Baugh et al 2003, subclass SE_101min, 93 genes

Gene list file name:Baugh2003_classSEpi_101min.txt
Type of gene identifier:Affymetrix custom chip
Description:Baugh et al 2005, Supplymental Dataset, subclass SE_101min  
Organism:Caenorhabditis elegans (nematode)
Gene list type:Experimental

Gene name             Source Gene ID          Annotation                                                  Date       Added by    

AFF_C25D7.10 Aff_C25D7.10 P W
AFF_W02A2.E Aff_W02A2.E P W
AFF_Y119D3_465.L Aff_Y119D3_465.L P W
AFF_Y52B11C.1 Aff_Y52B11C.1 P W
AFF_Y71F9A_262.A Aff_Y71F9A_262.A P W
B0218.3 Aff_B0218.3 P W All gene names: pmk-1; B0218.3; 4I913; CE06686; NM_068964; WBGene00004055; WP:CE06686 WormBase description: pmk-1 encodes a mitogen-activated protein kinase (MAPK), orthologous to human p38 MAPK (OMIM:600289), that is required for eliciting gonadal programmed cell death in response to Salmonella enterica infection; PMK-1 lies upstream of CED-9, a negative regulator of apoptosis, in the programmed cell death pathway. WormBase CDS description: ser/thr kinases
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph, Reinke et al 2004, wt herm vs wt herm enriched                            
                                              gen, ViswanathanM et al 2005  S2 sir-2.1 regulated                                 

B0507.1 Aff_B0507.1 P W All gene names: B0507.1; 5J259; CE28815; WBGene00015218; WP:CE28815
                                              
Member of lists (Publications lists):
                                              Wang et al 2003  S3  genes pass                                   
                                              one-way ANOVA, Wang et al 2003  S4 LateList, Wang et al                            
                                              2003  S4 genes pass two-wayANOVA P0                                                

C01F4.2 Aff_F57C9.8 P W All gene names: C01F4.2; 1F420; CE30414; CE33358; WBGene00015303; WP:CE30414; WP:CE33358
                                              
Member of lists (Publications lists):
                                              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,                            
                                              ViswanathanM et al 2005  S2 daf-16 Resveratrol                                     

C01G8.9 Aff_C01G8.7 P W All gene names: C01G8.9; 1F870; CE30415; CE33359; WBGene00015314; WP:CE30415; WP:CE33359
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, Reinke et al 2004, fem1 enriched                             
                                              genes, Reinke et al 2004, mixed oogenesis soma                                     

C06B8.7 Aff_C06B8.7 P W All gene names: C06B8.7; 5P989; CE30854; WBGene00007372; WP:CE30854 WormBase description: Human M130 antigen like protein
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, Romagnolo et al 2002  Fig3b                                  
                                              Unkown, ViswanathanM et al 2005  S2 sir-2.1 regulated                              

C09D4.2 Aff_C09D4.2 P W All gene names: C09D4.2; 1G59; CE08031; WBGene00015633; WP:CE08031
                                              
Member of lists (Publications lists):
                                              Baugh et al 2005, validated PAL-1                                 
                                              target genes, Baugh et al 2005, PAL-1 target genes,                                
                                              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                                      

C11G6.2 Aff_C11G6.2 P W All gene names: C11G6.2; CE05256; WBGene00007523; WP:CE05256; XQ943 WormBase description: helicase like
C13G5.1 Aff_C13G5.1 P W All gene names: ceh-16; C13G5.1; 3J715; CE37477; NM_066497; WBGene00000439; WP:CE37477 WormBase description: ceh-16 encodes a protein that contains a homeobox domain. WormBase CDS description: Engrailed homeotic protein
                                              
Member of lists (Publications lists):
                                              Baugh et al 2005, PAL-1 target genes,                             
                                              McCarroll et al 2004  SFig1-4 conserved w/ Drosoph                                 

C15H9.8 Aff_C15H9.8 P W All gene names: prx-3; C15H9.8; CE04000; NM_076624; WBGene00004193; WP:CE04000; XG732 WormBase description: prx-3 is orthologous to the human gene PEROXISOMAL BIOGENESIS FACTOR 3 (PEX3; OMIM:603164), which when mutated leads to Zellweger syndrome of complementation group G.
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

