This web page was produced as an assignment for an
undergraduate course at Davidson College.
MICROARRAY DATA FOR NON-ANNOTATED GENE YLR352W
Here I am presenting
many of the same experiments as for my annotated gene. I am trying to see if the microarray data can
offer any insight into the function of this unknown gene.
Expression at different alpha-factor concentrations for YLR352W
Scale : (fold repression/induction)
|
Orf |
Gene |
|
Process |
Function |
Component |
|
|
|
biological_process unknown |
molecular_function unknown |
not yet annotated |
|
|
YTA12 |
|
protein complex assembly* |
adenosinetriphosphatase* |
mitochondrial inner
membrane |
|
|
|
|
biological_process unknown |
molecular_function unknown |
not yet annotated |
|
|
MRP49 |
|
protein biosynthesis |
structural protein of
ribosome |
mitochondrial large
ribosomal subunit |
|
|
STE18 |
|
signal transduction of
mating signal (sensu Saccharomyces) |
heterotrimeric G-protein GTPase,
gamma subunit |
cytoplasm* |
|
|
CNB1 |
|
cell wall organization and
biogenesis* |
calcium-dependent protein
serine/threonine phosphatase |
cytoplasm |
|
|
UFD4 |
|
polyubiquitylation* |
ubiquitin--protein ligase |
cellular_component unknown |
|
|
PEX14 |
|
protein-peroxisome
targeting |
protein binding |
peroxisomal membrane |
Expression in response to alpha-factor for YLR352W
|
Orf |
Gene |
|
Process |
Function |
Component |
|
|
|
biological_process unknown |
molecular_function unknown |
not yet annotated |
|
|
ATH1 |
|
stress response* |
alpha,alpha-trehalase |
vacuole |
|
|
TPS2 |
|
stress response* |
trehalose phosphatase |
alpha,alpha-trehalose-phosphate
synthase (UDP-forming) |
Expression in response to DNA-damaging agents for YLR352W
|
Orf |
Gene |
|
Process |
Function |
Component |
|
|
|
biological_process unknown |
molecular_function unknown |
not yet annotated |
|
|
KNS1 |
|
protein amino acid
phosphorylation |
protein serine/threonine
kinase* |
not yet annotated |
|
|
NTH1 |
|
stress response* |
alpha,alpha-trehalase |
|
Expression during the cell cycle
|
Name |
Score |
Peak |
|
|
0.64 |
|
|
|
|
Reference Genes |
|
||
|
10.9 |
G1 |
|
|
|
10.68 |
S |
|
|
|
3.08 |
G2 |
|
|
|
6.726 |
M |
|
|
|
11.8 |
M/G1 |
|
|
Expression during sporulation for YLR352W
|
Orf |
Gene |
|
Process |
Function |
Component |
|
|
|
biological_process unknown |
molecular_function unknown |
not yet annotated |
|
|
AGP3 |
|
transport |
general amino acid permease |
not yet annotated |
|
|
AMI3 |
|
not yet annotated |
molecular_function unknown |
not yet annotated |
|
|
BST1 |
|
vesicle organization and
biogenesis |
molecular_function unknown |
endoplasmic reticulum* |
|
|
MET16 |
|
methionine metabolism* |
phosphoadenylyl-sulfate
reductase (thioredoxin) |
cellular_component unknown |
|
|
BCY1 |
|
stress response* |
cAMP-dependent protein
kinase inhibitor |
nucleus |
Expression in response to histone depletion for YLR352W
|
Orf |
Gene |
|
Process |
Function |
Component |
|
|
|
biological_process unknown |
molecular_function unknown |
not yet annotated |
|
|
SPR28 |
|
cell wall organization and
biogenesis* |
structural protein of
cytoskeleton |
septin ring (sensu
Saccharomyces) |
|
|
PIF1 |
|
DNA recombination* |
DNA helicase |
mitochondrion |
|
|
PXA1 |
|
transport |
not yet annotated |
not yet annotated |
SUMMARY:
I HAD ORIGINALLY PREDICTED THAT MY NON-ANNOTATED GENE (YLR352W) WOULD HAVE A SIMILAR FUNCTION AS BUD8 BASED ON ITS LOCATION RIGHT NEXT TO BUD8 ON CHROMOSOME XII. BUT, UPON EXAMINING THE MICROARRAY DATA, BUD8 AND YLR352W DO NOT APPEAR TO SHARE EXPRESSION PATTERNS IN ANY OF THE EXPERIMENTS PRESENTED. I HAVE DELETED MOST OF THE OTHER NON-ANNOTATED GENES FROM THESE FIGURES , SO THAT ONLY THOSE GENES WHICH OFFER THE MOST INFORMATION ARE LEFT. THE MOST INTERESTING THING TO NOTE IS THAT FOR THREE OF THE EXPERIMENTS (ALPHA-FACTOR, DNA-DAMAGING AGENTS, AND SPORULATION) GENES CLUSTERED THAT ARE INVOLVED IN STRESS RESPONSE. ANOTHER CONNECTION BETWEEN EXPERIMENTS IS GENES INVOLVED IN PROTEIN BINDING AND STRUCTURE. SO, PERHAPS THIS UNKNOWN GENE IS ALSO INVOLVED IN THESE PROCESSES. THE CELL CYCLE EXPERIMENT WAS UNABLE TO PROVIDE ANY SIMILAR GENES, AND ALSO DID NOT REVEAL A PEAK OF EXPRESSION FOR YLR352W.
REFERENCE
http://genome-www4.stanford.edu/cgi-bin/SGD/expression/expressionConnection.pl,
accessed October 17, 2001.
EMAIL ME AT mrwilson@davidson.edu