Hill et al 2000, developmentally modulated cluster, 93 genes

Gene list file name:Hill2000_T1_cluster6-6.txt
Type of gene identifier:Affymetrix custom chip
Description:Hill et al 2000, Supplymental Dataset, developmentally modulated genes cluster(6,6)  
Organism:Caenorhabditis elegans (nematode)
Gene list type:Experimental

Gene name             Source Gene ID          Annotation                                                  Date       Added by    

AFF_C14C10.2 Aff_C14C10.2 P W
AFF_K10D6.2 Aff_K10D6.2 P W
AFF_T19H12.3 Aff_T19H12.3 P W
AFF_Y105C5.VV Aff_Y105C5.VV P W
AFF_Y55F3C_751.C Aff_Y55F3C_751.C P W
AFF_Y69A2A_2991.D Aff_Y69A2A_2991.D P W
AFF_Y94H6A_148.G Aff_Y94H6A_148.G P W
B0207.12 Aff_B0207.12 P W All gene names: avr-14; gbr-2; B0207.12; 1G544; CE26421; CE30227; CE32092; WBGene00000232; WP:CE26421; WP:CE30227; WP:CE32092 WormBase description: avr-14 encodes an alpha-type subunit of a glutamate-gated chloride channel homologous to human GLRA2, which when mutated leads to hyperekplexia (OMIM:149400); AVR-14 affects sensitivity to the antiparisitic drug, ivermectin, in parallel with avr-15 and glc-1 and in a genetic pathway with unc-9; it functions in the extrapharyngeal nervous system, and is expressed in a subset of neurons in the ring ganglia, ventral cord, and some mechanosensory neurons.
B0222.1 Aff_B0222.1 P W All gene names: B0222.1; 5J615; CE06692; WBGene00015053; WP:CE06692
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 daf-16                                
                                              Resveratrol                                                                        

B0350.2 Aff_B0350.1 P W All gene names: unc-44; B0350.2; B0350.2a.1; B0350.2a.2; B0350.2b.1; B0350.2b.2; B0350.2c.1; B0350.2c.2; B0350.2d.1; B0350.2d.2; B0350.2d.3; B0350.2e.1; B0350.2e.2; B0350.2f.1; B0350.2f.2; B0350.2g.1; B0350.2g.2; 4G769; CE06702; CE06704; CE31147; CE31847; CE35821; CE37694; CE37695; WBGene00006780; WP:CE06702; WP:CE06704; WP:CE31147; WP:CE31847; WP:CE35821; WP:CE37694; WP:CE37695 WormBase description: The unc-44 gene encodes an ankyrin-like protein required for proper sex myoblast and axonal guidance during development.
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

B0399.1 Aff_Y116F11.WW P W All gene names: B0399.1; B0399.A; 5U79; CE31869; CE31870; CE31871; CE39663; WBGene00007176; WP:CE31869; WP:CE31870; WP:CE31871; WP:CE39663
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

B0496.3 Aff_B0496.3 P W All gene names: B0496.3; 4I207; CE37177; CE37178; CE38769; WBGene00015212; WP:CE37177; WP:CE37178; WP:CE38769 WormBase description: ser/thr protein kinase
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

C02C2.3 Aff_C02C2.3 P W All gene names: cup-4; C02C2.3; 3I957; CE30416; NM_066309; WBGene00000845; WP:CE30416 WormBase description: The primary phenotype of cup-4 animals is an accumulation of secreted GFP in the pseudocoelom, suggesting a decrease in, or the absence of, endocytosis in coelomocytes. WormBase CDS description: Acetylcholine receptor
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

C02C2.5 Aff_C02C2.5 P W All gene names: C02C2.5; 3I966; CE34519; WBGene00015334; WP:CE34519
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

C05D10.1 Aff_C05D10.1 P W All gene names: C05D10.1; C05D10.1a.1; C05D10.1a.2; C05D10.1c.1; C05D10.1c.2; C05D10.1c.3; C05D10.1c.4; 3H173; CE24783; CE30420; CE37698; WBGene00015477; WP:CE24783; WP:CE30420; WP:CE37698
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

C05H8.1 Aff_C05H8.1 P W All gene names: CAM-KK; ckk-1; C05H8.1; 3G743; CE33594; CE37082; NM_065812; WBGene00000518; WP:CE33594; WP:CE37082 WormBase description: ckk-1 encodes a calcium and calmodulin-dependent protein kinase kinase family member that affects CRE-dependent transcription in neurons.
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, McCarroll et al 2004  SFig1-4 conserved w/                               
                                              Drosoph                                                                            