C25G6.2 Aff_C25G6.2 P W All gene names: tsp-9; C25G6.2; CE04083; NM_075831; WBGene00006635; WP:CE04083; XB865 WormBase description: transpanin
                                              
Member of lists (Publications lists):
                                              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                                                         

C25G6.5 Aff_C25G6.5 P W All gene names: C25G6.5; CE04086; WBGene00016110; WP:CE04086; XB868 WormBase description: G-protein coupled receptor (family 1)
                                              
Member of lists (Publications lists):
                                              Baugh et al 2005, PAL-1 target genes,                             
                                              McCarroll et al 2004  SFig1-4 conserved w/ Drosoph                                 

C29E4.5 Aff_C29E4.5 P W All gene names: tag-250; C29E4.5; 3J8; CE29682; CE38589; WBGene00016203; WP:CE29682; WP:CE38589
C31E10.6 Aff_C31E10.6 P W All gene names: C31E10.6; CE08506; WBGene00007847; WP:CE08506; XO617
                                              
Member of lists (Publications lists):
                                              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                                     

C32B5.15 Aff_C32B5.15 P W All gene names: C32B5.15; 2B258; CE08523; WBGene00016308; WP:CE08523 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins.
C32B5.9 Aff_C32B5.9 P W All gene names: C32B5.9; 2B247; CE08517; WBGene00016302; WP:CE08517
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 daf-16                                
                                              Resveratrol                                                                        

C34E11.1 Aff_C34E11.1 P W All gene names: rsd-3; C34E11.1; C34E11.1.1; C34E11.1.2; CE03062; NM_077572; WBGene00004682; WP:CE03062; XM421 WormBase description: yeast hypothetical L8167.6 like
                                              
Member of lists (Publications lists):
                                              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                                                                          

C35D10.8 Aff_C35D10.8 P W All gene names: C35D10.8; 3F945; CE29702; WBGene00016445; WP:CE29702
                                              
Member of lists (Publications lists):
                                              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                                               

C36E8.3 Aff_C36E8.3 P W All gene names: C36E8.3; 3F99; CE30889; WBGene00007982; WP:CE30889
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              daf-16 Resveratrol                                                                 

C47G2.2 Aff_C47G2.2 P W All gene names: unc-130; C47G2.2; 2L573; CE02166; NM_064010; WBGene00006853; WP:CE02166 WormBase description: A member of the forkhead domain family of transcription factors that affects the generation of the AWA and ASG chemosensory neurons and is partially required for male tail morphogenesis and embryogenesis; it is expressed in the AWA and ASG precursors; it is required for the graded spatial expression of the UNC-129 TGF-beta guidance factor. WormBase CDS description: fork head domain protein
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              sir-2.1 regulated                                                                  

C52B11.2 Aff_C52B11.2 P W All gene names: tag-303; C52B11.2; CE04258; WBGene00016871; WP:CE04258; XB927 WormBase description: potassium channel protein
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Dauer specific genes                            
                                              P<0.05, McCarroll et al 2004  SFig1-4 conserved w/                                 
                                              Drosoph, Wang et al 2003  S7 SAGE genes in the dataset,                            
                                              Wang et al 2003  S8 SAGE genes in the dauer exit                                   

D1025.2 Aff_D1025.2 P W All gene names: D1025.2; CE17610; WBGene00008354; WP:CE17610; XP132 WormBase description: This gene encodes a protein predicted by Eisenberg and coworkers, with 52% accuracy, to be mitochondrial.
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph, 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                                                         

D1044.6 Aff_D1044.6 P W All gene names: D1044.6; 3G626; CE32173; WBGene00017031; WP:CE32173
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Non dauer genes                                 
                                              P<0.05, 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, Reinke et al 2004, wt herm vs                            
                                              wt male enriched gen                                                               

D2045.9 Aff_D2045.9 P W All gene names: D2045.9; CE33988; WBGene00008426; WP:CE33988
                                              
Member of lists (Publications lists):
                                              Romagnolo et al 2002  Fig3b Unkown,                               
                                              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                                                                    

