Baugh et al 2003, subclass E_PC32, 31 genes

Gene list file name:Baugh2003_classEpi_PC32.txt
Type of gene identifier:Affymetrix custom chip
Description:Baugh et al 2005, Supplymental Dataset, subclass E_31min  
Organism:Caenorhabditis elegans (nematode)
Gene list type:Experimental

Gene name             Source Gene ID          Annotation                                                  Date       Added by    

AFF_Y49E10.G Aff_Y49E10.G P W
C10C6.3 Aff_C10C6.3 P W All gene names: C10C6.3; 4M226; CE35392; WBGene00007512; WP:CE35392
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, herm sperm, Reinke                             
                                              et al 2004, wt vs glp-4 enriched genes, Reinke et al                               
                                              2004, spermatogenesis enriched genes, Reinke et al                                 
                                              2004, fem3 enriched genes                                                          

C14B9.7 Aff_C14B9.7 P W All gene names: rpl-21; C14B9.7; C14B9.7.1; C14B9.7.2; C14B9.7.3; 3J218; CE00078; NM_066373; WBGene00004433; WP:CE00078 WormBase description: rpl-21 encodes a large ribosomal subunit L21 protein; by homology, RPL-21 is predicted to function in protein biosynthesis; in C. elegans, RPL-21 activity is required for embryonic and germline development. WormBase CDS description: Ribosomal protein L21
                                              
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                             

C18D4.6 Aff_C18D4.6 P W All gene names: C18D4.6; 5S16; CE32310; CE32311; CE36469; WBGene00007675; WP:CE32310; WP:CE32311; WP:CE36469
                                              
Member of lists (Publications lists):
                                              Lund et al 2002  Fig3D Oocyte-en,                                 
                                              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                                                                        

C26F1.9 Aff_C26F1.9 P W All gene names: rpl-39; C26F1.9; C26F1.9.1; C26F1.9.2; 5I256; CE06883; NM_072605; WBGene00004453; WP:CE06883 WormBase description: rpl-39 encodes a large ribosomal subunit L39 protein. WormBase CDS description: ribosomal protein L39
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph                                                                            

C32E8.4 Aff_C32E8.4 P W All gene names: C32E8.4; 1E353; CE29692; WBGene00016322; WP:CE29692
                                              
Member of lists (Publications lists):
                                              Lund et al 2002  Fig1 aging-regulated                             
                                              genes, Reinke et al 2004, list of genes in cluster                                 
                                              order, Reinke et al 2004, spermatogenesis enriched                                 
                                              genes, Reinke et al 2004, wt herm vs wt herm enriched                              
                                              gen, Reinke et al 2004, fem3 enriched genes, Reinke et                             
                                              al 2004, wt vs glp-4 enriched genes, Reinke et al 2004,                            
                                              wt males vs glp4 male enriched , Reinke et al 2004,                                
                                              list of genes in cluster D, Reinke et al 2004, shared                              
                                              sperm, ViswanathanM et al 2005  S2 sir-2.1 regulated                               

C33B4.3 Aff_C33B4.3 P W All gene names: tag-67; C33B4.3; 2L676; CE01508; CE36107; WBGene00006444; WP:CE01508; WP:CE36107 WormBase description: ankyrin and proline rich domains
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              sir-2.1 regulated                                                                  

C52D10.7 Aff_C52D10.7 P W All gene names: skr-9; C52D10.7; 4S107; CE17591; NM_070642; WBGene00004815; WP:CE17591 WormBase description: skr-9 encodes a homolog of Skp1 in S. cerevisiae, a component of the SCF (Skp1, Cullin, F-box) ubiquitin-ligase complex that regulates ubiquitin-mediated protein degradation; SKR-9 is required for posterior body morphogenesis, embryonic and larval development, and postembryonic cell proliferation. WormBase CDS description: cyclin A-associated protein
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Non dauer genes                                 
                                              P<0.05, Murphy et al 2003  Fig2 Class2 shorten                                     
                                              lifespan, Reinke et al 2004, list of genes in cluster                              
                                              order, 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, Reinke et al 2004, list of                                
                                              genes in cluster E, ViswanathanM et al 2005  S2 sir-2.1                            
                                              regulated                                                                          

C52D10.9 Aff_C52D10.9 P W All gene names: skr-8; C52D10.9; C52D10.9.1; C52D10.9.2; 4S108; CE17593; NM_070643; WBGene00004814; WP:CE17593 WormBase description: skr-8 encodes a homolog of Skp1 in S. cerevisiae, a component of the SCF (Skp1, Cullin, F-box) ubiquitin-ligase complex that regulates ubiquitin-mediated protein degradation; SKR-8 is required for is required for posterior body morphogenesis, embryonic and larval development, and cell proliferation; SKR-8 can interact with CUL-1, a C. elegans cullin homolog. WormBase CDS description: cyclin A-associated protein
                                              