C07H6.7 Aff_C07H6.7 P W All gene names: ceh-15; lin-39; C07H6.7; C07H6.7.1; C07H6.7.2; 3I618; CE03975; WBGene00003024; WP:CE03975 WormBase description: lin-39 encodes a homeodomain protein homologous to the Deformed and Sex combs reduced family of homeodomain proteins; lin-39 is required cell autonomously for specification of mid-body region cell fates, including those of the VC neurons and the vulval precursor cells (VPCs), during postembryonic development; lin-39 activity is also required for normal migration of the QR, and to a lesser extent QL, neuroblasts and their descendants; in regions of the body where lin-39 expression overlaps with that of mab-5, another C. elegans HOM-C gene, the two genes appear to either compensate for one another's activity or act combinatorially to promote cell fates distinct from those where either gene is expressed alone; lin-39 transcripts are detected at all development stages, and a lin-39:lacZ reporter fusion is expressed in cells of the central body region, including ventral cord neurons and ventral epidermal cells, from mid-embryogenesis through larval and adult stages. WormBase CDS description: C. elegans homeobox gene lin-39
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

C08C3.3 Aff_C08C3.3 P W All gene names: lin-21; mab-5; C08C3.3; 3I868; CE25765; NM_066294; WBGene00003102; WP:CE25765 WormBase description: mab-5 encodes a homeodomain transcription factor related to the Antennapedia, Ultrabithorax, and abdominal-A family of homeodomain proteins; during postembryonic development, mab-5 is required cell autonomously for specification of posterior cell fates, including hypodermal and neuronal fates, programmed cell deaths, cell proliferation and migration, and fate specification of the male-specific copulatory muscles and sensory rays; in addition, ectopic expression of mab-5 is sufficient to alter cell fates, such as direction of migration or sensory ray identity; in regions of the body where mab-5 expression overlaps with that of lin-39, another C. elegans HOM-C gene, the two genes appear to either compensate for one another's activity or act combinatorially to promote cell fates distinct from those where either gene is expressed alone; a mab-5:lacZ reporter fusion is expressed in cells in the posterior body region from the mid-gastrulation stage of embryogenesis through larval and adult stages; further, antibody staining reveals that MAB-5 expression in the V5 lineage is dynamic, switching on and off several times, while expression in V6 is continuous throughout most of the L1-L3 larval stages; early MAB-5 expression is V6 is dependent upon wild-type activity of pal-1, which encodes the C. elegans Caudal ortholog.
                                              
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                                   

C09H5.5 Aff_C09H5.5 P W All gene names: str-144; C09H5.5; 5I548; CE08047; NM_072681; WBGene00006191; WP:CE08047 WormBase description: 7TM chemoreceptor, str family
C18F3.2 Aff_C18F3.2 P W All gene names: lad-1; sax-7; C18F3.2; 4I847; CE37202; CE38779; CE38935; CE38936; NM_068948; WBGene00004732; WP:CE37202; WP:CE38779; WP:CE38935; WP:CE38936 WormBase description: sax-7 encodes the C. elegans ortholog of L1CAM; SAX-7 is ubiquitously expressed at sites of cell-cell contact, and is required for germline development, embryonic morphogenesis, and gonadal morphogenesis; SAX-7 interacts physically with the ankyrin UNC-44, and nonphosphorylated SAX-7 is colocalized with UNC-44 at sites of cellular contact in vivo.
                                              
Member of lists (Publications lists):
                                              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, Reinke et al 2004, wt herm vs wt male                               
                                              enriched gen, ViswanathanM et al 2005  S2 sir-2.1                                  
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol                                                                        

C29G2.4 Aff_C29G2.4 P W All gene names: srt-4; C29G2.4; 5D55; CE37876; NM_071305; WBGene00016232; WP:CE37876 WormBase description: 7TM chemoreceptor, srt family
C36E8.2 Aff_C36E8.2 P W All gene names: C36E8.2; 3F80; CE30888; WBGene00007981; WP:CE30888
C38C6.2 Aff_C38C6.2 P W All gene names: atg-2; C38C6.2; 2O926; CE31162; NM_064642; WBGene00000225; WP:CE31162 WormBase description: atg-2 encodes an amino acid transporter glycoprotein subunit; when co-expressed in Xenopus oocytes with either the AAT-1 or AAT-3 catalytic subunit, ATG-2 facilitates amino acid uptake and exchange, showing a relatively high affinity for small and some large neutral amino acids; when co-expressed with AAT-9, ATG-2 is able to enhance the activity of this catalytic subunit; ATG-2 can covalently associate with AAT-1 or AAT-3 in the Xenopus expression system; when co-expressed with AAT-1 or AAT-3, ATG-2 localizes to the cell surface of oocytes, but when expressed alone, ATG-2 localizes intracellularly. WormBase CDS description: Alpha amylase
                                              
