Chi et al. 2006, ST variably Up in all 3 mutants, 42 genes

Gene list file name:Chi2006_Gp3_VariablyUp-in-mutants
Type of gene identifier:Cosmid name
Description:Chi et al 2006 Supplemental Table 42 genes variably up-regulated in all three mutants.  
Organism:Caenorhabditis elegans (nematode)
Gene list type:Experimental

Gene name             Source Gene ID          Annotation                                                  Date       Added by    

B0280.4 B0280.4 P W All gene names: odd-1; B0280.4; 3I197; CE34633; NM_066151; ODD1_CAEEL; WBGene00003845; WP:CE34633 WormBase description: odd-1 encodes a C2H2-type zinc finger-containing transcription factor similar to Drosophila odd skipped which is required for embryonic patterning; ODD-1 is expressed in the gut during embryogenesis and appears to be essential for larval development.
C01B4.9 C01B4.9 P W All gene names: C01B4.9; C01B4.E; 5C958; CE20478; WBGene00015273; WP:CE20478
C04F6.3 C04F6.3 P W All gene names: cht-1; C04F6.3; C04F6.3.1; C04F6.3.2; CE03923; CHIT_CAEEL; CHT1; NM_076187; WBGene00000503; WP:CE03923; XE16 WormBase description: cht-1 encodes a chitinase orthologous to human chitinase-1 (OMIM:600031, mutations are associated with chitotriosidase deficiency); CHT-1 is predicted to function as an extracellular O-glycosyl hydrolase that hydrolyzes the glycosidic bond between two or more carbohydrates; in C. elegans, CHT-1 may play a role in embryogenesis, and may also be required for cuticle degradation during molting and degradation of chitin-containing pathogens as part of a host defense mechanism. WormBase CDS description: glycosyl hydrolase (family 18)
C08D8.1 C08D8.1 P W All gene names: C08D8.1; 5I827; CE03976; WBGene00015592; WP:CE03976
C09B8.6 C09B8.6 P W All gene names: hsp-25; C09B8.6; C09B8.6c.1; C09B8.6c.2; C09B8.6c.3; C09B8.6c.4; CE02466; CE33558; CE37953; Q17849_CAEEL; WBGene00002023; WP:CE02466; WP:CE33558; WP:CE37953; XG654 WormBase description: Small heat shock protein
C09G5.7 C09G5.7 P W All gene names: C09G5.7; 2L5; CE01487; WBGene00007489; WP:CE01487; YQ37_CAEEL
C27F2.2 C27F2.2 P W All gene names: nca-2; C27F2.2; C27F2.3; 3G69; CE38941; NM_065653; WBGene00003558; WP:CE38941 WormBase description: nca-2 encodes a four-domain, voltage-gated ion channel; NCA-2 is required for normal rates of movement and may function with NCA-1, another voltage-gated ion channel, to regulate locomotion; NCA-2 is expressed in the nerve ring, ventral cord motorneurons, and a subset of tail neurons. WormBase CDS description: calcium channel subunit
C50B6.8 C50B6.8 P W All gene names: nhr-168; C50B6.8; 5N814; CE31895; WBGene00008221; WP:CE31895 WormBase description: Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains) (2 domains)
C54D10.10 C54D10.10 P W All gene names: C54D10.10; 5M926; CE05506; WBGene00008304; WP:CE05506 WormBase description: serine protease inhibitor
F08F3.9 F08F3.9 P W All gene names: F08F3.9; 5F916; CE09264; CE30743; WBGene00017265; WP:CE09264; WP:CE30743
F17C8.6 F17C8.6 P W All gene names: F17C8.6; 3F834; CE00960; WBGene00008911; WP:CE00960
F35E12.10 F35E12.10 P W All gene names: F35E12.10; 5O226; CE38509; WBGene00009434; WP:CE38509
F36D3.4 F36D3.4 P W All gene names: F36D3.4; 5Q996; CE15968; WBGene00009470; WP:CE15968
F36H12.7 F36H12.7 P W All gene names: msp-19; F36H12.7; 4G25; CE02806; NM_068359; WBGene00003426; WP:CE02806 WormBase description: msp-19 encodes a protein that belongs to a family of proteins called the Major Sperm Proteins (MSPs) that is conserved in nematodes; msp-19 has a homolog in C. briggsae as predicted by the Wobble Aware Bulk Aligner (WABA); the msp gene family consists of closely related, small, basic proteins that make up 15% of sperm protein; this multigene family consists of over fifty genes, including many pseudogenes; MSPs are involved in both extracellular signaling and cytoskeletal functions during reproduction-MSP antagonizes Eph/ephrin signaling, in part, by binding VAB-1 Eph receptor tyrosine kinase on oocytes and sheath cells to promote oocyte maturation and MAPK activation; MSPs assemble into fibrous networks that drive movement of the C. elegans sperm; msp genes are expressed only in late primary spermatocytes. WormBase CDS description: major sperm protein MSP-19
F38E1.10 F38E1.10 P W All gene names: F38E1.10; 5I854; CE04528; WBGene00018182; WP:CE04528
