I think it's a stylistic issue: there are too many function words. After finishing a draft, do a second pass deleting as many unnecessary words as possible. If changing the tense or person lets you eliminate a few pronouns, do so. I applied my personal editing procedure to your second paragraph, and went from this:

The following model is used to describe the process of getting from a question to a (potentially biased) answer for the purposes of this article. First, you ask yourself a question. Second, in the context of the question, a data set is presented before your mind, either directly, by you looking at the explicit statements of fact, or indirectly, by associated facts becoming salient to your attention, triggered by the explicit data items or by the question. Third, you construct an intuitive model of some phenomenon, that allows to see its properties, as a result of considering the data set. And finally, you pronounce the answer, that is read out as one of the properties of the model you've just constructed.

To this:

The following model describes the process of getting from questions to (possibly biased) answers. First, ask a question. That brings a data set to mind, either directly (by looking at explicit statements of fact), or indirectly (by associated facts coming to your attention, triggered by explicit data items or by the question). Then, using that data set, construct an intuitive model of the phenomenon that lets you see its properties. Finally, read out the answer as a property of the model you've constructed.

I didn't change anything in the actual content, but to my mind this reads much better.