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                                                                          

C41G6.7 Aff_C41G6.7 P W All gene names: srw-24; C41G6.7; 5P703; CE38159; NM_074362; WBGene00005771; WP:CE38159 WormBase description: 7TM chemoreceptor, srw family
C46F11.1 Aff_C46F11.1 P W All gene names: unc-93; C46F11.1; 3E737; CE30906; CE37957; WBGene00006822; WP:CE30906; WP:CE37957 WormBase description: A novel putative transmembrane protein that affects muscle contraction and egg-laying; it is predicted to be a component of a two-pore potassium channel complex together with SUP-9 and SUP-10; it is expressed in head neurons including the four SIA neurons. WormBase CDS description: UNC-93 protein
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, 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                                             

C48B4.3 Aff_C48B4.3 P W All gene names: C48B4.3; 3K670; CE00490; WBGene00008168; WP:CE00490
C53A5.13 Aff_C53A5.7 P W All gene names: C53A5.13; 5P33; CE35843; WBGene00008270; WP:CE35843
C54C8.4 Aff_C54C8.4 P W All gene names: C54C8.4; 1N43; CE08967; WBGene00008292; WP:CE08967 WormBase description: glycosyltransferase
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol                                                                        

C55A1.6 Aff_C55A1.6 P W All gene names: C55A1.6; 5Q121; CE08992; WBGene00008323; WP:CE08992
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, IVb male soma                                  
                                              enriched genes, ViswanathanM et al 2005  S2 sir-2.1                                
                                              regulated, Zhang et al 2002, T1 mec-3 dependent genes                              

D1014.7 Aff_D1014.7 P W All gene names: D1014.7; 5I599; CE07009; WBGene00017020; WP:CE07009
D1086.2 Aff_D1086.2 P W All gene names: D1086.2; 5O578; CE09060; WBGene00008389; WP:CE09060
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Dauer specific genes                            
                                              P<0.05, ViswanathanM et al 2005  S2 sir-2.1 regulated,                             
                                              Wang et al 2003  S8 SAGE genes in the dauer exit                                   

E02A10.3 Aff_E02A10.3 P W All gene names: E02A10.3; 5N67; CE27751; WBGene00008453; WP:CE27751 WormBase description: calmodulin-like 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  S3  genes pass one-way ANOVA, Wang et                             
                                              al 2003  S4 Dauer Enriched, Wang et al 2003  S8 SAGE                               
                                              genes in the dauer exit, Wang et al 2003  S4 genes pass                            
                                              two-wayANOVA P0                                                                    

F07A5.5 Aff_F07A5.5 P W All gene names: sue-1; F07A5.5; 1H940; CE05558; NM_059682; WBGene00006306; WP:CE05558 WormBase description: C2 domain
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Dauer specific genes                            
                                              P<0.05, ViswanathanM et al 2005  S2 sir-2.1 regulated,                             
                                              Wang et al 2003  S7 SAGE genes in the dataset, Wang et                             
                                              al 2003  S8 SAGE genes in the dauer exit                                           

F07C3.2 Aff_F07C3.2 P W All gene names: F07C3.2; 5J707; CE39239; WBGene00017193; WP:CE39239
F09F3.5 Aff_F09F3.5 P W All gene names: F09F3.5; 5O333; CE20661; WBGene00008627; WP:CE20661 WormBase description: peroxidase like
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Dauer specific genes                            
                                              P<0.05, ViswanathanM et al 2005  S2 sir-2.1 regulated,                             
                                              ViswanathanM et al 2005  S2 daf-16 Resveratrol, Wang et                            
                                              al 2003  S7 SAGE genes in the dataset, Wang et al 2003                             
                                              S8 SAGE genes in the dauer exit                                                    

F22F4.1 Aff_F22F4.1 P W All gene names: F22F4.1; CE07126; WBGene00017716; WP:CE07126; XG625
                                              
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, 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                                                      

F28F9.1 Aff_F28F9.1 P W All gene names: zag-1; F28F9.1; F28F9.1.1; F28F9.1.2; 4E625; CE34546; NM_068023; WBGene00006970; WP:CE34546 WormBase description: zag-1 encodes a homeodomain protein of the ZFH class which consists of a homeodomain flanked by two clusters of C2H2-type zinc fingers and is related to transcriptional repressors encoded by Drosophila zfh-1 and the vertebrate ZEB genes; ZAG-1 is required for locomotion, for neuronal differentiation, and for proper axonal branching and fasciculation; from late embryogenesis through adult stages of development, ZAG-1 is expressed dynamically in head and tail neurons and in the intestinal and anal depressor muscles. WormBase CDS description: zinc-finger homeodomain protein
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Non dauer genes                                 
                                              P<0.05, McCarroll et al 2004  SFig1-4 conserved w/                                 
                                              Drosoph                                                                            

