Research Article

Automatic Generation of Validated Specific Epitope Sets

Table 2

(a) Number of epitopes per category for viruses and bacteria. (b) Number of epitopes per category for eukaryotes (nonhuman). (c) Number of epitopes per category for autoimmune epitopes (human and mouse).
(a)

Class IClass IIB cell
LinearDiscontinuous
HLAH-2HLAH-2HumanMouseHumanMouse

Virus
 ssRNA (−) strand virus
  H1N1 subtype influenza A4177207206151127
  H3N2 subtype influenza A18189217112281
  Other influenza A subtypes
    (not H3N2 or H1N1)
1164317925431681
   Influenza B/C1336
  Paramyxoviridae
    (respiratory syncytial
    virus, measles, mumps)
478028273371
  Hantavirus14
 ssRNA (+) strand virus
  Dengue virus43211658139242997
  Hepatitis C virus405652412053322712
  West Nile virus339910324
  Yellow fever183494118
  Japanese encephalitis virus33
  Picornaviridae (coxsackie,
    hepatitis A)
1412527794
  Coronaviruses22383825232827
 Retrotranscribing virus
  Hepatitis B virus5972381813
  Deltaretrovirus (HTLV)25
 dsDNA virus
  Adenoviruses134510
  Alphaherpesvirinae
    (human herpesvirus 1/2,
    Varicellovirus)
915235133232
  Betaherpesvirinae (CMV,
    human herpesvirus 5,
    roseolovirus, murid
    herpesvirus)
2044814120
  Gammaherpesvirinae
    (Epstein-Barr virus,
    Rhadinovirus, human
    herpesvirus 4)
2376359
  Papillomaviridae
    (human papillomavirus)
80447230
  Poxviridae (vaccinia, pox)2283437630
  Polyomavirus
    (Simian vacuolating virus)
3114
  Parvoviridae212410
Bacteria
 Actinobacteria/proteobacteria
  Alphaproteobacteria
    (Rhizobiales, Rickettsia,  
   and  Anaplasmas)
31
  Betaproteobacteria
    (Neisseria, Bordetella, and
    Burkholderia)
32415833
  Mycobacterium129334783311
 Firmicutes/other bacteria
  Chlamydiales (chlamydia)153837
  Clostridiales70
  Other Bacilli
    (anthracis, cereus,
    Geobacillus, and
    Enterococcus)
10619

(b)

Class IClass IIB cell
LinearDiscontinuous
HLAH-2HLAH-2HumanMouseHumanMouse

Alveolata
 Plasmodium (P. falciparum,
  P. vinckeia, and P. yoelli)
6429186331649
Euglenozoa
 Trypanosomatidae
  (Trypanosoma, Leishmania)
913014
Fungi
Aspergillus 505073
 Other fungi775411
Plants
 Fabaceae (peas,
  soybean, peanut family)
17419
 Betulaceae (birch family)3024
 Cupressaceae (cypress,
  cedar family)
2122
 Gluten, coeliac
  Disease1
2324536
 Timothy-grass47419
 Other grass98124
 Amaranthaceae20
Animals
 Insects6723
 Arachnid97331314
 Mammals11941697078015

Only epitopes derived from gliadin protein and high molecular weight glutenin [23] were included.
(c)

Class IClass IIB cell
LinearDiscontinuous
HLAH-2HLAH-2HumanMouseHumanMouse

Rheumatoid arthritis2711
Diabetes73764617
Multiple sclerosis1113