E04A4.1 Aff_E04A4.1 P W All gene names: fbxb-78; E04A4.1; 4F501; CE32346; WBGene00017116; WP:CE32346 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins; its encoded protein also contains a Pfam-B45 motif of presently unknown function.
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

F09C3.5 Aff_F09C3.3 P W All gene names: fbxb-69; F09C3.5; 1O872; CE24886; WBGene00008613; WP:CE24886
F11E6.1 Aff_F11E6.1 P W All gene names: F11E6.1; 4S421; CE20669; CE26698; CE31166; WBGene00008706; WP:CE20669; WP:CE26698; WP:CE31166 WormBase description: F11E6.1 is homologous to to the human gene GLUCOCEREBROSIDASE (GBA; OMIM:606463), which when mutated leads to Gaucher disease.
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, wt herm vs wt herm                             
                                              enriched gen, Reinke et al 2004, fem3 enriched genes,                              
                                              Reinke et al 2004, IVb male soma enriched genes, Reinke                            
                                              et al 2004, mixed sperm soma, 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                                                

F18C5.10 Aff_F18C5.4 P W All gene names: F18C5.10; F18C5.10.1; F18C5.10.2; 2G850; CE31790; WBGene00017563; WP:CE31790
F19H8.1 Aff_F19H8.1 P W All gene names: tps-2; F19H8.1; CE37507; NM_064634; WBGene00006603; WP:CE37507 WormBase description: tps-2 encodes one of two trehalose-6-phosphate synthase proteins in C. elegans, and RNAi of both enzymes leads to a more than 90% reduction decrease in trehalose levels, but does not appear to affect viability or development; the tps-2 mRNA is expressed throughout development. WormBase CDS description: trehalose phosphate synthase
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph, Murphy et al 2003  Fig2 Class1 elongate                                   
                                              lifespan                                                                           

F25B4.8 Aff_F25B4.8 P W All gene names: F25B4.8; 5G170; CE30761; CE30762; WBGene00017771; WP:CE30761; WP:CE30762
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

F29F11.6 Aff_F29F11.6 P W All gene names: CEGLC-7A; Ce-glc-7alpha; glc-7; gsp-1; F29F11.6; F29F11.6.1; F29F11.6.2; F29F11.6.3; F29F11.6.4; 5L165; CE20735; NM_073332; WBGene00001747; WP:CE20735 WormBase description: serine/threonine protein phosphatase
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

F30A10.10 Aff_F30A10.10 P W All gene names: F30A10.10; 1K87; CE32639; WBGene00009267; WP:CE32639 WormBase description: ubiquitin carboxyl-termianl hydrolase
                                              
Member of lists (Publications lists):
                                              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, Reinke et al 2004, GO                                
                                              categories, ViswanathanM et al 2005  S2 sir-2.1                                    
                                              regulated                                                                          

F32A5.6 Aff_F32A5.6 P W All gene names: prx-13; F32A5.6; 2H540; CE28290; NM_063112; WBGene00004198; WP:CE28290 WormBase description: prx-13 is orthologous to the human gene PEX13 (OMIM:601789), which when mutated leads to Zellweger syndrome or neonatal adrenoleukodystrophy.
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph                                                                            

F38E9.5 Aff_F38E9.5 P W All gene names: F38E9.5; F38E9.5.1; F38E9.5.2; CE28307; WBGene00018187; WP:CE28307; XR65 WormBase description: protein tyrosine kinase
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, Reinke et al 2004, list of genes                             
                                              in cluster order, Reinke et al 2004, list of genes in                              
                                              cluster C                                                                          

F40F11.2 Aff_F40F11.2 P W All gene names: F40F11.2; 4M365; CE28557; WBGene00009587; WP:CE28557
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

F41E6.6 Aff_F41E6.6 P W All gene names: tag-196; F41E6.6; F41E6.6.1; F41E6.6.2; 5J77; CE35305; WBGene00007055; WBGene00018287; WP:CE35305 WormBase description: cysteine protease and a protease inhibitor
                                              
Member of lists (Publications lists):
                                              Kwon et al 2004 T1 late-induction                                 
                                              Ethanol-response, Lund et al 2002  Fig1 aging-regulated                            
                                              genes, Lund et al 2002  Fig4 Mount 15, 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                                
                                              daf-16 Resveratrol, ViswanathanM et al 2005  S2 sir-2.1                            
                                              regulated                                                                          

