Commit 3abe47ef authored by SOLIMAN Sylvain's avatar SOLIMAN Sylvain
Browse files

Moar questions

parent 74bcb390
......@@ -160,7 +160,7 @@
"\n",
"Why do we have to provide a `cnf_clause_size` to learn CNF formulae of size less than `K`?\n",
"\n",
"What does it represent \"biologically\"?\n",
"What does it represent \"biologically\"? Where can you see that in the model?\n",
"\n",
"Could we have used the DNF learning algorithm here? why?"
]
......@@ -189,61 +189,70 @@
"\n",
"![Th Lymphocite differentiation](RemyEtAl06.png)\n",
"\n",
"The model is about the control and differentiation of Th (lymphocite) cells."
"The model is about the control and differentiation of Th (lymphocite) cells.\n",
"\n",
"Before \"learning\" it, we will try to understand it a bit…"
]
},
{
"cell_type": "code",
"execution_count": 9,
"metadata": {},
"outputs": [
{
"data": {
"text/plain": [
"STAT4,TBet -> IFNg.\r\n",
"/ STAT4 -< IFNg.\r\n",
"/ TBet -< IFNg.\r\n",
"GATA3 / STAT1 -> IL4.\r\n",
"/ GATA3 -< IL4.\r\n",
"STAT1 -< IL4.\r\n",
"IFNg / SOCS1 -> IFNgR.\r\n",
"/ IFNg -< IFNgR.\r\n",
"SOCS1 -< IFNgR.\r\n",
"IL4 / SOCS1 -> IL4R.\r\n",
"/ IL4 -< IL4R.\r\n",
"SOCS1 -< IL4R.\r\n",
"IL12 / STAT6 -> IL12R.\r\n",
"/ IL12 -< IL12R.\r\n",
"STAT6 -< IL12R.\r\n",
"IFNgR -> STAT1.\r\n",
"/ IFNgR -< STAT1.\r\n",
"IL4R -> STAT6.\r\n",
"/ IL4R -< STAT6.\r\n",
"IL12R / GATA3 -> STAT4.\r\n",
"/ IL12R -< STAT4.\r\n",
"GATA3 -< STAT4.\r\n",
"STAT1 -> SOCS1.\r\n",
"TBet -> SOCS1.\r\n",
"/ STAT1,TBet -< SOCS1.\r\n",
"STAT6 / TBet -> GATA3.\r\n",
"STAT1 / GATA3 -> TBet.\r\n",
"TBet / GATA3 -> TBet.\r\n",
"GATA3 -< TBet.\r\n",
"/ STAT1,TBet -< TBet.\r\n",
"/ STAT6 -< GATA3.\r\n",
"TBet -< GATA3.\r\n"
]
},
"execution_count": 9,
"metadata": {},
"output_type": "execute_result"
}
],
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"load(library:examples/Th_lymphocytes/lympho.bc).\n",
"list_model."
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"draw_influences."
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"Basically Th0 cells differentiate either into\n",
"\n",
"Th1 cells (marked by the activity of the TBet transcription factor) under the effect of IFNγ\n",
"\n",
"or\n",
"\n",
"Th2 cells under the effect of IL4 that binds to its receptor to activate STAT6 and GATA3…"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"list_stable_states."
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Question 4\n",
"\n",
"Why do we have 6 stable states instead of 3?\n",
"\n",
"Hint: the picture of the graph might help…"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
},
{
"cell_type": "code",
"execution_count": null,
......@@ -265,6 +274,22 @@
"outputs": [],
"source": []
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## Question\n",
"\n",
"Could we have used the DNF learning algorithm? Why?"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
},
{
"cell_type": "code",
"execution_count": null,
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment