Exposing cultured human cell lines and measuring their responses

Genome
373
Spring
2012
-­‐
Problemset
4
-­‐
Due
Wed
April
25,
by
5pm

(20
pts)
1.
Common
applications
of
massively
parallel
sequencing
technologies
include:
(i)
whole
genome sequencing,
(ii)
exome
sequencing,
(iii)
Methyl-­‐seq,
(iv)
RNA-­‐seq,
and
(v)
ChIP-­‐seq.


For
each
of the
following
studies,
indicate
which
one
sequencing
approach
would
be
most
appropriate. Justify
your
choice
for
each.

(30
pts)
2.
Starting
with
the
code
to
set
up
the
codon
dictionary
from
the
first
script,
write
a
second
script which
accepts
a
DNA
sequence
from
the
command
line,
and
prints
the
resulting
protein sequence.

Your
script
may
assume
that
the
input
is
a
multiple
of
3
bases
long
(i.e.,
there
are
no partial
codons)
and
that
encoded
protein
starts
at
the
first
base
on
the
top
strand.

The
code
for STOP
codons
is
“*”.

>python translate.py ATGGTGGCTGAGTAG MVAE*