Genomics in Education - iPlant Pods - The iPlant Collaborative

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1 Οκτ 2013 (πριν από 3 χρόνια και 8 μήνες)

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Free

Faculty Workshop

2012


Genomics in Education


I
ncorporate b
ioinformatics

and

DNA b
arcoding in
to your t
eaching


University of Wisconsin
-

Madison

August 22
-
23
, 2012


This free

2
-
day

workshop
helps

college faculty

integrate
genome analysis into
courses
and
student research
projects. The workshop features resources produced by the
iPlant Collaborative
, a NSF
-
funded
project to develop
a computer infr
astructure
for plant research
(www.iplantcollaborative.org).
Instruction, workshop materials,
lunches, and
a
$100 stipend are provided by NSF grant funding.


Genomics in Education

focuses on
DNA Subway
(dnasubway.ipla
ntcollaborative.org), an ea
sy
-
to
-
use interface
that introduces
students to bioinformatics

analysis and
provides an entry point

to other research
-
grade tools.
The
Red
Line
assembles mathematical and biological evidence for gene
structure and function. The
Yellow Line
identifies

related genes
in sequenced genomes.

T
he
B
lue Line

integrates
DNA
barcode
information

from wet lab experiments
to
identify organisms
and construct phylogenetic trees.



Day 1:

The workshop beings with an introduction to key
concepts and challenges
o
f modern
genomics
, and bioinformatics methods for

predicting and annotating genes
.
Red Line:

Use gene predictions

and biological evidence to
create gene models
.

Blue Line:

Learn about
DNA
barcoding
,

and

extract DNA from plant sample
s
.


Day 2
:

Red Line:

P
rospect for genes
and assemble gene models
in
up to
150 k
ilobases of
raw DNA
sequence
. Compare g
ene models
with

com
munity annotations
,

and
learn ab
out
resources
available
for student
annotation
projects.


Yellow Line
:
Identify g
ene
and
transposon families

in different plant genomes
.
Blue Line
: Amplify
the
barcode regi
on of the chloroplast genome

by PCR and
send
it
out
for DNA sequencing. (Participant
barcode
result
s are available
for analysis in
48 hours)
.


Key concepts embodied by the lab and bioinformatics work include
:




DNA sequence is
information.



Gene annotation adds meaning to DNA sequence.



A genome is more than
protein coding
genes.



Genome
s are complex and dynamic
.



The c
oncept of

a

gene

and
a
species continue

to evolve.



DNA barcoding bridges molecular genetics, evolution, and conser
vation biology


Travel Awards

We have a travel funds

available

for individuals who are US citizens/permanent residents; participants from groups
under
-
represented in the life
-
sciences or who impact these groups are especially encouraged to apply.


Register for this workshop now at
http://www.iplantcollaborative.org/madisonGinE