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Statistics on big biomedical data - Methods and pitfalls when analyzing high-throughput screens
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Statistics on big biomedical data - Methods and pitfalls when analyzing high-throughput screens
1.
Statistics on big
biomedical data Methods and pitfalls when analyzing high-throughput screens Lars Juhl Jensen
2.
Statistics on big
biomedical data Methods and pitfalls when analyzing high-throughput screens Lars Juhl Jensen
3.
t-test
4.
ANOVA
5.
normal distribution
6.
useful tests
7.
counts
8.
contingency table
9.
Jensen et al.,
Nature Reviews Genetics, 2012
10.
Fisher’s exact test
11.
real numbers
12.
no theoretical distribution
13.
non-parametric statistics
14.
do the medians
differ?
15.
Mann–Whitney U test
16.
medians can mislead
you
17.
do the distributions
differ?
18.
Kolmogorov–Smirnov test
19.
20.
does not tell
how they differ
21.
resampling
22.
Monte Carlo testing
23.
24.
always applicable
25.
compute intensive
26.
multiple testing
27.
xkcd.com
28.
xkcd.com
29.
xkcd.com
30.
xkcd.com
31.
compare multiple condition
32.
Gene Ontology enrichment
33.
Bonferroni
34.
avoid making any
errors
35.
too conservative
36.
Benjamini–Hochberg
37.
control false discovery
rate
38.
assumes independence
39.
resampling
40.
negative set
41.
systematic biases
42.
Huang et al.,
Journal of Proteome Research, 2014
43.
studiedness bias
44.
we study disease
proteins
45.
thus we know
many PTMs
46.
abundance bias
47.
higher expressed
48.
easier to detect
in assays
49.
better characterized
50.
matched background
51.
the big data
effect
52.
if you have
enough data
53.
any difference is
significant
54.
but maybe not
relevant
55.
“significant”
56.
statistical significance
57.
p-value
58.
biological relevance
59.
fold change
60.
relative risk
61.
significant and relevant
62.
volcano plots
63.
Lundby et al.,
Science Signaling, 2013
64.
rather ad hoc
65.
questions?
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