F40E10.1 F40E10.1 P W All gene names: hch-1; nas-34; F40E10.1; CE24964; NAS34_CAEEL; NM_078039; WBGene00001828; WP:CE24964; XP316 WormBase description: hch-1 encodes a member of the zinc-dependent metalloprotease family that contains an epidermal growth factor-like domain, a CUB domain, and a TSP1 domain and affects hatching and QL neuroblast migration. WormBase CDS description: metalloprotease
F42E11.4 F42E11.4 P W All gene names: tni-1; F42E11.4; CE03311; NM_077505; TNNI1_CAEEL; WBGene00006584; WP:CE03311; XL994 WormBase description: tni-1 encodes a member of the troponin family that affects body morphology, locomotion, egg laying, and epithelial morphogenesis in a large-scale RNAi analysis. WormBase CDS description: troponin I
F46E10.2 F46E10.2 P W All gene names: F46E10.2; F46E10.2.1; F46E10.2.2; F46E10.C; F46E10.H; F46E10.J; 5H1; CE20813; WBGene00018489; WP:CE20813
F55C5.9 F55C5.9 P W All gene names: srh-16; F55C5.9; 5M773; CE33111; NM_073683; WBGene00005241; WP:CE33111 WormBase description: G-protein coupled receptor, srh family
F56D1.6 F56D1.6 P W All gene names: cex-1; F56D1.6; 2F739; CE01974; CEX1_CAEEL; NM_062633; WBGene00018962; WBGene00023407; WP:CE01974 WormBase description: calcium binding protein (weak)
F56G4.2 F56G4.2 P W All gene names: pes-2; vet-4; F56G4.2; 1L947; CE18757; WBGene00003977; WP:CE18757 WormBase description: pes-2 encodes a protein containing a predicted signal sequence and an F-box, a motif believed to mediate protein-protein interactions either with homologs of yeast Skp1p or with other proteins; pes-2 was identified in two different molecular screens, a promoter-trapping screen and a screen for genes that are preferentially transcribed in pre-gastrulation embryos; by homology, pes-2 is predicted to function in ubiquitin-proteasome mediated protein degradation; pes-2 may also play a role in lifespan determination, as its expression is downregulated in young adult worms containing loss-of-function mutations in the daf-2 insulin/IGF-1 receptor, and loss of pes-2 function via RNA-mediated interference (RNAi) can enhance animal survival rates; pes-2 expression is first detected in 4- to 8-cell stage embryos, continues in early embryogenesis in cells from the AB, MS, and E founder cell lineages, and in later embryogenesis is becomes restricted to hypodermal cells; expression in larvae and adults has not yet been reported.
F56G4.3 F56G4.3 P W All gene names: F56G4.3; 1L950; WBGene00010158
F57A10.2 F57A10.2 P W All gene names: F57A10.2; 5Q247; CE16148; WBGene00010184; WP:CE16148
JC8.8 JC8.8 P W All gene names: JC8.8; JC8.8.1; JC8.8.2; 4O16; CE33800; WBGene00010440; WP:CE33800 WormBase description: Transthyretin-like family
K01D12.11 K01D12.11 P W All gene names: cdr-4; K01D12.11; 5M886; CE06050; NM_073709; WBGene00010470; WP:CE06050 WormBase description: glutathione S-transferase
K08C7.3 K08C7.3 P W All gene names: egf-3; epi-1; lgx-3; K08C7.3; 4L443; CE06136; CE25049; LAML2_CAEEL; NM_069569; WBGene00001328; WP:CE06136; WP:CE25049 WormBase description: epi-1 encodes a laminin alpha chain that affects oogenesis due to its affect on gonad development, and also affects cell migrations, axon extension and GABAergic defasciculation, morphology of the VD and DD motor neurons, body morphology, locomotion, gonad sheath epithelialization, body muscle structure, and germ cell proliferation. WormBase CDS description: laminin
R13H9.2 R13H9.2 P W All gene names: msp-57; R13H9.2; 4F827; MSP55_CAEEL; NM_068312; WBGene00003450 WormBase description: msp-57 encodes a member of the major sperm protein family. WormBase CDS description: major sperm protein (MSP-57)
R151.5 R151.5 P W All gene names: dpy-31; nas-35; toh-2; R151.5; 3I295; CE27200; CE37139; NAS35_CAEEL; WBGene00006592; WP:CE27200; WP:CE37139 WormBase description: dpy-31 encodes an astacin zinc-metalloprotease of the BMP-1 (bone morphogenetic protein-1)/TOLLOID family; dpy-31 activity is required for proper cuticle formation and thus for normal body morphology; in addition, dpy-31 is essential for embryonic and larval development at 25 degrees C; genetic and immunofluorescence studies suggest that DPY-31 functions as an endopeptidase that is required for processing, and ultimately proper extracellular assembly, of the SQT-3 cuticle collagen; dpy-31 is expressed in most hypodermal cells, with the exception of larval stage seam cells, throughout the life cycle with particularly strong expression seen during embryonic and larval stages; dpy-31 is also expressed in some head neurons, the amphid socket cells, rectal epithelial cells, and vulval epithelial cells in L4 larvae and adults.
