adopted puppymill dog from Humane society

Question
I recently adopted a 2 and a half year old female Affenpinscher. We have had her for 2 months now and she is afraid of males and children. She has accepted me without a hitch, but her little body just shakes when my son comes near. My son is 43 and is the big dog lover in the house, and I only became a dog lover because he had a dog that a person couldnt help but love. That dog has since past, and the house felt empty, as well as my heart with out her. Now, with "smokie" in the house and very similar in personality and so full of love and affection, Id like nothing more than her to be friends with my son.
We had her a full month before she was required to be spayed and she seemed to be changing daily to accept my son, but, after the surgery it was like starting all over from day one. At present, she hightails it right to my bedroom and stays there, only to come out and eat if my son isnt around. If my son comes into the room the dog will run back to my room. Kurt at times will go into my bedroom and pet her, may pick her up and love her and bring her out to the main living area. The minute he lets her down, off to the bedroom she goes as fast as she can. Her little body will tremble and shake uncontollably in the pressence of males in general. Smokie shows absolutely no aggressive behavior, does not nip or bite or bark. She is a wonderful dog, other than her fear of men. She has had some training we can tell, as she minds directions on command, and learns new commands without our realizing how fast she picks up on them and automatically follows the directive. It is as though she reads my mind as she knows when I am going to make the bed, she jumps off until it is made, and then I say it is done so she can get back on it. I am seriously considering enrolling her in a dog obedience class hoping that possibly some of her fears might lessen, but in the same token, Im afraid that this might not be the type of socialization she needs. We dont know if she was abused for sure, or is just not used to people. Would you please give me some input and reccomendations. The only thing I was told at the time of adoption was that it was going to take time and patience, both of which I have, but would really love for her to enjoy living with us happily and feeling secure in her environment. Thank you

Answer
Yes training classes will help

also what you can do is have your son petting her at the same time as you,do this for a while over and over and slowly stop petting halfway,then when she accepts that,see if she will let your son pet her,also have your son offer her a small treat when she lets him touch her,so that she realizes he won't hurt her