F42G9.4 Aff_F42G9.4 P W All gene names: F42G9.4; 3B379; CE30789; WBGene00018363; WP:CE30789
                                              
Member of lists (Publications lists):
                                              Wang et al 2003  S3  genes pass                                   
                                              one-way ANOVA, Wang et al 2003  S4 Dauer Enriched, Wang                            
                                              et al 2003  S4 genes pass two-wayANOVA P0                                          

F44B9.3 Aff_F44B9.3 P W All gene names: cit-1.2; F44B9.3; 3J103; CE29042; CE32417; NM_066344; NM_181926; WBGene00000508; WP:CE29042; WP:CE32417 WormBase description: cit-1.2 encodes one of two C. elegans cyclin T orthologs; RNAi experiments indicate that CIT-1.2 functions redundantly with CIT-1.1 to broadly regulate embryonic transcription; by homology, CIT-1.1 and CIT-1.2 are predicted to interact with the CDK-9 kinase to form the P-TEFb transcription elongation factor that in C. elegans is required for Ser2, but not Ser5, phosphorylation in the C-terminal domain (CTD) repeat of AMA-1/PolII.
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol                                                                        

F49D11.9 Aff_F49D11.9 P W All gene names: tag-296; F49D11.9; 1L520; CE17083; CE33286; WBGene00018632; WP:CE17083; WP:CE33286
                                              
Member of lists (Publications lists):
                                              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, list of genes in cluster E, ViswanathanM et al                               
                                              2005  S2 sir-2.1 regulated                                                         

F54D11.2 Aff_F54D11.2 P W All gene names: F54D11.2; F54D11.2.1; F54D11.2.2; F54D11.2.3; 5F105; CE30805; WBGene00018812; WP:CE30805
                                              
Member of lists (Publications lists):
                                              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 daf-16 Resveratrol                                     

F54H12.3 Aff_F54H12.3 P W All gene names: F54H12.3; 3J48; CE00545; WBGene00018843; WP:CE00545
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

F57G12.1 Aff_F57G12.1 P W All gene names: F57G12.1; F57G12.1.1; F57G12.1.2; CE03426; WBGene00010221; WP:CE03426; XM788
                                              
Member of lists (Publications lists):
                                              Lund et al 2002  Fig1 aging-regulated                             
                                              genes, ViswanathanM et al 2005  S2 sir-2.1 regulated                               

F58H7.7 Aff_F58H7.7 P W All gene names: F58H7.7; 4B667; CE34326; WBGene00019072; WP:CE34326 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins.
H20J04.6 Aff_H20J04_717.A P W All gene names: H20J04.6; H20J04.B; 2E613; CE20973; WBGene00019221; WP:CE20973
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              sir-2.1 regulated                                                                  

K02D3.1 Aff_K02D3.1 P W All gene names: K02D3.1; CE06069; WBGene00010504; WP:CE06069; XO323
K02G10.8 Aff_K02G10.8 P W All gene names: dnj-14; K02G10.8; CE04708; NM_076405; WBGene00001032; WP:CE04708; XF330 WormBase description: This gene encodes a protein containing a DnaJ ('J') domain.
                                              
Member of lists (Publications lists):
                                              Lund et al 2002  Fig3B neuro-specific                             
                                              genes, McCarroll et al 2004  SFig1-4 conserved w/                                  
                                              Drosoph, ViswanathanM et al 2005  S2 sir-2.1 regulated                             

K09H9.7 Aff_K09H9.7 P W All gene names: K09H9.7; 1D718; CE39596; WBGene00019598; WP:CE39596
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, intrinsic, Reinke                              
                                              et al 2004, wt vs glp-4 enriched genes, Reinke et al                               
                                              2004, GO categories, ViswanathanM et al 2005  S2                                   
                                              sir-2.1 regulated                                                                  