F33D11.8 Aff_F33D11.8 P W All gene names: F33D11.8; 1G428; CE29785; WBGene00018005; WP:CE29785
F35C12.2 Aff_F35C12.2 P W All gene names: ncx-4; F35C12.2; 1K387; CE28020; NM_060203; WBGene00003569; WP:CE28020 WormBase description: Na/Ca,K exchanger
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              daf-16 Resveratrol                                                                 

F35E2.8 Aff_F35E2.8 P W All gene names: F35E2.8; 1M309; CE17777; WBGene00009415; WP:CE17777 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):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

F40A3.4 Aff_F40A3.4 P W All gene names: F40A3.4; 5I355; CE33643; WBGene00018219; WP:CE33643
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

F42G9.9 Aff_F42G9.9 P W All gene names: ptl-1; tau-1; F42G9.9; F42G9.9a.1; F42G9.9a.2; F42G9.9b.1; F42G9.9b.2; F42G9.9c.1; F42G9.9c.2; F42G9.9d.1; F42G9.9d.2; 3B387; CE24967; CE28321; CE28322; CE30793; WBGene00004212; WP:CE24967; WP:CE28321; WP:CE28322; WP:CE30793 WormBase description: ptl-1 encodes a microtubule-binding protein that is homologous to members of the tau/MAP2/MAP4 subfamily of microtubule-associated proteins (OMIM:157140, abnormal aggregates of hyperphosphorylated tau are associated with several neurodegenerative disorders, including Alzheimer's disease, Pick's disease, and corticobasal degeneration); by homology, PTL-1 is predicted to promote microtubule assembly and stability, and to play a role in maintaining neuronal integrity and axonal transport; in vitro, bacterially expressed PTL-1 can bind microtubules; ptl-1 mRNA is expressed at highest levels in the embryo and early larval stages, while PTL-1 is detected in embryonic hypodermis and head neurons and then in the mechanosensory neurons, ALML, ALMR, AVM, PLML, and PLMR, in larvae and adults; as loss of ptl-1 function via mutation or large-scale RNAi screens does not result in any obvious abnormalities, the precise role of PTL-1 in C. elegans development and/or behavior is not yet known.
                                              
Member of lists (Publications lists):
                                              Lund et al 2002  Fig3B neuro-specific                             
                                              genes, ViswanathanM et al 2005  S2 sir-2.1 regulated,                              
                                              ViswanathanM et al 2005  S2 daf-16 Resveratrol                                     

F45E10.1 Aff_F45E10.1 P W All gene names: unc-53; F45E10.1; 2L348; CE31346; CE31347; CE33783; CE34019; CE34020; NM_171039; WBGene00006788; WP:CE31346; WP:CE31347; WP:CE33783; WP:CE34019; WP:CE34020 WormBase description: UNC-53 encodes at least five large (~1200-1600 residue) proteins, orthologous to human NAV1, NAV2/RAINB1 (OMIM:607026), and NAV3, and homologous to Drosophila CG10662; UNC-53 proteins are required for anteroposterior guidance of migrating cells and axons, and for egg-laying, correct backward locomotion, full body size, and male mating; UNC-53 proteins vary in their N-terminal regions but share common C-terminal sequences with an AAA-ATPase domain; UNC-71 binds B0336.6 in a yeast two-hybrid screen, and interacts both physically and genetically with SEM-5; unc-53 is expressed in those cells requiring it, suggesting that its function is cell-autonomous; overexpression of unc-53 induces excess cellular outgrowth.
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              sir-2.1 regulated                                                                  

F46F2.2 Aff_F46F2.2 P W All gene names: kin-20; F46F2.2; F46F2.2a.1; F46F2.2a.2; F46F2.2d.1; F46F2.2d.2; CE38356; CE38358; CE38359; CE39502; NM_078132; NM_182447; WBGene00002203; WP:CE38356; WP:CE38358; WP:CE38359; WP:CE39502; XP888 WormBase description: casein kinase I (epsilon/delta)
                                              
