Baugh et al 2003, class MDET, 44 genes Gene list file name: Baugh2003_classMDET.txt Type of gene identifier: Affymetrix custom chip Description: Baugh et al 2005, Supplymental Dataset, class MDET Organism: Caenorhabditis elegans (nematode) Gene list type: Experimental Gene name Source Gene ID All gene names WormBase description WormBase CDS description Proteome description Member of lists (Publications) Other annotations AFF_F21H12.1 Aff_F21H12.1 B0303.7 Aff_B0303.7 B0303.7; 3J787; CE36521; WBGene00015128; WP:CE36521 Neutrophil oxidase factor McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, ViswanathanM et al 2005 S2 sir-2.1 regulated C03D6.4 Aff_C03D6.4 npp-14; C03D6.4; 1K238; CE05198; CeNup214; NM_060167; WBGene00003800; WP:CE05198 npp-14 is orthologous to the human gene NUCLEOPORIN, 214-KD (NUP214; OMIM:114350), which encodes part of the nucleopore complex mediating nucleocytoplasmic transport; NUP214, as a fusion gene with DEK (OMIM:125264), is found in a subset of acute myeloid leukemia. nucleoporin McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, list of genes in cluster F, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, oogenesis enriched genes, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, wt herm vs wt male enriched gen, ViswanathanM et al 2005 S2 daf-16 Resveratrol, ViswanathanM et al 2005 S2 sir-2.1 regulated C04F5.9 Aff_C04F5.9 C04F5.9; 5F594; CE19673; WBGene00015451; WP:CE19673 Reinke et al 2004, intrinsic, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, wt herm vs wt male enriched gen, ViswanathanM et al 2005 S2 sir-2.1 regulated C07G1.5 Aff_C07G1.5 hgrs-1; pqn-9; C07G1.5; 4I966; CE32574; NM_068974; WBGene00004101; WP:CE32574 The protein product of this gene is predicted to contain a glutamine/asparagine (Q/N)-rich ('prion') domain, by the algorithm of Michelitsch and Weissman (as of the WS77 release of WormBase, i.e., in wormpep77). McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, ViswanathanM et al 2005 S2 sir-2.1 regulated C35B8.3 Aff_C35B8.3 C35B8.3; C35B8.3a.1; C35B8.3a.2; CE02536; CE27827; WBGene00016438; WP:CE02536; WP:CE27827; XJ835 McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, herm soma enriched genes, ViswanathanM et al 2005 S2 daf-16 Resveratrol C38D4.6 Aff_C38D4.6 ceh-3; nob-2; pal-1; C38D4.6; C38D4.6a.1; C38D4.6a.2; C38D4.6b.1; C38D4.6b.2; 3F896; CE05383; CE27837; NM_065590; WBGene00003912; WP:CE05383; WP:CE27837 pal-1 encodes a homeodomain protein that is the C. elegans Caudal ortholog; PAL-1 is required maternally and embryonically for cell fate specification and posterior patterning during embryogenesis; PAL-1 is also required postembryonically for fate specification of the posterior V6 neuroectoblast during male tail development; PAL-1 is expressed in posterior blastomeres beginning at the four-cell stage of embryogenesis and its expression continues during embryogenesis in posterior-derived tissues and cells undergoing movement or forming midline structures; pal-1 is subject to both transcriptional and translational regulation. Baugh et al 2005, validated PAL-1 target genes, Baugh et al 2005, PAL-1 target genes, Jones et al 2001 Non dauer genes P<0.05, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, oogenesis enriched