K12F2.2 Aff_K12F2.2 P W All gene names: klp-5; unc-107; vab-8; K12F2.2; 5M705; CE23870; CE31041; NM_073662; NM_073663; WBGene00006874; WP:CE23870; WP:CE31041 WormBase description: The vab-8 gene encodes a novel protein containing an atypical kinesin-like motor domain that is required for many posteriorly-directed cell migrations, as well as axonal outgrowth and pathfinding; vab-8 encodes two protein isoforms: VAB-8S, a novel protein expressed in migrating cells, and VAB-8L, which contains a kinesin-related domain, is expressed in neurons and functions in growth cone migrations; VAB-8 interacts with UNC-51, a serine-threonine kinase also required for axon outgrowth. WormBase CDS description: kinesin-like protein
M02A10.3 Aff_M02A10.3 P W All gene names: sli-1; M02A10.3; CE25058; CE27393; CE37131; NM_075744; WBGene00004829; WP:CE25058; WP:CE27393; WP:CE37131; XB340 WormBase description: adaptor-like E3 ubiquitin ligase
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

R06F6.6 Aff_R06F6.6 P W All gene names: R06F6.6; 2L101; CE01622; WBGene00011069; WP:CE01622 WormBase description: Homeobox domain
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 daf-16                                
                                              Resveratrol                                                                        

R08B4.2 Aff_R08B4.2 P W All gene names: alr-1; sns-10; R08B4.2; CE03536; WBGene00011138; WBGene00044330; WP:CE03536; XL742 WormBase description: homeobox protein (otd subfamily)
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              daf-16 Resveratrol                                                                 

R08E3.4 Aff_R08E3.4 P W All gene names: R08E3.4; CE37662; CE37663; WBGene00019960; WP:CE37662; WP:CE37663; XF426 WormBase description: C2H2-type zinc finger
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph, ViswanathanM et al 2005  S2 daf-16 Resveratrol                            

R10E11.1 Aff_R10E11.1 P W All gene names: cbp-1; cep-1; R10E11.1; 3K863; CE21117; CE28069; NM_066759; NM_066760; WBGene00000366; WP:CE21117; WP:CE28069 WormBase description: cbp-1 encodes a homolog of the mammalian transcriptional cofactors CBP (OMIM:600140) and p300 (E1A-BINDING PROTEIN, 300-KD; OMIM:602700) that have been shown to possess histone acetyltransferase activity, and which, when mutated, lead to Rubinstein-Taybi syndrome (OMIM:180849) and colorectal cancer (OMIM:114500); at least one splicing form of CBP-1 exhibits histone acetyltransferase (HAT) activity in vitro and has a glutamine/asparagine-rich domain; CBP-1 is required during embryogenesis for differentiation of all non-neuronal somatic cell types; CBP-1 is expressed very early in embryogenesis, suggesting that it may interact with maternally provided transcription factors, such as SKN-1, to specific developmental fates.
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

R12C12.1 Aff_R12C12.1 P W All gene names: R12C12.1; R12C12.1a.1; R12C12.1a.2; 2G343; CE02846; CE33434; WBGene00020022; WP:CE02846; WP:CE33434 WormBase description: R12C12.1 is orthologous to human GLYCINE DECARBOXYLASE (GLDC; OMIM:238300), which when mutated leads to glycine encephalopathy.
                                              
Member of lists (Publications lists):
                                              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                               
                                              order, Reinke et al 2004, fem3 enriched genes, Reinke                              
                                              et al 2004, list of genes in cluster C, Reinke et al                               
                                              2004, mixed sperm soma, Reinke et al 2004, GO                                      
                                              categories, Reinke et al 2004, herm soma enriched                                  
                                              genes, ViswanathanM et al 2005  S2 sir-2.1 regulated,                              
                                              Wang et al 2003  S3  genes pass one-way ANOVA, Wang et                             
                                              al 2003  S4 Early genes, Wang et al 2003  S4 genes pass                            
                                              two-wayANOVA P0                                                                    

R57.1 Aff_R57.1 P W All gene names: R57.1; R57.1b.1; R57.1b.2; R57.1c.1; R57.1c.2; R57.1c.3; CE12844; CE30114; CE37270; WBGene00020082; WP:CE12844; WP:CE30114; WP:CE37270; XA925 WormBase description: trans-membrane protein
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, Reinke et al 2004, list of genes in cluster                              
                                              order, Reinke et al 2004, list of genes in cluster C,                              
                                              ViswanathanM et al 2005  S2 sir-2.1 regulated,                                     
                                              ViswanathanM et al 2005  S2 daf-16 Resveratrol                                     