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 B                                                                          

F46F3.2 Aff_F46F3.2 P W All gene names: F46F3.2; 5M150; CE31948; WBGene00009790; WP:CE31948 WormBase description: gamma-aminobutyric-acid receptor
F53B6.6 Aff_F53B6.6 P W All gene names: F53B6.6; 1J530; CE10900; WBGene00009961; WP:CE10900 WormBase description: cuticulin
F57B7.1 Aff_F57B7.1 P W All gene names: F57B7.1; 5L921; CE05989; CE31009; WBGene00010191; WP:CE05989; WP:CE31009 WormBase description: G-protein coupled receptor
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              daf-16 Resveratrol, Wang et al 2003  S4 TransientList,                             
                                              Wang et al 2003  S3  genes pass one-way ANOVA, Wang et                             
                                              al 2003  S4 genes pass two-wayANOVA P0                                             

F57F5.2 Aff_F57F5.2 P W All gene names: gcy-33; F57F5.2; 5M476; CE34891; NM_073609; WBGene00001553; WP:CE34891 WormBase description: guanylate cyclase
F58A4.11 Aff_F58A4.11 P W All gene names: gei-13; F58A4.11; 3K722; CE00217; NM_066733; WBGene00001570; WP:CE00217 WormBase description: gei-13 encodes a protein, with a BED finger domain (predicted to be DNA-binding) and a glutamine/asparagine-rich domain; GEI-13 physically interacts with GEX-3, and is required for normal body shape, cuticle synthesis, and locomotion.
                                              
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, 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                                                         

F58H1.3 Aff_F58H1.3 P W All gene names: F58H1.3; 5M415; CE39510; WBGene00010286; WP:CE39510 WormBase description: E-1 enzyme
                                              
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, fem1 enriched genes, 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, ViswanathanM et al 2005  S2                                  
                                              daf-16 Resveratrol                                                                 

H14E04.1 Aff_H14E04.F P W All gene names: H14E04.1; H14E04.F; 3D495; CE29973; WBGene00019198; WP:CE29973 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, Reinke et al 2004, list of genes in cluster                              
                                              order, Reinke et al 2004, list of genes in cluster B                               

H38K22.5 Aff_H38K22.5 P W All gene names: gly-6; H38K22.5; H38K22.5c.1; H38K22.5c.2; 3F414; CE18833; CE28040; CE28041; WBGene00001631; WP:CE18833; WP:CE28040; WP:CE28041 WormBase description: Glycosyl transferases
K10C3.3 Aff_K10C3.3 P W All gene names: zig-1; K10C3.3; 1K427; CE30349; NM_060207; WBGene00006978; WP:CE30349 WormBase description: IG superfamily repeats (I-type)
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

K10D3.4 Aff_K10D3.4 P W All gene names: K10D3.4; 1H712; CE06173; WBGene00010738; WP:CE06173 WormBase description: serine proteinase inhibitor (kunitz type)
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol, ViswanathanM et al 2005 S2 Resveratrol                                
                                              regulate WT                                                                        

K11C4.5 Aff_K11C4.5 P W All gene names: kra-1; ryr-1; unc-68; K11C4.5; 5H382; CE12116; NM_072352; WBGene00006801; WP:CE12116 WormBase description: unc-68 encodes a ryanodine receptor ortholog that is expressed in body-wall muscle cells and is required for normal body tension and locomotion; unc-68 mutants are flaccid, sluggish, and resistant to ryanodine, but have normal muscle ultrastructure; UNC-68 is dispensable for excitation-contraction coupling itself, but may amplify its calcium signals; the unc-68/kra-1(kh30) mutation is an S1444N substitution at a putative protein kinase C phosphorylation site; UNC-68 reduced unc-103(sy557)-induced spicule protraction by one half; unc-68 is orthologous to the human genes RYR1 (OMIM:180901, mutated in malignant hyperthermia and central core disease), RYR2 (OMIM:180902, mutated in stress-induced polymorphic ventricular tachycardia), and RYR3 (OMIM:180903). WormBase CDS description: ryanodine receptor
                                              
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, ViswanathanM et al 2005  S2 sir-2.1                                     
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol                                                                        

R07B7.11 Aff_R07B7.11 P W All gene names: gana-1; R07B7.11; 5M569; CE06273; NM_073630; WBGene00011095; WP:CE06273 WormBase description: R07B7.11 is orthologous to the human gene ALPHA-GALACTOSIDASE B (GALB; OMIM:104170), which when mutated leads to Schindler disease, Kanzaki disease, or NAGA deficiency. WormBase CDS description: alpha-N-acetylgalactosaminidase
                                              
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 B, Romagnolo et al 2002  Fig3b Metabolism,                                 
                                              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                                                 

R07E3.6 Aff_R07E3.6 P W All gene names: R07E3.6; CE02300; WBGene00011107; WP:CE02300; XK939
                                              
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 daf-16                                      
                                              Resveratrol, 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                                                      