genes, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, list of genes in cluster E C44B9.3 Aff_C44B9.3 C44B9.3; 3L966; CE05405; WBGene00008080; WP:CE05405 Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, oogenesis enriched genes, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, list of genes in cluster E, ViswanathanM et al 2005 S2 sir-2.1 regulated C45B11.1 Aff_C45B11.1 pak-4; tag-66; C45B11.1; 5L518; CE05425; CE20564; WBGene00006443; WP:CE05425; WP:CE20564 P21-Rho-binding domain ; Eukaryotic protein kinase domain Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, oogenesis enriched genes, Reinke et al 2004, wt herm vs wt male enriched gen, ViswanathanM et al 2005 S2 sir-2.1 regulated C46H3.2 Aff_C46H3.2 C46H3.2; C46H3.2b.1; C46H3.2b.2; CE29228; CE33921; WBGene00016725; WP:CE29228; WP:CE33921; XB832 tyrosine-protein kinase McCarroll et al 2004 SFig1-4 conserved w/ Drosoph F01F1.8 Aff_F01F1.8 cct-6; F01F1.8; F01F1.8a.1; F01F1.8a.2; F01F1.8b.1; F01F1.8b.2; F01F1.8b.3; 3G944; CE01234; CE30647; NM_171135; NM_171136; WBGene00000381; WP:CE01234; WP:CE30647 eukaryotic cytosolic chaperonin; affects viability and fertility, and is expressed in various muscle and neuronal cells: near the pharynx, near the anal sphincter, in the ventral nerve cord and the nerve ring; occasionally the expression is visible in hypodermal cells and in some vulval cells. McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, oogenesis enriched genes, ViswanathanM et al 2005 S2 sir-2.1 regulated F02E9.7 Aff_F02E9.7 F02E9.7; 1I991; CE09190; WBGene00008531; WP:CE09190 acid phosphatase Reinke et al 2004, intrinsic, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, GO categories, Reinke et al 2004, list of genes in cluster E, ViswanathanM et al 2005 S2 sir-2.1 regulated, ViswanathanM et al 2005 S2 daf-16 Resveratrol F11G11.7 Aff_F11G11.7 dnj-9; F11G11.7; 2F149; CE07060; NM_062471; WBGene00001027; WP:CE07060 This gene encodes a protein containing a DnaJ ('J') domain. McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, herm soma enriched genes, ViswanathanM et al 2005 S2 sir-2.1 regulated, Wang et al 2003 S4 Early genes, Wang et al 2003 S3 genes pass one-way ANOVA, Wang et al 2003 S4 genes pass two-wayANOVA P0 F17A9.2 Aff_F17A9.2 F17A9.2; 5G593; CE19798; WBGene00017534; WP:CE19798 McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, list of genes in cluster F, Reinke et al 2004, list of genes in cluster order, Wang et al 2003 S5 genes common to feeding ANOVA, Wang et al 2003 S3 genes pass one-way ANOVA F20D1.3 Aff_F20D1.3 F20D1.3; F20D1.3.1; F20D1.3.2; CE31486; WBGene00008975; WP:CE31486; XP595 F22F7.1 Aff_F22F7.1 F22F7.1; F22F7.1a.1; F22F7.1a.2; 5C603; CE17691; CE32871; WBGene00017719; WP:CE17691; WP:CE32871 McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, herm soma enriched genes, ViswanathanM et al 2005 S2 sir-2.1 regulated F26F4.3 Aff_F26F4.3 rom-1; F26F4.3; 3F995; CE32392; NM_065628; WBGene00004400; WP:CE32392 McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, mixed oogenesis soma, ViswanathanM et al 2005 S2 sir-2.1 regulated, ViswanathanM et al 2005 S2 daf-16 Resveratrol F29C4.7 Aff_F29C4.7 F29C4.7; F29C4.7a.1; F29C4.7a.2; F29C4.7b.1; F29C4.7b.2; 