PMID- 18449997
OWN - NLM
STAT- MEDLINE
DCOM- 20080605
LR  - 20080502
IS  - 1064-3745 (Print)
IS  - 1064-3745 (Linking)
VI  - 409
DP  - 2007
TI  - The classification of HLA supertypes by GRID/CPCA and hierarchical clustering 
      methods.
PG  - 143-54
LID - 10.1007/978-1-60327-118-9_9 [doi]
AB  - Biological experiments often produce enormous amount of data, which are usually 
      analyzed by data clustering. Cluster analysis refers to statistical methods that 
      are used to assign data with similar properties into several smaller, more 
      meaningful groups. Two commonly used clustering techniques are introduced in the 
      following section: principal component analysis (PCA) and hierarchical 
      clustering. PCA calculates the variance between variables and groups them into a 
      few uncorrelated groups or principal components (PCs) that are orthogonal to each 
      other. Hierarchical clustering is carried out by separating data into many 
      clusters and merging similar clusters together. Here, we use an example of human 
      leukocyte antigen (HLA) supertype classification to demonstrate the usage of the 
      two methods. Two programs, Generating Optimal Linear Partial Least Square 
      Estimations (GOLPE) and Sybyl, are used for PCA and hierarchical clustering, 
      respectively. However, the reader should bear in mind that the methods have been 
      incorporated into other software as well, such as SIMCA, statistiXL, and R.
FAU - Guan, Pingping
AU  - Guan P
AD  - Computational Biology Group, John Innes Centre, Norwich, UK.
FAU - Doytchinova, Irini A
AU  - Doytchinova IA
FAU - Flower, Darren R
AU  - Flower DR
LA  - eng
PT  - Journal Article
PL  - United States
TA  - Methods Mol Biol
JT  - Methods in molecular biology (Clifton, N.J.)
JID - 9214969
RN  - 0 (HLA Antigens)
SB  - IM
MH  - Binding Sites
MH  - Cluster Analysis
MH  - *Computational Biology
MH  - Databases, Protein
MH  - HLA Antigens/chemistry/*classification/genetics
MH  - Humans
MH  - Immunogenetics/statistics & numerical data
MH  - Least-Squares Analysis
MH  - Principal Component Analysis
MH  - Software
EDAT- 2008/05/03 09:00
MHDA- 2008/06/06 09:00
CRDT- 2008/05/03 09:00
PHST- 2008/05/03 09:00 [pubmed]
PHST- 2008/06/06 09:00 [medline]
PHST- 2008/05/03 09:00 [entrez]
AID - 10.1007/978-1-60327-118-9_9 [doi]
PST - ppublish
SO  - Methods Mol Biol. 2007;409:143-54. doi: 10.1007/978-1-60327-118-9_9.