R08D7.7 Aff_R08D7.7 P W All gene names: R08D7.7; 3K85; CE01048; WBGene00011147; WP:CE01048 WormBase description: Carbohydrate kinase
                                              
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, list of genes in cluster B,                              
                                              ViswanathanM et al 2005  S2 daf-16 Resveratrol                                     

R186.6 Aff_R186.6 P W All gene names: R186.6; 5N438; CE20030; WBGene00011307; WP:CE20030 WormBase description: Rhodanese-like domain
                                              
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 daf-16                                      
                                              Resveratrol, 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                                                         

T02E9.1 Aff_T02E9.1 P W All gene names: T02E9.1; 5L832; CE13062; WBGene00011381; WP:CE13062 WormBase description: G-protein coupled receptor
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol, 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                                                

T03F7.1 Aff_T03F7.1 P W All gene names: snf-11; T03F7.1; T03F7.1.1; T03F7.1.2; 5L784; CE06344; NM_073472; WBGene00004910; WP:CE06344 WormBase description: Na(+)/Cl(-)-dependent GABA transporter
                                              
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, 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                                                                              

T04H1.7 Aff_T04H1.7 P W All gene names: ugt-55; T04H1.7; 5M737; CE31984; WBGene00011452; WP:CE31984 WormBase description: UDP-sugartransferase
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, mixed sperm soma,                              
                                              Reinke et al 2004, GO categories, Reinke et al 2004,                               
                                              fem3 enriched genes, ViswanathanM et al 2005  S2 daf-16                            
                                              Resveratrol, Wang et al 2003  S6 removed genes of                                  
                                              contamination                                                                      

T07C12.11 Aff_T07C12.11 P W All gene names: T07C12.11; 5K442; CE35612; WBGene00011575; WP:CE35612
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

T19C4.1 Aff_T19C4.1 P W All gene names: T19C4.1; 5L629; CE06465; WBGene00011838; WP:CE06465
                                              
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, 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                                                               

T20G5.6 Aff_T20G5.6 P W All gene names: unc-47; T20G5.6; 3L274; CE25119; NM_066854; WBGene00006783; WP:CE25119 WormBase description: unc-47 encodes a novel transmembrane vesicular GABA transporter; UNC-47 and UNC-46, a predicted novel transmembrane protein, are required in GABAergic neurons for all GABA neurotransmission, specifically for loading of GABA into synaptic vesicles, where UNC-47 is localized; UNC-47 is required for the localization of UNC-46, and when overexpressed can rescue unc-46 mutant animals; UNC-47 expression in type D neurons is transcriptionally regulated by the UNC-30 homeodomain protein.
                                              
Member of lists (Publications lists):
                                              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                                                                        

T23D8.2 Aff_T23D8.2 P W All gene names: tsp-7; T23D8.2; 1K546; CE26006; NM_060235; WBGene00006633; WP:CE26006 WormBase description: tetraspanin
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

T24F1.6 Aff_T24F1.6 P W All gene names: tag-180; T24F1.6; 2L614; CE36207; CE36208; WBGene00007041; WBGene00011998; WP:CE36207; WP:CE36208 WormBase description: calcium channel alpha-2 subunit
T28D6.4 Aff_T28D6.4 P W All gene names: T28D6.4; T28D6.4.1; T28D6.4.2; 3M451; CE16523; WBGene00012124; WP:CE16523 WormBase description: Ank repeat (8 domains)
                                              
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 B                                                                          

T28F2.4 Aff_T28F2.4 P W All gene names: T28F2.4; 1E200; CE28497; CE37050; WBGene00020902; WP:CE28497; WP:CE37050
                                              
Member of lists (Publications lists):
                                              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                                             

VF13D12L.1 Aff_C47D12.9 P W All gene names: VF13D12L.1; VF13D12L.1.1; VF13D12L.1.2; 2L990; CE31076; WBGene00012148; WP:CE31076 WormBase description: myo-inisitol-1-phosphate synthase
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig5 conserved                             
                                              w/ yeast, ViswanathanM et al 2005  S2 sir-2.1 regulated                            