4A876; CE17724; CE31493; CE37226; WBGene00017929; WP:CE17724; WP:CE31493; WP:CE37226 F29C4.7 is orthologous to human RBM15 (OMIM:606077, mutated in infantile acute megakaryoblastic leukemia) and Drosophila NITO; F29C4.7 encodes a paralog of DIN-1; like DIN-1, it has N-terminal RNA recognition motifs (RRMs) and a C-terminal SID/RD (SMRT interaction domain/repressor) domain. McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, mixed oogenesis soma, Reinke et al 2004, GO categories, ViswanathanM et al 2005 S2 sir-2.1 regulated F40F9.7 Aff_F40F9.7 F40F9.7; F40F9.7a.1; F40F9.7a.2; F40F9.7b.1; F40F9.7b.2; F40F9.7b.3; F40F9.7b.4; 5K213; CE05856; CE33580; WBGene00009584; WP:CE05856; WP:CE33580 McCarroll et al 2004 SFig1-4 conserved w/ Drosoph F42H11.2 Aff_F42H11.2 lem-3; F42H11.2; F42H11.2.1; F42H11.2.2; 1K156; CE10332; NM_060138; WBGene00002276; WP:CE10332 ankyrin domain Reinke et al 2004, intrinsic, Reinke et al 2004, list of genes in cluster F, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, GO categories, ViswanathanM et al 2005 S2 sir-2.1 regulated, ViswanathanM et al 2005 S2 daf-16 Resveratrol F43G9.12 Aff_F43G9.12 F43G9.12; 1J219; CE17822; WBGene00009672; WP:CE17822 Human GC-rich sequence DNA-binding factor (GCF) like Jones et al 2001 Non dauer genes P<0.05, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, intrinsic, Reinke et al 2004, list of genes in cluster F, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, wt herm vs wt male enriched gen F44E2.8 Aff_F44E2.8 F44E2.8; 3J938; CE32420; WBGene00018421; WP:CE32420 Jones et al 2001 Non dauer genes P<0.05, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, Fig2b shared gemlines, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, oogenesis enriched genes, Reinke et al 2004, wt males vs glp4 male enriched , Reinke et al 2004, wt herm vs wt male enriched gen, ViswanathanM et al 2005 S2 sir-2.1 regulated F49C12.11 Aff_F49C12.11 F49C12.11; F49C12.11.1; F49C12.11.2; 4K83; CE03371; WBGene00009880; WP:CE03371 ViswanathanM et al 2005 S2 sir-2.1 regulated F49C12.9 Aff_F49C12.9 F49C12.9; 4K80; CE10780; WBGene00009878; WP:CE10780 Reinke et al 2004, list of genes in cluster F, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, oogenesis enriched genes, ViswanathanM et al 2005 S2 sir-2.1 regulated F54D8.3 Aff_F54D8.3 alh-1; F54D8.3; F54D8.3a.1; F54D8.3a.2; F54D8.3b.1; F54D8.3b.2; F54D8.3b.3; 3G169; CE29809; CE32434; NM_065680; NM_181921; WBGene00000107; WP:CE29809; WP:CE32434 alh-1 is orthologous to the human gene ALDEHYDE DEHYDROGENASE 2, MITOCHONDRIAL (ALDH2; OMIM:100650), in which a polymorphism can lead to acute ethanol intolerance. McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, list of genes in cluster A, Reinke et al 2004, list of genes in cluster order, ViswanathanM et al 2005 S2 sir-2.1 regulated, Wang et al 2003 S4 Early genes, Wang et al 2003 S3 genes pass one-way ANOVA, Wang et al 2003 S4 genes pass two-wayANOVA P0 K02B2.1 Aff_K02B2.1 K02B2.1; 4G707; CE30082; WBGene00019295; WP:CE30082 6-phosphofructo-2-kinase Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, mixed oogenesis soma, Reinke et al 2004, list of genes in cluster E, ViswanathanM et al 2005 S2 daf-16 Resveratrol K07B1.4 Aff_K07B1.4 K07B1.4; K07B1.4b.1; K07B1.4b.2; 5J811; CE11882; CE27391; WBGene00019464; WP:CE11882; WP:CE27391 McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, McElwee et al 2003 T1 targets of daf-16, Murphy et al 2003 Fig2 Class1 elongate lifespan, Reinke et al 2004, wt herm vs wt male enriched gen, ViswanathanM et al 2005 S2 sir-2.1 regulated M01D7.4 Aff_M01D7.4 tag-96; M01D7.4; 1C323; CE36705; WBGene00006461; WBGene00019707; WP:CE36705 galactokinase McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph R05F9.6 Aff_R05F9.6 R05F9.6; 2F181; CE04809; WBGene00019890; WP:CE04809 This gene encodes a protein predicted by Eisenberg and coworkers, with 68% accuracy, to be mitochondrial. phosphoglucomutase McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, mixed oogenesis soma, Reinke et al 2004, GO categories, ViswanathanM et al 2005 S2 sir-2.1 regulated, Wang et al 2003 S3 genes pass one-way ANOVA, Wang et al 2003 S4 genes pass two-wayANOVA P0, Wang et al 2003 S4 Dauer Enriched R09B3.4 Aff_R09B3.4 ubc-12; R09B3.4; 1M503; CE16309; NM_060623; WBGene00006707; WP:CE16309 The ubc-12 gene encodes a ubiquitin-conjugating enzyme whose substrate is NED-8, and which is required for both embryogenesis and terminal hypodermal differentiation; ubc-12(RNAi) mutants either arrest during embryonic development or show pleotropic defects (e.g., vulval eversion during the L4 stage), as well as defective alae. Ubiquitin-conjugating enzymes ViswanathanM et al 2005 S2 sir-2.1 regulated R10E11.3 Aff_R10E11.3 R10E11.3; R10E11.3a.1; R10E11.3a.2; 3K867; CE23922; CE23923; WBGene00011216; WP:CE23922; WP:CE23923 Ubiquitin-specifc processing protease Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, oogenesis enriched genes, Reinke et al 2004, wt herm vs wt male enriched gen R13G10.2 Aff_R13G10.2 amx-1; R13G10.2; 3E915; CE25088; NM_065371; WBGene00000137; WP:CE25088 monoamine oxidase Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, mixed oogenesis soma, Reinke et al 2004, list of genes in cluster E, ViswanathanM et al 2005 S2 sir-2.1 regulated, ViswanathanM et al 2005 S2 daf-16 Resveratrol T03F1.3 Aff_T03F1.3 T03F1.3; 1E435; CE13100; WBGene00020185; WP:CE13100 T03F1.3 is orthologous to the human gene PHOSPHOGLYCERETE KINASE 1 (PGK1; OMIM:311800), which when mutated leads to hemolytic anemia and neurologic disturbances. phosphoglycerate kinase McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, mixed oogenesis soma, Reinke et al 2004, GO categories, ViswanathanM et al 2005 S2 sir-2.1 regulated, Wang et al 2003 S3 genes pass one-way ANOVA, Wang et al 2003 S4 Climbing, Wang et al 2003 S4 genes pass two-wayANOVA P0 T06E4.3 Aff_T06E4.3 Ce-atl1; atl-1; T06E4.3; 5K116; CE25103; CE28250; NM_073086; WBGene00000226; WP:CE25103; WP:CE28250 The atl-1 gene encodes a large, 2514-residue protein of the ATM family, homologous to human AT (OMIM:208900, mutated in ataxia telangiectasia); the C-terminal sequence of ATL-1 contains a PI-3 kinase-like domain; ATL-1 is required for survival through early embryogenesis and normal chromosomal segregation; atl-1 is expressed in both the mitotic and meiotic cells of adult gonads. McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, intrinsic, Reinke et al 2004, wt vs glp-4 enriched genes T07C4.1 Aff_T07C4.1 T07C4.1; T07C4.1.1; T07C4.1.2; 3L446; CE00638; WBGene00011559; WP:CE00638 