PMID- 15569626
OWN - NLM
STAT- MEDLINE
DCOM- 20060707
LR  - 20190902
IS  - 1093-9946 (Print)
IS  - 1093-4715 (Linking)
VI  - 10
DP  - 2005 Jan 1
TI  - A framework to sub-type HLA supertypes.
PG  - 879-86
AB  - The human leukocyte antigen (HLA) alleles are extremely polymorphic among ethnic 
      population and the peptide binding specificity varies for different alleles in a 
      combinatorial manner. However, it has been suggested that majority of alleles can 
      be covered within few HLA supertypes, where different members of a supertype bind 
      similar peptides, yet exhibiting distinct repertoires. Since the overlap between 
      different members of a supertype appears to be extensive, it is crucial to 
      develop a framework for grouping alleles into supertypes just from sequence 
      information. In this report, we define sub supertypes, where members show 
      functional overlap with identical repertoire, and describe a strategy to group 
      HLA-A, B and C alleles into different categories of sub supertypes. The strategy 
      grouped 47% of 295 A alleles, 44% of 540 B alleles and 35% of 156 C alleles to 
      just 36, 71 and 18 groups, respectively. The grouping is moderately validated 
      using available binding data. However, the validation is limited due to lack of 
      binding data. Hence, the data presented in this article serve as a framework to 
      test specific functional overlap between alleles. The grouping of HLA alleles 
      into different categories of sub supertypes has profound use in the understanding 
      of antigenic peptide selection, degeneration and discrimination during T-cell 
      mediated immune response. A complete knowledge of this phenomenon finds utility 
      in epitope design for the development of HLA based vaccines and 
      immuno-therapeutics.
FAU - Kangueane, Pandjassarame
AU  - Kangueane P
AD  - School of Mechanical and Production Engineering, Nanyang Technological 
      University, Nanyang Centre for Supercomputing and Visualization, Singapore 
      639798. mpandjassarame@ntu.edu.sg <mpandjassarame@ntu.edu.sg>
FAU - Sakharkar, Meena Kishore
AU  - Sakharkar MK
FAU - Rajaseger, Ganapathy
AU  - Rajaseger G
FAU - Bolisetty, Subhashini
AU  - Bolisetty S
FAU - Sivasekari, Balasubramanian
AU  - Sivasekari B
FAU - Zhao, Bing
AU  - Zhao B
FAU - Ravichandran, Manickam
AU  - Ravichandran M
FAU - Shapshak, Paul
AU  - Shapshak P
FAU - Subbiah, Subramanian
AU  - Subbiah S
LA  - eng
GR  - DA014533/DA/NIDA NIH HHS/United States
GR  - GM056529/GM/NIGMS NIH HHS/United States
PT  - Journal Article
PT  - Research Support, N.I.H., Extramural
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, P.H.S.
PT  - Review
DEP - 20050101
PL  - United States
TA  - Front Biosci
JT  - Frontiers in bioscience : a journal and virtual library
JID - 9709506
RN  - 0 (HLA Antigens)
RN  - 0 (HLA-A Antigens)
RN  - 0 (HLA-B Antigens)
RN  - 0 (HLA-C Antigens)
RN  - 0 (Peptides)
RN  - 0 (Vaccines)
SB  - IM
MH  - Alleles
MH  - Genotype
MH  - HLA Antigens/*chemistry
MH  - HLA-A Antigens/chemistry
MH  - HLA-B Antigens/chemistry
MH  - HLA-C Antigens/chemistry
MH  - Histocompatibility Testing/*methods
MH  - Humans
MH  - Immunophenotyping/*methods
MH  - Peptides/chemistry
MH  - Protein Binding
MH  - Vaccines/chemistry
RF  - 15
EDAT- 2004/12/01 09:00
MHDA- 2006/07/11 09:00
CRDT- 2004/12/01 09:00
PHST- 2004/12/01 09:00 [pubmed]
PHST- 2006/07/11 09:00 [medline]
PHST- 2004/12/01 09:00 [entrez]
AID - 1582 [pii]
AID - 10.2741/1582 [doi]
PST - epublish
SO  - Front Biosci. 2005 Jan 1;10:879-86. doi: 10.2741/1582. Print 2005 Jan 1.