W01A11.3 Aff_W01A11.3 P W All gene names: unc-83; W01A11.3; 5G967; CE31077; NM_072245; WBGene00006815; WP:CE31077 WormBase description: unc-83 encodes a novel transmembrane protein; during development, unc-83 activity is required for nuclear migrations in P cells, hyp7 hypodermal precursors, and intestinal cells; unc-83 is thus essential for proper vulva formation, ventral nerve cord development, and locomotion; UNC-83 co-localizes to the nuclear envelope with UNC-84, a conserved nuclear envelope component, and LMN-1/lamin; UNC-83 localization is dependent upon the UNC-84 SUN domain with which it interacts in vitro; as UNC-84 localization does not require UNC-83, UNC-84 is proposed to act upstream of UNC-83 in the pathway controlling nuclear migrations.
W03F11.5 Aff_W03F11.5 P W All gene names: W03F11.5; 1C787; CE39037; WBGene00021008; WP:CE39037
W05B10.4 Aff_W05B10.4 P W All gene names: W05B10.4; 5N149; CE14608; WBGene00012279; WP:CE14608 WormBase description: Ras association (RalGDS/AF-6) domain
                                              
Member of lists (Publications lists):
                                              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                                                                        

W08A12.3 Aff_W08A12.3 P W All gene names: W08A12.3; 5E163; CE14700; WBGene00021080; WP:CE14700
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, wt herm vs wt herm                             
                                              enriched gen, Wang et al 2003  S5 genes common to                                  
                                              feeding ANOVA, Wang et al 2003  S3  genes pass one-way                             
                                              ANOVA                                                                              

W08G11.1 Aff_W08G11.1 P W All gene names: W08G11.1; 5Q829; CE16558; WBGene00012346; WP:CE16558
Y105E8A.6 Aff_Y105E8A.V P W All gene names: unc-95; Y105E8A.6; Y105E8C.S; 1O974; CE31857; NM_170938; WBGene00006824; WP:CE31857 WormBase description: unc-95 encodes a LIM domain-containing protein related to Drosophila and vertebrate paxillins; UNC-95 is required for locomotion and organization of thick and thin filaments in body wall muscle; by homology, UNC-95 may function as an anchor protein that links signaling and cytoskeletal proteins at focal adhesions; in vitro, UNC-95 interacts with RNF-5, a RING finger protein that may function as an E3 ligase to regulate UNC-95 levels via ubiquitin-mediated degradation; UNC-95 is expressed in body-wall and vulval muscles, and co-localizes with RNF-5 to muscle dense bodies (focal adhesion-like attachment sites).
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, list of genes in                               
                                              cluster order, Reinke et al 2004, list of genes in                                 
                                              cluster C                                                                          

Y17D7C.1 Aff_Y17D7C.1 P W All gene names: Y17D7C.1; 5T189; CE16596; WBGene00012455; WP:CE16596
Y38C1BA.2 Aff_Y41D4A_4723.B P W All gene names: snn-1; Y38C1BA.2; 4C570; CE28520; CE31645; NM_171276; NM_171277; WBGene00004913; WP:CE28520; WP:CE31645; syn
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              sir-2.1 regulated                                                                  

Y39A3CR.5 Aff_Y39A3C_83.C P W All gene names: Y39A3CR.5; 3C947; CE33944; WBGene00021445; WP:CE33944
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 daf-16                                      
                                              Resveratrol                                                                        

Y39A3CR.6 Aff_Y39A3C_83.B P W All gene names: Y39A3CR.6; 3C945; CE29998; WBGene00021446; WP:CE29998
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

Y41C4A.11 Aff_Y41C4A.11 P W All gene names: Y41C4A.11; 3M811; CE20251; WBGene00012757; WP:CE20251 WormBase description: Y41C4A.11 encodes a divergent paralog of F38E11.5, the beta' (beta-prime) subunit of the coatomer (COPI) complex; unlike F38E11.5, Y41C4A.11 has no obvious function in mass RNAi assays. WormBase CDS description: WD domain, G-beta repeat
                                              
Member of lists (Publications lists):
                                              Jones et al 2001  Non dauer genes                                 
                                              P<0.05, Reinke et al 2004, list of genes in cluster                                
                                              order, Reinke et al 2004, list of genes in cluster C,                              
                                              Reinke et al 2004, wt herm vs wt herm enriched gen,                                
                                              ViswanathanM et al 2005  S2 sir-2.1 regulated                                      

Y45F10D.13 Aff_Y45F10D.13 P W All gene names: tag-208; Y45F10D.13; CE39436; WBGene00012891; WP:CE39436 WormBase description: Src homology domain 3 (3 domains)
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

Y46G5A.17 Aff_Y46G5.I P W All gene names: cpt-1; Y46G5A.17; Y46G5A.17.1; Y46G5A.17.2; 2N80; CE36414; WBGene00012907; WP:CE36414 WormBase description: Y46G5A.17 is orthologous to the human gene SIMILAR TO CARNITINE PALMITOYLTRANSFERASE I, LIVER (CPT1A; OMIM:600528), which when mutated leads to disease.
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