T03D8.3 Aff_T03D8.3 P W All gene names: sbt-1; T03D8.3; 5V298; CE18921; WBGene00011392; WP:CE18921 WormBase description: neuroendocrine protein 7B2
                                              
Member of lists (Publications lists):
                                              Jiang et al 2001  Fig1 male-enriched                              
                                              neuronal, 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, Wang                            
                                              et al 2003  S5 genes common to feeding ANOVA, Wang et                              
                                              al 2003  S3  genes pass one-way ANOVA                                              

T05B4.2 Aff_T05B4.2 P W All gene names: nhr-57; T05B4.2; 5E613; CE13195; NM_071752; WBGene00003647; WP:CE13195 WormBase description: zinc finger protein
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Dauer specific genes                            
                                              P<0.05, Wang et al 2003  S7 SAGE genes in the dataset,                             
                                              Wang et al 2003  S8 SAGE genes in the dauer exit                                   

T14F9.3 Aff_T14F9.3 P W All gene names: T14F9.3; CE07499; WBGene00020509; WP:CE07499; XC843 WormBase description: T14F9.3 is orthologous to the human gene CERVICAL CANCER PROTO-ONCOGENE 7 (HEXB; OMIM:606873), which when mutated leads to disease. WormBase CDS description: beta-hexosaminidase beta subunit
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, Reinke et al 2004, wt herm vs wt                             
                                              male enriched gen, Reinke et al 2004, GO categories,                               
                                              Reinke et al 2004, herm soma enriched genes,                                       
                                              ViswanathanM et al 2005  S2 sir-2.1 regulated                                      

T14F9.5 Aff_T14F9.5 P W All gene names: hlh-7; lin-32; T14F9.5; CE33318; NM_076009; WBGene00003018; WP:CE33318; XC846 WormBase description: lin-32 encodes a basic helix-loop-helix transcription factor that is required for development of several types of neurons, including the touch receptor neurons and the male sensory ray neurons. WormBase CDS description: hlh transcription factor
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

T14G10.2 Aff_T14G10.2 P W All gene names: pxf-1; ra-gef; T14G10.2; T14G10.2a.1; T14G10.2a.2; T14G10.2b.1; T14G10.2b.2; 4K930; CE28080; CE28081; PXF; WBGene00004254; WP:CE28080; WP:CE28081 WormBase description: cell division control protein 25 like
                                              
Member of lists (Publications lists):
                                              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 daf-16 Resveratrol                                     

T20D4.15 Aff_T20D4.15 P W All gene names: T20D4.15; 5D868; CE13806; WBGene00020620; WP:CE13806
T21B6.1 Aff_T21B6.1 P W All gene names: dgn-1; T21B6.1; T21B6.1.1; T21B6.1.2; CE03679; NM_077425; WBGene00000961; WP:CE03679; XL540
T22H2.4 Aff_T22H2.4 P W All gene names: T22H2.4; 1M288; CE14002; WBGene00011934; WP:CE14002
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

T23C6.4 Aff_T23C6.4 P W All gene names: T23C6.4; CE07529; WBGene00020726; WP:CE07529; XR762
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, list of genes in                               
                                              cluster A, Reinke et al 2004, list of genes in cluster                             
                                              order                                                                              

T26H2.2 Aff_T26H2.2 P W All gene names: fbxb-115; T26H2.2; 5T708; CE16488; WBGene00012064; WP:CE16488 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins; its encoded protein also contains a Pfam-B45 motif of presently unknown function.
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

W06H8.1 Aff_W06H8.E P W All gene names: rme-1; W06H8.1; W06H8.1f.1; W06H8.1f.2; W06H8.1f.3; 5G697; CE25146; CE25147; CE25148; CE30204; CE31086; CE33335; WBGene00004373; WP:CE25146; WP:CE25147; WP:CE25148; WP:CE30204; WP:CE31086; WP:CE33335 WormBase description: The rme-1 gene encodes a C. elegans protein required for endocytosis.
Y105C5A.14 Aff_Y105C5.N P W All gene names: Y105C5A.14; 4Q408; CE39802; WBGene00013638; WP:CE39802
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