Member of lists (Publications lists):
                                              Kwon et al 2004  T1 late-repression                               
                                              Ethanol-respon, Lund et al 2002  Fig3D Oocyte-en,                                  
                                              Murphy et al 2003  Fig2 Class2 shorten lifespan, 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, ViswanathanM et al 2005  S2 sir-2.1                                     
                                              regulated                                                                          

F01F1.10 Aff_F01F1.10 P W All gene names: F01F1.10; 3G956; CE01223; CE32851; CE33045; WBGene00017164; WP:CE01223; WP:CE32851; WP:CE33045 WormBase description: F01F1.10 encodes two isoforms of an endo-beta-N-acetylglucosaminidase (ENGase, or Endo-M); recombinant F01F1.10 has ENGase activity when expressed in E. coli, with specificity mainly for high-mannose type oligosaccharides, and optimal activity on Man8GlcNAc2; F01F1.10 has no obvious phenotype in mass RNAi screens; F01F1.10 is predicted to catabolize free oligosaccharides in the cytosol.
                                              
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, ViswanathanM et al 2005  S2 sir-2.1                             
                                              regulated                                                                          

F11C1.2 Aff_F11C1.2 P W All gene names: F11C1.2; CE31472; WBGene00008691; WP:CE31472; XN604
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, 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                                                

F36A4.7 Aff_F36A4.7 P W All gene names: ama-1; F36A4.7; 4F21; CE28300; NM_068122; WBGene00000123; WP:CE28300 WormBase description: ama-1 encodes the large subunit of RNA polymerase II required for mRNA transcription; AMA-1 is essential for proper embryonic development, particularly for the early division and migration of the endodermal precursor (E) cells that initiate gastrulation; AMA-1 is expressed ubiquitously in the developing embryo until the 550-cell stage. WormBase CDS description: RNA polymerase II
                                              
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, intrinsic, Reinke et al                                
                                              2004, wt vs glp-4 enriched genes                                                   

F38C2.5 Aff_F38C2.5 P W All gene names: F38C2.5; 4R43; CE16004; WBGene00009537; WP:CE16004 WormBase description: Zinc finger C-x8-C-x5-C-x3-H type (and similar). (2 domains)
                                              
Member of lists (Publications lists):
                                              Lund et al 2002  Fig3D Oocyte-en,                                 
                                              ViswanathanM et al 2005  S2 sir-2.1 regulated,                                     
                                              ViswanathanM et al 2005  S2 daf-16 Resveratrol                                     

F45F2.13 Aff_F45F2.13 P W All gene names: his-6; F45F2.13; 5J14; NM_072798; WBGene00001880 WormBase description: his-6 encodes an H3 histone. WormBase CDS description: histone H3
F46F5.9 Aff_F46F5.9 P W All gene names: F46F5.9; 2B110; CE19425; WBGene00018500; WP:CE19425
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, spermatogenesis                                
                                              enriched genes, Reinke et al 2004, wt herm vs wt herm                              
                                              enriched gen, Reinke et al 2004, fem3 enriched genes,                              
                                              Reinke et al 2004, wt vs glp-4 enriched genes, Reinke                              
                                              et al 2004, wt males vs glp4 male enriched , Reinke et                             
                                              al 2004, shared sperm, ViswanathanM et al 2005  S2                                 
                                              daf-16 Resveratrol, ViswanathanM et al 2005  S2 sir-2.1                            
                                              regulated                                                                          

F53A2.6 Aff_F53A2.6 P W All gene names: ife-1; F53A2.6; F53A2.6.1; F53A2.6.2; F53A2.6.3; 3O433; CE31809; NM_067350; WBGene00002059; WP:CE31809 WormBase description: The ife-1 gene encodes one of five C. elegans homologs of the mRNA cap-binding protein eIF4E; it is specifically required for spermatogenesis, and is expressed in P granules. WormBase CDS description: EUKARYOTIC TRANSLATION INITIATION FACTOR 4E (EIF-4E) (EIF4E) (MRNA CAP-BINDING PROTEIN) (EIF-4F 25 KD SUBUNIT)
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, intrinsic, Reinke                              
                                              et al 2004, Fig2b shared gemlines, Reinke et al 2004,                              
                                              wt vs glp-4 enriched genes, Reinke et al 2004, wt males                            
                                              vs glp4 male enriched , Reinke et al 2004, GO                                      
                                              categories, ViswanathanM et al 2005  S2 sir-2.1                                    
                                              regulated                                                                          

F56G4.3 Aff_F56G4.2 P W All gene names: F56G4.3; 1L950; WBGene00010158
                                              
Member of lists (Publications lists):
                                              Murphy et al 2003  Fig2 Class2 shorten                            
                                              lifespan, 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                                                                  