T26F2.2 T26F2.2 P W All gene names: T26F2.2; 5O462; CE14203; WBGene00012058; WP:CE14203
T27E4.8 T27E4.8 P W All gene names: hsp-16.1; hsp-16; T27E4.8; 5J568; CE14249; NM_072953; WBGene00002015; WP:CE14249 WormBase description: hsp-16.1 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-16.11; an hsp-16.1 reporter fusion, expressed broadly but most strongly in muscle and hypodermis, is induced solely in response to heat shock or other environmental stresses; expression is detectable in somatic tissues in post-gastrulation embryos, all larval stages, and in adults; HSP-16.1 is likely to function as a passive ligand temporarily preventing unfolded proteins from aggregating. WormBase CDS description: heat shock protein HSP16-1
T27E4.9 T27E4.9 P W All gene names: hsp-16.49; T27E4.9; 5J570; HSP17_CAEEL; NM_072955; WBGene00002020 WormBase description: hsp-16.49 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-16.48; HSP-16.49 is likely to function as a passive ligand temporarily preventing unfolded proteins from aggregating. WormBase CDS description: heat shock protein HSP16-48
T27E9.2 T27E9.2 P W All gene names: T27E9.2; T27E9.2.1; T27E9.2.2; 3O550; CE14265; WBGene00012094; WP:CE14265 WormBase description: ubiquinol-cytochrome c reductase complexn 11 KD protein
Y19D10A.11 Y19D10A.11 P W All gene names: Y19D10A.11; 5C846; CE23774; WBGene00021226; WP:CE23774
Y46H3A.3 Y46H3A.3 P W All gene names: hsp-16.2; Y46H3A.3; Y46H3A.D; 5C282; CE22002; HSP12_CAEEL; NM_071106; WBGene00002016; WP:CE22002 WormBase description: hsp-16.2 encodes a 16-kD heat shock protein (HSP) that is a member of the hsp16/hsp20/alphaB-crystallin (HSP16) family of heat shock proteins; hsp-16.2 expression, strongest in intestine and pharynx, is induced in response to heat shock or other environmental stresses; HSP-16.2 has been shown to interact with intracellular human beta amyloid peptide, a primary component of the extracellular plaques found in Alzheimer's disease; HSP-16.2 is likely to function as a passive ligand temporarily preventing unfolded proteins from aggregating. WormBase CDS description: heat shock protein
Y55B1AR.1 Y55B1AR.1 P W All gene names: lec-6; Y55B1AR.1; Y55B1AR.1.1; Y55B1AR.1.2; 3B218; CE22493; NM_064814; WBGene00002269; WP:CE22493 WormBase description: lec-6 encodes a 'proto' type galectin (beta-galactosyl-binding lectin) containing a single carbohydrate recognition domain; by homology, LEC-6 may play roles in cell adhesion and aggregation, proliferation, or programmed cell death, but as loss of lec-6 activity via large-scale RNAi screens does not result in obvious abnormalities, the precise role of LEC-6 in C. elegans development and/or behavior is not yet known; in vitro, LEC-6 can interact with several types of blood group precursor oligosaccharides and gangliosides.
Y55F3BR.4 Y55F3BR.4 P W All gene names: Y55F3BR.4; 4B601; CE30056; WBGene00021941; WP:CE30056
Y59E9AR.7 Y59E9AR.7 P W All gene names: Y59E9AR.7; 4G6; WBGene00022002
Y67D8A.3 Y67D8A.3 P W All gene names: Y67D8A.3; 4E16; CE22786; WBGene00022060; WP:CE22786
Y82E9BR.16 Y82E9BR.16 P W All gene names: Y82E9BR.16; 3C510; CE23368; CE27040; WBGene00022348; WP:CE23368; WP:CE27040