Y18D10A.5 Aff_Y18D10A.F P W All gene names: gsk-3; sgg-1; Y18D10A.5; Y18D10A.F; 1N417; CE21401; NM_060842; WBGene00001746; WP:CE21401 WormBase description: Eukaryotic protein kinase domain
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph                                                                            

Y37D8A.17 Aff_Y37D8A.17 P W All gene names: Y37D8A.17; 3O12; CE20221; WBGene00012555; WP:CE20221
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

Y37E11B.1 Aff_Y37E11B.1 P W All gene names: Y37E11B.1; 4E345; CE33856; CE34609; WBGene00021374; WP:CE33856; WP:CE34609 WormBase description: zinc finger protein
Y38H6C.10 Aff_Y38H6C.10 P W All gene names: Y38H6C.10; 5U988; CE19104; WBGene00012623; WP:CE19104 WormBase description: This gene encodes a protein containing an F-box, a motif predicted to mediate protein-protein interactions either with homologs of yeast Skp-1p or with other proteins.
Y46E12A.4 Aff_Y119D3_463.A P W
Y47D3A.15 Aff_Y47D3A.Q P W All gene names: aakb-2; Y47D3A.15; 3M327; CE22044; WBGene00012928; WP:CE22044
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast                                                                           

Y48E1A.1 Aff_Y48E1A.1 P W All gene names: Y48E1A.1; 2N962; CE22157; CE37860; WBGene00012999; WP:CE22157; WP:CE37860 WormBase description: DNA-directed RNA polymerase I largest subunit
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph                                                                            

Y51A2D.17 Aff_Y51A2D.17 P W All gene names: nhr-70; Y51A2D.17; 5T99; CE22324; NM_075235; WBGene00003660; WP:CE22324 WormBase description: Zinc finger, C4 type (two domains)
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol                                                                        

Y54E2A.12 Aff_Y54E2A.12 P W All gene names: Y54E2A.12; 2P85; CE37068; WBGene00013196; WP:CE37068
                                              
Member of lists (Publications lists):
                                              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, ViswanathanM et                              
                                              al 2005  S2 sir-2.1 regulated                                                      

Y57A10A.23 Aff_Y57A10A.W P W All gene names: Y57A10A.23; Y57A10A.23.1; Y57A10A.23.2; 2M531; CE22626; WBGene00013263; WP:CE22626
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, list of genes in                               
                                              cluster order, Reinke et al 2004, list of genes in                                 
                                              cluster B, ViswanathanM et al 2005  S2 sir-2.1                                     
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol, Wang et al 2003  S5 genes common to                                   
                                              feeding ANOVA, Wang et al 2003  S3  genes pass one-way                             
                                              ANOVA                                                                              

Y63D3A.8 Aff_Y63D3A.8 P W All gene names: Y63D3A.8; 1O709; CE39301; WBGene00013407; WP:CE39301
Y71F9B.8 Aff_Y71F9B_297.C P W All gene names: Y71F9B.8; 1D304; CE25571; WBGene00022129; WP:CE25571
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

Y75B8A.2 Aff_Y75B8A.C P W All gene names: nob-1; Y75B8A.2; Y75B8A.C; 3N168; CE29009; CE29010; WBGene00003779; WP:CE29009; WP:CE29010 WormBase description: The nob-1 gene encodes one of three C. elegans posterior group homeodomain transcription factors orthologous to Drosophila Abd-B and the vertebrate Hox9-13 proteins; NOB-1, along with an additional posterior Hox ortholog, PHP-3, is required during embryogenesis for proper fate specification and morphogenesis of cells in the posterior region.
                                              
Member of lists (Publications lists):
                                              Baugh et al 2005, validated PAL-1                                 
                                              target genes, Baugh et al 2005, PAL-1 target genes                                 

Y82E9BR.1 Aff_Y119D3_465.J P W All gene names: Y82E9BR.1; 3C557; CE27035; WBGene00022334; WP:CE27035
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 daf-16                                
                                              Resveratrol                                                                        