K01D12.14 Aff_K01D12.14 P W All gene names: cdr-5; K01D12.14; 5M888; CE38390; NM_073710; WBGene00010473; WP:CE38390
K09E3.4 Aff_K09E3.4 P W All gene names: K09E3.4; CE04742; WBGene00019575; WP:CE04742; XR733
R09B3.2 Aff_R09B3.2 P W All gene names: R09B3.2; 1M500; CE16307; WBGene00011155; WP:CE16307 WormBase description: RNA recognition motif. (aka RRM, RBD, or RNP domain)
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, intrinsic, Reinke                              
                                              et al 2004, Fig2b shared gemlines, 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 males vs                             
                                              glp4 male enriched , 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                                      

T01C3.2 Aff_T01C3.2 P W All gene names: T01C3.2; 5P471; CE23935; WBGene00011319; WP:CE23935
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, list of genes in                               
                                              cluster order, Reinke et al 2004, list of genes in                                 
                                              cluster E                                                                          

T05A8.7 Aff_T05A8.7 P W All gene names: T05A8.7; 2D32; CE25979; WBGene00020233; WP:CE25979
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, IVb male soma                                  
                                              enriched genes                                                                     

T10C6.10 Aff_T10C6.10 P W All gene names: T10C6.10; 5Q517; CE16385; WBGene00011691; WP:CE16385 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.
                                              
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, ViswanathanM et                              
                                              al 2005  S2 sir-2.1 regulated                                                      

T10C6.13 Aff_T10C6.13 P W All gene names: his-2; T10C6.13; 5Q522; CE03253; NM_074632; WBGene00001876; WP:CE03253 WormBase description: his-2 encodes an H3 histone; his-2 is contained within the histone gene cluster HIS1. WormBase CDS description: histone H3
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, list of genes in                               
                                              cluster A, Reinke et al 2004, fem1 enriched genes,                                 
                                              Reinke et al 2004, list of genes in cluster order,                                 
                                              Reinke et al 2004, mixed oogenesis soma                                            

Y48B6A.2 Aff_Y48B6A.B P W All gene names: rpl-43; Y48B6A.2; Y48B6A.2.1; Y48B6A.2.2; Y48B6A.B; 2O445; CE22117; NM_064556; WBGene00004456; WP:CE22117 WormBase description: rpl-43 encodes a large ribosomal subunit L37a protein.
                                              
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                             

Y49E10.4 Aff_Y49E10.F P W All gene names: Y49E10.4; Y49E10.F; 3N468; CE22222; WBGene00013030; WP:CE22222 WormBase description: Thioredoxin
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, list of genes in                               
                                              cluster F, Reinke et al 2004, list of genes in cluster                             
                                              order, ViswanathanM et al 2005  S2 sir-2.1 regulated                               

Y50E8A.11 Aff_Y50E8A.Q P W All gene names: Y50E8A.11; 5P263; CE22318; WBGene00013054; WP:CE22318
Y71H2AM.1 Aff_Y71H2_385.B P W All gene names: Y71H2AM.1; Y71H2AM.1.1; Y71H2AM.1.2; 3D923; CE37451; WBGene00022166; WP:CE37451
                                              
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                             

Y75B12A.2 Aff_Y75B12A.2 P W All gene names: Y75B12A.2; 5P591; CE19269; WBGene00013566; WP:CE19269
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol                                                                        

ZK484.8 Aff_ZK484.8 P W All gene names: ZK484.8; ZK484.8.1; ZK484.8.2; 1G674; CE15351; WBGene00022754; WP:CE15351
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, list of genes in                               
                                              cluster order, Reinke et al 2004, spermatogenesis                                  
                                              enriched genes, Reinke et al 2004, wt herm vs wt herm                              
                                              enriched gen, Reinke et al 2004, fem3 enriched genes,                              
                                              Reinke et al 2004, wt vs glp-4 enriched genes, Reinke                              
                                              et al 2004, wt males vs glp4 male enriched , Reinke et                             
                                              al 2004, list of genes in cluster D, Reinke et al 2004,                            
                                              shared sperm, ViswanathanM et al 2005  S2 daf-16                                   
                                              Resveratrol, ViswanathanM et al 2005  S2 sir-2.1                                   
                                              regulated                                                                          

ZK632.13 Aff_ZK632.13 P W All gene names: lin-52; ZK632.13; 3K914; CE01711; NM_066778; WBGene00003035; WP:CE01711 WormBase description: lin-52 encodes a novel protein that is most closely related to the Drosophila melanogaster CG15929 protein and the human protein XP_040376; lin-52 is a class B synthetic multivulva (synMuv) gene that appears to function with lin-35/Rb to negatively regulate vulval development; in addition, lin-52 is also required for germline and larval development.
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol