Question: Creation Network on Thyroid Disease
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gravatar for Baptiste
15 months ago by
Baptiste90
Singapore
Baptiste90 wrote:

Hello everyone,

I am currently working on a project for the university: Thyroid Disease. The purpose is to understand the influence of  parameters (age, pregnancy, TSH, t4...) on the diagnostic of the patient (hypothyroid, hyperthyroid...).

I have a huge matrix with:
-rows: the patient
-columns: parameters

age:				 continuous.
sex:				 M,F.
on_thyroxine:			 f,t.
query_on_thyroxine:		 f,t.
on_antithyroid_medication:	 f,t.
thyroid_surgery:		 f,t.
query_hypothyroid:		 f,t.
query_hyperthyroid:		 f,t.
pregnant:			 f,t.
sick:				 f,t.
tumor:				 f,t.
lithium:			 f,t.
goitre:				 f,t.
TSH_measured:			 y,n.
TSH:				 continuous.
T3_measured:			 y,n.
T3:				 continuous.
TT4_measured:			 y,n
TT4:				 continuous.
T4U_measured:			 y,n.
T4U:				 continuous.
FTI_measured:			 y,n.
FTI:				 continuous.
TBG_measured:			 y,n.
TBG:		                 continuous.

DIAGNOSTIC (hyperthyroidn hypothyroid...)

1) My first question: I am not sure if I understand the data-->What does parameters with query mean ?
If the patient takes the thyroxine as the medication (in this case, what does "on thyroxine" mean ?) or if he askes to have the thyroxine ( yes would be yes he askes the doctor to have the drug)
I try to find the relative article to understand the data """See the following for a discussion of relevant experiments and related work: | Quinlan,J.R., Compton,P.J., Horn,K.A., & Lazurus,L. (1986).""" but I didn't find it

2) My second question: I build networks with several algorithm: ARACNE, PC, HC, MMHC
And each time, I get a different network where the link between parameters are different. So I don't know what informations I can get from these networks, which one is correct. Which method do you recomand to compare these network ?

3) I build a network for each diagnosis:
-hyperthyroid: there are 400 patients
-hypothyroid: there are 160 patients
I want to know if the network is the result of reducing my sample number (9000--> 400 patients) or there is a real influence of the diagnosis on the network. So my hint was to select randomly  for example 400 patients  among the data. And calculate a distance between the network constructed  with the 9000 patients and the random networks with 400 patients and the distance between the network  with 9000 patients and my network with my real 400 patients. Then I don't know how to compare this distance.

Thank you for your help

 

Baptiste
 

aracne network thyroid • 453 views
ADD COMMENTlink written 15 months ago by Baptiste90

"to understand the influence of parameters ... on the diagnostic ..." sounds like a regression/classification problem to me. Alternatively it can be viewed as a feature selection problem.
In such a situation, I would probably start with something like discriminant analysis to understand the separability of the diagnostics. I don't think a network approach is warranted here.
 

ADD REPLYlink written 15 months ago by Jean-Karim Heriche9.3k

Thank you for your reply,

Yes you are right but the problem is that I have to use networks for the project.
Thank you again Jean-Karim
 

ADD REPLYlink written 15 months ago by Baptiste90

Using different algorithms to infer a network from your data will almost always give you different networks. Each algorithm has its own way of deciding which nodes to link so the meaning of an edge is usually different between the networks.  The R package minet has a function to compare two networks that may be useful.
 

ADD REPLYlink written 15 months ago by Jean-Karim Heriche9.3k
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