Y94H6A.9 Aff_Y94H6A_132.B P W All gene names: ubxn-2; Y94H6A.9; Y94H6A_132.B; 4D486; CE27555; CE33955; WBGene00022381; WP:CE27555; WP:CE33955
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph                                                                            

ZK1193.5 Aff_ZK1193.5 P W All gene names: ZK1193.5; CE33746; CE33747; CE33748; WBGene00022861; WP:CE33746; WP:CE33747; WP:CE33748; XB46 WormBase description: ZK1193.5 encodes, by alternative splicing, three proteins with a COMPASS (CMP) domain and two homeodomains; the CMP domain is found in the N-terminus of SATB-class CUT homeodomain proteins (e.g. human SATB1), and in Drosophila DEFECTIVE PROVENTRICULUS (DVE), to which ZK1193.5 may be orthologous; both DVE and ZK1193.5 encode two homeodomains which are highly divergent, but homologous between species, and probably derived by intragenic duplication; ZK1193.5 is required for a normally high rate of growth, fluid excretion, and larval viability in in mass RNAi assays.
                                              
Member of lists (Publications lists):
                                              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 daf-16                                  
                                              Resveratrol                                                                        

ZK228.3 Aff_ZK228.3 P W All gene names: ZK228.3; 5S940; CE24719; WBGene00013946; WP:CE24719
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

ZK270.1 Aff_ZK270.1 P W All gene names: ptr-23; ZK270.1; 1P503; CE15305; NM_061202; WBGene00004237; WP:CE15305
                                              
Member of lists (Publications lists):
                                              Baugh et al 2005, PAL-1 target genes,                             
                                              Reinke et al 2004, list of genes in cluster A, Reinke                              
                                              et al 2004, list of genes in cluster order                                         

ZK287.8 Aff_ZK287.8 P W All gene names: her-1; ZK287.8; 5K181; CE06617; CE37304; WBGene00001842; WP:CE06617; WP:CE37304 WormBase description: The autosomal gene her-1 is repressed by SDC-2 to elicit hermaphrodite differentiation; SDC-2 also represses transcription of X chromosomes to achieve dosage compensation.
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, wt herm vs wt herm                             
                                              enriched gen, Reinke et al 2004, IVb male soma enriched                            
                                              genes                                                                              

ZK622.3 Aff_ZK622.3 P W All gene names: phi-40; ZK622.3; ZK622.3a.1; ZK622.3a.2; ZK622.3a.3; ZK622.3c.1; ZK622.3c.10; ZK622.3c.11; ZK622.3c.2; ZK622.3c.3; ZK622.3c.4; ZK622.3c.5; ZK622.3c.6; ZK622.3c.7; ZK622.3c.8; ZK622.3c.9; ZK622.3d.1; ZK622.3d.2; ZK622.3d.3; ZK622.3d.4; ZK622.3d.5; ZK622.3d.6; ZK622.3d.7; ZK622.3d.8; 2F570; CE29162; CE32290; CE33504; CE33505; WBGene00022781; WP:CE29162; WP:CE32290; WP:CE33504; WP:CE33505
                                              
Member of lists (Publications lists):
                                              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 Climbing, Wang et al 2003  S3                                  
                                              genes pass one-way ANOVA, Wang et al 2003  S4 genes                                
                                              pass two-wayANOVA P0                                                               

ZK809.7 Aff_ZK809.7 P W All gene names: prx-2; ZK809.7; 4M411; CE03835; NM_069800; WBGene00004192; WP:CE03835 WormBase description: prx-2 is orthologous to the human gene PEROXISOMAL MEMBRANE PROTEIN 3 (PXMP3; OMIM:170993), which when mutated leads to Zellweger syndrome 3 or infantile Refsum disease. WormBase CDS description: Zinc finger, C3HC4 type (RING finger)
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, list of genes in                               
                                              cluster A, Reinke et al 2004, list of genes in cluster                             
                                              order                                                                              

ZK909.5 Aff_ZK909.5 P W All gene names: fbxb-70; ZK909.5; 1P546; CE15481; WBGene00014149; WP:CE15481
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 daf-16                                
                                              Resveratrol