Y47D3A.25 Aff_Y47D3A.BB P W All gene names: rab-35; Y47D3A.25; Y47D3A.25.1; Y47D3A.25.2; 3M396; CE24336; NM_067053; WBGene00004284; WP:CE24336 WormBase description: rab-35 encodes a small, monomeric Rab GTPase that is most closely related to the human and Drosophila Rab35 GTPases; by homology, RAB-35 is predicted to function as a membrane-associated GTPase required for intracellular vesicular trafficking and for regulation of endo- and exocytosis; however, as loss of rab-35 function via RNA-mediated interference (RNAi) does not result in any obvious abnormalities, the precise role of RAB-35 in C. elegans development and/or behavior is not yet known.
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph, ViswanathanM et al 2005  S2                                  
                                              daf-16 Resveratrol                                                                 

Y49G5A.1 Aff_Y49G5A.A P W All gene names: Y49G5A.1; Y49G5A.A; 5F762; CE22273; WBGene00021731; WP:CE22273 WormBase description: trypsin inhibitor
                                              
Member of lists (Publications lists):
                                              Portman et al 2004  T1 25 candidate                               
                                              ray genes, ViswanathanM et al 2005  S2 sir-2.1                                     
                                              regulated                                                                          

Y54E5B.1 Aff_Y54E5B.1 P W All gene names: smp-1; Y54E5B.1; Y54E5B.1b.1; Y54E5B.1b.2; 1P407; CE19225; CE29065; NM_061181; WBGene00004889; WP:CE19225; WP:CE29065; cesema
                                              
Member of lists (Publications lists):
                                              McCarroll et al 2004  SFig1-4                                     
                                              conserved w/ Drosoph                                                               

Y55D5A.3 Aff_Y55D5A_392.C P W All gene names: Y55D5A.3; 3E58; CE27498; WBGene00021917; WP:CE27498
Y66A7A.2 Aff_Y66A7A.2 P W All gene names: Y66A7A.2; 3M576; CE22751; WBGene00013422; WP:CE22751
Y70C5C.2 Aff_Y70C5C.2 P W All gene names: clec-9; Y70C5C.2; 5R182; CE35697; WBGene00013493; WP:CE35697 WormBase description: CUB domain, Lectin C-type domain short and long forms
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated                                                                          

Y71F9B.5 Aff_Y71F9B_287.C P W All gene names: lin-17; Y71F9B.5; Y71F9B.5b.1; Y71F9B.5b.2; Y71F9B_287.C; 1D285; CE25569; CE28810; NM_058627; WBGene00003006; WP:CE25569; WP:CE28810 WormBase description: lin-17 encodes one of four C. elegans Frizzled homologs, integral membrane proteins that contain an external cysteine rich domain (CRD) and seven transmembrane domains and that function in a wide variety of species as receptors for Wnt glycoprotein signaling molecules; LIN-17 activity is required for specifying the polarity of a number of asymmetric cell divisions that, in C. elegans, are essential for development of such structures as the vulva, somatic gonad, and tail; LIN-17 is also required for the proper polarity of neuronal migrations along the anterior-posterior axis; genetic interactions indicate that LIN-17 likely functions as a receptor for several different Wnt molecules, including LIN-44 and EGL-20, and that in specifying cell fates, the LIN-17-mediated signaling pathway often functions redundantly with other signaling pathways, including the RTK/Ras pathway; a LIN-17 translational reporter fusion shows membrane-associated expression in all of the Pn.pxx vulval precursor cells, in the descendants of V6 and T in males, in the P11.p and B cells, as well as their daughters, and granddaughters, and weakly in P10.p and its daughters; the reporter fusion does not reveal expression in P7.p, Z1, Z4, and T
                                              
Member of lists (Publications lists):
                                              Reinke et al 2004, wt herm vs wt herm                             
                                              enriched gen, ViswanathanM et al 2005  S2 sir-2.1                                  
                                              regulated                                                                          

Y73C8C.2 Aff_Y73C8C.2 P W All gene names: Y73C8C.2; 5D599; CE36051; WBGene00022261; WP:CE36051
ZC15.2 Aff_ZC15.2 P W All gene names: ZC15.2; 5U781; CE23440; WBGene00013831; WP:CE23440
                                              
Member of lists (Publications lists):
                                              Wang et al 2003  S4 TransientList,                                
                                              Wang et al 2003  S3  genes pass one-way ANOVA, Wang et                             
                                              al 2003  S4 genes pass two-wayANOVA P0                                             

ZK856.4 Aff_ZK856.4 P W All gene names: ZK856.4; 5K665; CE06661; WBGene00014105; WP:CE06661
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 daf-16                                
                                              Resveratrol