ViswanathanM et al 2005 S2 UPR genes, 7 genes

Gene list file name:ViswanathanM2005.S2_UPRgenes.txt
Type of gene identifier:MA primer pair (sjj)
Description:ViswanathanM et al 2005 Supplement table: UPR Pathway Genes are not Substantially Induced by Resveratrol  
Organism:Caenorhabditis elegans (nematode)
Gene list type:Experimental

Gene name             Source Gene ID          Annotation                                                  Date       Added by    

C07A12.4 C07A12.4 P W All gene names: pdi-2; C07A12.4; C07A12.4a.1; C07A12.4a.2; CE03972; CE31878; NM_076377; NM_182439; WBGene00003963; WP:CE03972; WP:CE31878; XF145 WormBase description: This gene encodes a protein predicted by Eisenberg and coworkers, with 52% accuracy, to be mitochondrial.
                                              
Member of lists (Publications lists):
                                              Kwon et al 2004 T1 late-induction                                 
                                              Ethanol-response, Link et al 2003  T2 Abeta repressed,                             
                                              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, Roy et                              
                                              al 2002  S3 muscle genes, ViswanathanM et al 2005  S2                              
                                              UPR 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 Climbing, Wang et al 2003                               
                                              S4 genes pass two-wayANOVA P0                                                      

C12C8.1 C12C8.1 P W All gene names: hsp-70; C12C8.1; 1J898; CE08110; NM_060084; WBGene00002026; WP:CE08110 WormBase description: hsp-70 encodes a member of the hsp70 family. WormBase CDS description: heat shock protein 70
                                              
Member of lists (Publications lists):
                                              Custodia et al 2001  T2 heat shock,                               
                                              GuhaThakurta et al 2002  T1 upregu on heat stress,                                 
                                              Jones et al 2001  Dauer specific genes P<0.05, Kwon et                             
                                              al 2004  T1 Class1 rapid-induction Ethanol, Lund et al                             
                                              2002 Aging time course Fig2C heatshock, Lund et al 2002                            
                                               Fig1 aging-regulated genes, Romagnolo et al 2002                                  
                                              Fig2a heat shock, Shen et al 2005  T1 hif-1indepen                                 
                                              hypoxia, ViswanathanM et al 2005  S2 UPR genes,                                    
                                              ViswanathanM et al 2005  S2 sir-2.1 regulated,                                     
                                              ViswanathanM et al 2005  Fig6A Ethanol HS, Wang et al                              
                                              2003  S8 SAGE genes in the dauer exit, Wang et al 2003                             
                                              S7 SAGE genes in the dataset                                                       

C14B1.1 C14B1.1 P W All gene names: pdi-1; C14B1.1; C14B1.1.1; C14B1.1.2; 3E790; CE00897; NM_065345; WBGene00003962; WP:CE00897 WormBase description: This gene encodes a protein predicted by Eisenberg and coworkers, with 52% accuracy, to be mitochondrial. WormBase CDS description: protein disulfide isomerase
                                              
Member of lists (Publications lists):
                                              ViswanathanM et al 2005  S2 sir-2.1                               
                                              regulated, ViswanathanM et al 2005  S2 UPR genes, 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                                                                    

F43E2.8 F43E2.8 P W All gene names: hsp-4; F43E2.8; F43E2.8.1; F43E2.8.2; 2H640; CE07244; NM_063135; WBGene00002008; WP:CE07244 WormBase description: hsp-4 encodes a predicted homolog of the mammalian ER chaperone BiP that affects embryonic and larval viability; expression is most prominent in the spermatheca and transcription of hsp-4 is induced in the gut and in the hypodermis upon ER stress. WormBase CDS description: heat shock protein
                                              
Member of lists (Publications lists):
                                              Kwon et al 2004 T1 late-induction                                 
                                              Ethanol-response, Romagnolo et al 2002  Fig2a heat                                 
                                              shock, ViswanathanM et al 2005  S2 sir-2.1 regulated,                              
                                              ViswanathanM et al 2005  S2 UPR genes                                              

F45D3.5 F45D3.5 P W All gene names: sel-1; sup-25; F45D3.5; F45D3.5.1; F45D3.5.2; 5N43; CE16043; NM_073743; WBGene00004759; WP:CE16043 WormBase description: sel-1 encodes two isoforms of a highly conserved transmembrane protein orthologous to human SEL1 (OMIM:602329) and Saccharomyces cerevisiae HRD3, a member of the HMG-CoA Reductase Degradation (HRD) complex that degrades malfolded endoplasmic reticulum (ER)-resident proteins; SEL-1 functions as a negative regulator of the LIN-12/GLP-1 Notch-like signaling pathway in C. elegans where it appears to function cell autonomously to regulate LIN-12 turnover; along with ABU-1, an ER-associated Type I transmembrane protein, SEL-1 may be a component of a cell survival pathway induced when unfolded proteins accumulate in the ER; SEL-1 is expressed throughout larval and adult stages of development, and detected in all tissues except the pharynx; within cells, SEL-1 appears to localize to intracellular vesicles, consistent with its proposed role in protein turnover. WormBase CDS description: Yeast hypothetical gene L8167.5 like
                                              
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 male enriched                            
                                              gen, ViswanathanM et al 2005  S2 sir-2.1 regulated,                                
                                              ViswanathanM et al 2005  S2 UPR genes                                              

R74.3 R74.3 P W All gene names: xbp-1; R74.3; R74.3.1; R74.3.2; 3F285; CE01056; WBGene00006959; WP:CE01056 WormBase description: xbp-1 encodes a bZIP transcription factor orthologous to yeast Hac1 and mammalian X box-binding protein 1 (XBP-1, OMIM:194355); XBP-1 is required for the unfolded protein response (UPR) that counteracts cellular stress induced by accumulation of unfolded proteins in the endoplasmic reticulum (ER); XBP-1 mRNA is spliced by the IRE-1 endoribonuclease to promote translation of transcriptionally active XBP-1 that positively regulates UPR gene expression to maintain ER homeostasis and promote normal development. WormBase CDS description: X box DNA binding protein-1
                                              
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, ViswanathanM et al 2005  S2 sir-2.1                                     
                                              regulated, ViswanathanM et al 2005  S2 UPR genes                                   

T27E4.2 T27E4.2 P W All gene names: hsp-16.11; T27E4.2; 5J571; NM_072956; WBGene00002017 WormBase description: hsp-16.11 encodes a 16-kD heat shock protein (HSP) that is a member of the hsp16/hsp20/alphaB-crystallin (HSP16) family of heat shock proteins, and that is identical to the protein encoded by hsp-16.1; hsp-16.11 expression is induced in response to heat shock or other environmental stresses; HSP-16.11 is likely to function as passive ligand temporarily preventing unfolded proteins from aggregating; HSP-16.11 has been shown to interact with intracellular human beta amyloid peptide, a primary component of the extracellular plaques found in Alzheimer's disease. WormBase CDS description: heat shock protein HSP16-1
                                              
Member of lists (Publications lists):
                                              Golden et al 2004, N2 differentially                              
                                              expressed gen, GuhaThakurta et al 2002  T1 upregu on                               
                                              heat stress, Romagnolo et al 2002  Fig2a heat shock,                               
                                              ViswanathanM et al 2005  S2 sir-2.1 regulated,                                     
                                              ViswanathanM et al 2005  S2 UPR genes, ViswanathanM et                             
                                              al 2005  Fig6A Ethanol HS