Biomedical Engineering Reference
In-Depth Information
35. Leykin, I., Hao, K., Cheng, J. et al . (2005) Comparative linkage analysis and visualization of
high-density oligonucleotide SNP array data. BMC Genetics , 6 ,7.
36. Lindner, T.H. and Hoffmann, K. (2005) easyLINKAGE: a PERL script for easy and automated
two-/multi-point linkage analyses. Bioinformatics , 21 , 405-407.
37. Lips, E.H., Dierssen, J.W.F., van Eijk, R. et al . (2005) Reliable high-throughput genotyping
and loss-of-heterozygosity detection in formalin-fixed, paraffin-embedded tumors using single
nucleotide polymorphism arrays. Cancer Research , 65 , 10188-10191. The first paper that
describes genotyping and LOH analysis using Illumina Beadarrays.
38. Oosting, J., Lips, E.H., van Eijk, R. et al . (2007) High-resolution copy number analysis of
paraffin-embedded archival tissue using SNP BeadArrays. Genome Research , 17 , 368-376. The
design and validation of copy number measurements using BeadArray's and the application to
FFPE tissue.
39. Ji, H., Kumm, J., Zhang, M. et al . (2006) Molecular inversion probe analysis of gene copy
alterations reveals distinct categories of colorectal carcinoma. Cancer Research , 66 , 7910-7919.
40. Van Beers, E.H., Joosse, S.A., Ligtenberg, M.J. et al . (2006) A multiplex PCR predictor for aCGH
success of FFPE samples. British Journal of Cancer , 94 , 333-337. Demonstrates that WGA is
capable of increasing the yield of starting DNA material with identical genetic sequence.
41. Rajagopalan, H. and Lengauer, C. (2004) Aneuploidy and cancer. Nature , 432 , 338-341.
42. Lindblad-Toh, K., Tanenbaum, D.M., Daly, M.J. et al . (2000) Loss-of-heterozygosity analysis of
small-cell lung carcinomas using single-nucleotide polymorphism arrays. Nature Biotechnology ,
18 , 1001-1005. First paper describing the use of SNP arrays for the detection of LOH in cancer.
43. LaFramboise, T., Harrington, D. and Weir, B.A. (2006) PLASQ: a generalized linear model-based
procedure to determine allelic dosage in cancer cells from SNP array data. Biostatistics , 8 ,
323-336.
44. Beroukhim, R., Lin, M., Park, Y. et al . (2006) Inferring loss-of-heterozygosity from unpaired
tumors using high-density oligonucleotide SNP arrays. PLoS Computational Biology , 2 , e41.
45. Van Eijk, R., Oosting, J., Sieben, N., et al . (2004) Visualization of regional gene expression biases
by microarray data sorting. Biotechniques , 36 , 592-594, 596.
46. Fan, J.B., Oliphant, A., Shen, R. et al . (2003) Highly parallel SNP genotyping. Cold Spring
Harbor Symposia on Quantitative Biology , 68 , 69-78. Technical note on the properties of the
beadarray platform for SNP genotyping.
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