T07C4.1 is orthologous to the human gene URIDINE MONOPHOSPHATE SYNTHETASE (OROTATE PHOSPHORIBOSYL TRANSFERASE AND OROTIDINE-5'-DECARBOXYLASE) (UMPS; OMIM:258900), which when mutated leads to disease. UMP synthase McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, mixed oogenesis soma, Reinke et al 2004, GO categories, ViswanathanM et al 2005 S2 sir-2.1 regulated, Wang et al 2003 S5 genes common to feeding ANOVA, Wang et al 2003 S3 genes pass one-way ANOVA T08D10.2 Aff_T08D10.2 T08D10.2; CE33174; WBGene00011615; WP:CE33174; XM569 T08D10.2 encodes an ortholog of the human histone demethylase LSD1 (KIAA0601), and a paralog of C. elegans SPR-5; similar histone demethylase homologs are found in human, mouse, Drosophila, fission yeast, and Arabidopsis; T08D10.2 is predicted to demethylate histone H3 lysine 4 residues and act as a transcriptional corepressor. corticosteroid-binding protein Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, mixed oogenesis soma, Reinke et al 2004, list of genes in cluster E, ViswanathanM et al 2005 S2 sir-2.1 regulated, ViswanathanM et al 2005 S2 daf-16 Resveratrol T20G5.10 Aff_T20G5.10 T20G5.10; 3L300; CE00629; WBGene00011872; WP:CE00629 McCarroll et al 2004 SFig1-4 conserved w/ Drosoph, ViswanathanM et al 2005 S2 sir-2.1 regulated W01D2.5 Aff_W01D2.5 W01D2.5; 2P99; CE20128; WBGene00012182; WP:CE20128 Reinke et al 2004, list of genes in cluster F, Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, mixed oogenesis soma, ViswanathanM et al 2005 S2 sir-2.1 regulated W05H9.2 Aff_W05H9.2 W05H9.2; CE33720; WBGene00021049; WP:CE33720; XG889 Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, list of genes in cluster E, ViswanathanM et al 2005 S2 sir-2.1 regulated Y113G7B.23 Aff_Y113G7B.L psa-1; Y113G7B.23; 5U710; CE25208; NM_075505; WBGene00004203; WP:CE25208 psa-1 encodes an ortholog of SWI3, a component of the SWI/SNF complex that is conserved from yeast to mammals and that is involved in chromatin remodeling; psa-1 is probably required during mitosis of the T cells for asymmetric cell division, and in addition, is required for embryonic and larval development, as well as normal levels of fertility; psa-1 exhibits strong genetic interactions with lin-35/Rb, as psa-1 larval lethality and sterility at 20 degrees C are greatly enhanced in lin-35;psa-1 double mutants. SWI/SNF protein McCarroll et al 2004 SFig5 conserved w/ yeast, McCarroll et al 2004 SFig1-4 conserved w/ Drosoph Y11D7A.12 Aff_Y11D7A.12 Y11D7A.12; 4K28; CE35915; WBGene00012435; WP:CE35915 Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, wt vs glp-4 enriched genes, Reinke et al 2004, list of genes in cluster order, Reinke et al 2004, oogenesis enriched genes, Reinke et al 2004, wt herm vs wt male enriched gen, Reinke et al 2004, list of genes in cluster E, ViswanathanM et al 2005 S2 sir-2.1 regulated Y19D10A.16 Aff_C01B4.H Y19D10A.16; WBGene00044734 ZK1236.3 Aff_ZK1236.3 phi-57; ZK1236.3; 3J511; CE00532; WBGene00023405; WP:CE00532 Reinke et al 2004, fem1 enriched genes, Reinke et al 2004, mixed oogenesis soma, ViswanathanM et al 2005 S2 sir-2.1 regulated ZK809.5 Aff_ZK809.5 ZK809.5; 4M423; CE28874; CE33911; WBGene00014087; WP:CE28874; WP:CE33911 ViswanathanM et al 2005 S2 sir-2.1 regulated