error estimates that represented a median error estimate from a window of genes of similar abundance to the gene of interest. A randomization test was used to compute the probability Pg of the observed F statistic for gene g under the null hypothesis that developmental time had no effect on expression. P-values were not corrected for multiple testing.	[cgc5767]:expression_class_E_pi(83_min)
	The cluster contains genes that showed expression changes in the let-60(G12V) time course that were different than those in the wild-type time course.	A mixed procedure analysis of variation (ANOVA) was used to identify genes with significantly different expression levels (P < 0.001).	[cgc5376]:let-60(G12V)-regulated_genes
	Genome-wide analysis of developmental and sex-regulated gene expression profile.	self-organizing map	cgc4489_group_4
	Developmentally modulated gene cluster.	self-organizing map	cgc4386_cluster_1_1
	Transcripts that showed significantly increased expression in eat-2(ad465) animals treated with luc2 RNAi comparing to in wild type animals treated with luc2 RNAi.	Fold change > 2, FDR < 0.05	WBPaper00066595:eat-2(ad465)_upregulated_luc2(RNAi)

2 Expression Patterns

• Primary Identifier: Expr2021922
• Pattern: 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).

• Primary Identifier: Expr1151130
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00194914
• Start: 10029079
• End: 10030026
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 948

1 Sequence Ontology Term