<s>
GeneNetwork	B-Application
is	O
a	O
combined	O
database	O
and	O
open-source	B-Application
bioinformatics	O
data	O
analysis	O
software	O
resource	O
for	O
systems	O
genetics	O
.	O
</s>
<s>
Data	O
sets	O
in	O
GeneNetwork	B-Application
are	O
typically	O
made	O
up	O
of	O
large	O
collections	O
of	O
genotypes	O
(	O
e.g.	O
,	O
SNPs	O
)	O
and	O
phenotypes	O
from	O
groups	O
of	O
individuals	O
,	O
including	O
humans	O
,	O
strains	O
of	O
mice	O
and	O
rats	O
,	O
and	O
organisms	O
as	O
diverse	O
as	O
Drosophila	O
melanogaster	O
,	O
Arabidopsis	O
thaliana	O
,	O
and	O
barley	O
.	O
</s>
<s>
Development	O
of	O
GeneNetwork	B-Application
started	O
at	O
the	O
University	O
of	O
Tennessee	O
Health	O
Science	O
Center	O
in	O
1994	O
as	O
a	O
web-based	O
version	O
of	O
the	O
.	O
</s>
<s>
GeneNetwork	B-Application
is	O
both	O
the	O
first	O
and	O
the	O
longest	O
continuously	O
operating	O
web	O
service	O
in	O
biomedical	O
research	O
[	O
see	O
]	O
.	O
</s>
<s>
GeneNetwork	B-Application
is	O
now	O
developed	O
by	O
an	O
international	O
group	O
of	O
developers	O
and	O
has	O
mirror	O
and	O
development	O
sites	O
in	O
Europe	O
,	O
Asia	O
,	O
and	O
Australia	O
.	O
</s>
<s>
A	O
the	O
current	O
production	O
version	O
of	O
GeneNetwork	B-Application
(	O
also	O
known	O
as	O
GN2	O
)	O
was	O
released	O
in	O
2016	O
.	O
</s>
<s>
The	O
current	O
version	O
of	O
GeneNetwork	B-Application
uses	O
the	O
same	O
database	O
as	O
its	O
predecessor	O
,	O
GN1	O
,	O
but	O
has	O
much	O
more	O
modular	O
and	O
maintainable	O
open	B-Application
source	I-Application
code	I-Application
(	O
available	O
on	O
)	O
.	O
</s>
<s>
GeneNetwork	B-Application
now	O
also	O
has	O
significant	O
new	O
features	O
including	O
support	O
for	O
:	O
</s>
<s>
GeneNetwork	B-Application
consists	O
of	O
two	O
major	O
components	O
:	O
</s>
<s>
The	O
system	O
is	O
implemented	O
as	O
a	O
LAMP	B-Application
(	O
software	O
bundle	O
)	O
stack	O
.	O
</s>
<s>
Code	O
and	O
a	O
simplified	O
version	O
of	O
the	O
MariaDB	B-Application
database	O
are	O
available	O
on	O
.	O
</s>
<s>
GeneNetwork	B-Application
is	O
primarily	O
used	O
by	O
researchers	O
,	O
but	O
has	O
also	O
been	O
adopted	O
successfully	O
for	O
undergraduate	O
and	O
graduate	O
courses	O
in	O
genetics	O
and	O
bioinformatics	O
(	O
see	O
)	O
,	O
bioinformatics	O
,	O
physiology	O
,	O
and	O
psychology	O
.	O
</s>
<s>
GeneNetwork	B-Application
includes	O
annotation	O
files	O
for	O
several	O
RNA	O
profiling	O
platforms	O
(	O
Affymetrix	O
,	O
Illumina	O
,	O
and	O
Agilent	O
)	O
.	O
</s>
<s>
GeneNetwork	B-Application
is	O
an	O
open	O
source	O
project	O
released	O
under	O
the	O
Affero	O
General	O
Public	O
License	O
(	O
AGPLv3	O
)	O
.	O
</s>
<s>
The	O
majority	O
of	O
code	O
is	O
written	O
in	O
Python	B-Language
,	O
but	O
includes	O
modules	O
and	O
other	O
code	O
written	O
in	O
C	O
,	O
R	B-Language
,	O
and	O
JavaScript	B-Language
.	O
</s>
<s>
The	O
code	O
is	O
mainly	O
Python	B-Language
2.4	O
.	O
</s>
<s>
GN2	O
is	O
mainly	O
written	O
in	O
Python	B-Language
2.7	O
in	O
a	O
Flask	B-Language
framework	O
with	O
Jinja2	B-Language
HTML	B-Language
templates	O
)	O
but	O
with	O
conversion	O
to	O
Python	B-Language
3.X	O
planned	O
over	O
the	O
next	O
few	O
years	O
.	O
</s>
<s>
GN2	O
calls	O
many	O
statistical	O
procedures	O
written	O
in	O
the	O
R	B-Language
programming	I-Language
language	I-Language
.	O
</s>
<s>
While	O
was	O
actively	O
maintained	O
through	O
2019	O
GitHub	B-Application
,	O
as	O
of	O
2020	O
all	O
work	O
is	O
focused	O
on	O
.	O
</s>
