updated Alopecia as an autoimmune disease triggered by cross-targeting.

Hypothesis: autoimmunity is triggered by the cross-targeting of infections. A virus marking the inside of the host's cell and an infection, like a fungus, marks the outside.

Looks like a fungus as the outer large infection because Hashimoto's and Vitiligo this blog linked to fungal infections. Guilt by association. 

alopecia and vitiligo
http://www.ncbi.nlm.nih.gov/pubmed/8168460
http://www.ncbi.nlm.nih.gov/pubmed/24131336
http://www.ncbi.nlm.nih.gov/pubmed/22881476
http://www.ncbi.nlm.nih.gov/pubmed/8170863
http://www.ncbi.nlm.nih.gov/pubmed/24700956
http://www.ncbi.nlm.nih.gov/pubmed/17659001

Hashimoto's, type one diabetes, alopecia
http://www.ncbi.nlm.nih.gov/pubmed/25759758

Hashimoto's, alopecia, and aps3
http://www.ncbi.nlm.nih.gov/pubmed/25759758

The other option is atopic dermatitis which I had liked eczema to staph infections.
http://www.e-ijd.org/article.asp?issn=0019-5154;year=2008;volume=53;issue=2;spage=70;epage=74;aulast=Thomas
This group would not have hashimoto's or vitiligo but instead peanut allergies and/or asthma.

As for the virus marking the inside I am not sure. Flaviviruses or herpes viruses. (maybe either)

Current suspects for the virus inside are varicella or hepatitis C.

varicella zoster and alopecia
http://www.ncbi.nlm.nih.gov/pubmed/23526118

note that when shingles (the zoster virus) triggers alopecia  hair loss this would occur only on one side of the head because of the way the virus spreads through the nerves to the skin
http://www.everydayhealth.com/shingles/scalp-problems.aspx

hepatitis C and alopecia
http://www.ncbi.nlm.nih.gov/pubmed/24558223
http://www.ncbi.nlm.nih.gov/pubmed/23181541

hepatitis C can infect the skin
http://emedicine.medscape.com/article/1134161-clinical

Note that hepatitis is typically associated with the urticaria rash
http://www.alopeciaworld.com/forum/topics/alopecia-autoimmune-urticaria
Here a woman says that those hives appearing matched with the hair growing back but she is not sure how.

alopeica and melanocortin 2 /ACTH receptors...the receptors have decreased in AA?
http://www.ncbi.nlm.nih.gov/pubmed/20590821


Hepatitis C is a flavivirus. Flaviviruses use melanocortin receptors

male baldness and prostate cancer connection?
http://www.ncbi.nlm.nih.gov/pubmed/25225425

african americans have increased risk
http://www.ncbi.nlm.nih.gov/pubmed/23532004

hepatitis C and prostate cancer
http://www.ncbi.nlm.nih.gov/pubmed/21557839

i am not saying that men with male baldness have hepatitis just that there must be an increase in the receptors??? or something

do the different flaviviruses have different binding affinities for the melanocortin receptors?
west nile stronger for MCR 1 (red heads seem to have a variant of this and have more skin cancer)
hepatitis stronger for MCR 2???

vitiligo, lupus and Trichophyton violaceum
http://www.ncbi.nlm.nih.gov/pubmed/11036404

http://www.idoj.in/article.asp?issn=2229-5178;year=2015;volume=6;issue=7;spage=60;epage=63;aulast=Rao

could this be the fungus of vitiligo?

Images of Red blood cells and infections
http://www.bloodcytology.com/blood-images/

specifically talks about fungal infections and low B12 


low B12 can cause pernicious anemia


Pernicious anemia and alopecia
http://www.ncbi.nlm.nih.gov/pubmed/18614380

Vitiligo and pernicious anemia
http://www.nejm.org/doi/full/10.1056/NEJMicm990602