what does light intensity in microarrays tell us?

how much the gene is expressed (brighter = more expressed)

A gene is significantly upregulated if...

p-value is low, log2FC is positive

What can this graph tell us?

if the two groups are similar to each other or not

probability that results are all by chance assuming null hypothesis is true

Method of comparing means of multiple groups

how much a gene is differentially expressed

what is computational biology?

analyzing biological data with computer models

An upregulated gene in experimental group is...

more expressed in experimental than control group

How to use GEO data in STRING-db?

multiple proteins -> copy paste top 300 genes from spreadsheet

What is the significance of microarrays?

to compare groups based on gene expression

what does "differentially expressed genes" mean?

genes that are up/downregulated significantly compared to control

Why is mRNA used in microarrays?

mRNA codes for genes, so only mRNA is useful when analyzing gene expression

studbud

Genes and Health contest review p1

31 termsStudBud Administration10 plays

Imported from external platform

Flashcards31 cardsFPractice quizPHost liveL

Questions 31

Answers

1
what does light intensity in microarrays tell us?
how different two groups express the gene
how much the gene is expressed (brighter = more expressed)
none of the above
how much the gene is expressed (brighter = less expressed)
2
GEO2R can help us find differentially expressed genes in a dataset.
False
True
3
A gene is significantly upregulated if...
p-value is low, log2FC is negative
p-value is low, log2FC is positive
p-value is high, log2FC is negative
p-value is high, log2FC is positive
4
What can this graph tell us?
all of the above
how up/downregulated genes are
how statistically significant the genes are
if the two groups are similar to each other or not
5
GEO stands for gene expression omnibus.
False
True
6
A smaller p-value is better (more significant).
False
True
7
GIDAS is (supposed to be) pronounced "guide-us" (not gee-DAS)
False
True
8
What is p-value?
probability that results are all by chance assuming null hypothesis is true
probability for a gene to be mutated
pain value
probability that your hypothesis is true
9
we use STRING-db to...
see which genes are differentially expressed in disease vs control
create cool graphs
look at info for each specific gene
find connections between genes
10
What is this graph?
volcano plot
mean-difference plot
box plot
venn diagram
11
What is a t-test?
Way to find the mean
Measures how likely null hypothesis is true
The standard deviation
Method of comparing means of multiple groups
12
What is log2FC?
how enriched a pathway is
how much a gene is differentially expressed
how likely results are inaccurate
how much a gene is upregulated
13
A p-value of less than ___ is statisically significant.
0.05
0.04
0.4
0.5
14
A positive log2FC means that a gene is downregulated.
False
True
15
what is computational biology?
study of life sciences
study of computer science
analyzing biological data with computer models
none of the above
16
An upregulated gene in experimental group is...
more expressed in experimental than control group
expressed in both groups
more expressed in control than experimental group
expressed in none of the groups
17
How to use GEO data in STRING-db?
multiple proteins -> copy paste top 300 genes from spreadsheet
single protein -> copy paste top 300 genes from spreadsheet
single protein -> copy paste first gene from spreadsheet
multiple proteins -> copy paste first gene from spreadsheet
18
What is the x-axis for a volcano plot?
gene
sample ID
p-value
log2FC
19
a gene with a 0.06 p-value is considered to be...
statistically significant
not statistically significant
20
In GEO, the experimental data should be defined before the control data.
False
True
21
GIDAS stands for...
guacamole in doritos and sauce
gene identification, differential analysis, and statistics
genes in diseases and symptoms
none of the above
22
What is the significance of microarrays?
to look at gene-gene and protein-protein interactions
to observe gene expression and protein synthesis in a certain type of cell
to compare groups based on gene expression
to calculate logFC and p value
23
what does "differentially expressed genes" mean?
genes that are up/downregulated significantly compared to control
calculus and differential equations
the phenotypes and traits expressed as a result of genes
genes that are very up/downregulated in disease compared to control
24
In STRING, if there are many genes found in a specific pathway, then the pathway is...
downregulated
common
depleted
enriched
25
What websites can you use to find more info on individual genes?
OMIM
Genecards
GEO2R
KEGG
26
Why is mRNA used in microarrays?
actually it uses rRNA not mRNA
mRNA translation produces protein, which binds to protein probes
actually it uses tRNA not mRNA
mRNA codes for genes, so only mRNA is useful when analyzing gene expression
27
KEGG is used for finding information about specific genes.
False
True
28
This is a good dataset to use.
True
False
29
what is the process required to convert a gene (DNA) to mRNA?
translation
reverse transcription
replication
transcription
30
What is this graph?
cluster
none of the above
UMAP
volcano plot
31
Where can you find related pathways in STRING?
legend
analysis
exports
settings

Genes and Health contest review p1 Flashcards | StudBud