Publications

Table of contents

• Publications on Microarrays
• Publications on Statistical Methods for Gene Mapping
• Publications on other subjects

Microarrays

J. Nilsson, Nonlinear dimensionality reduction of gene expression data, Licentiate Thesis in Mathematical Sciences 2006:1, Mathematics, Lund University, 2006.
Full text: pdf (6.3Mb).

A. Bengtsson and H. Bengtsson, Microarray image analysis: background estimation using quantile and morphological filters, BMC Bioinformatics, 2006, 7:96.
Abstract and full text: html + pdf.

H. Bengtsson and O. Hössjer, Methodological study of affine transformations of gene expression data with proposed robust non-parametric multi-dimensional normalization method, BMC Bioinformatics, 2006, 7:100.
Abstract and full text: html + pdf.

H. Bengtsson, G. Jönsson and J. Vallon-Christersson, Calibration and assessment of channel-specific biases in microarray data with extended dynamical range, BMC Bioinformatics, 2004, 5:177.
Abstract and full text: html + pdf.

H. Bengtsson, Low-level Analysis of Microarray Data, Doctoral Thesis in Mathematical Sciences 2004:6, Mathematical Statistics, Lund University, 2004.
Full text: pdf (8.7Mb). Abstract, information about dissertation etc: http://www.maths.lth.se/bioinformatics/calendar/20041001/.

H. Bengtsson and O. Hössjer, Affine calibration for microarrays with dilution series or spike-ins, Preprints in Mathematical Sciences 2004:19, Mathematical Statistics, Lund University, 2004.
Abstract: txt.

H. Bengtsson, aroma - An R Object-oriented Microarray Analysis environment, Preprints in Mathematical Sciences 2004:18, Mathematical Statistics, Lund University, 2004.
Full text: pdf. Abstract: txt.

Y. Johansson, Finding Regions of Amplification and Deletion in Array-CGH Data Using Local Polynomial Regression and Change Detection Methods, Master's theses in Mathematical Sciences 2004:E26, Mathematical Statistics, Lund University, 2004.
Full text: pdf (to do).

S. Emriksson, Finding nonlinear structures in microarray data using kernels, Master's theses in Mathematical Sciences 2003:E23, Mathematics, Lund University, 2004.
Full text: pdf.

J. Nilsson, Thoas Fioretos, Mattias Höglund and Magnus Fontes, Approximate geodesic distances reveal biologically relevant structures in microarray data, Bioinformatics 20(6):874-80, 2004.
Abstract and full text: PubMed and/or Oxford Journals online.

H. Bengtsson and O. Hössjer, Methodological study of affine transformations of gene expression data with proposed normalization method, Preprints in Mathematical Sciences 2003:38, Mathematical Statistics, Lund University, 2003.
Full text: pdf.

H. Bengtsson, G. Jönsson and J. Vallon-Christersson, Calibration and assessment of channel-specific biases in microarray data with extended dynamical range, Preprints in Mathematical Sciences 2003:37, Mathematical Statistics, Lund University, 2003. (Accepted for BMC Bioinformatics)
Abstract: pdf.

A. Bengtsson, Microarray Image Analysis: Background Estimation using Region and Filtering Techniques, Master's theses in Mathematical Sciences 2003:E40, Mathematics, Lund University, 2003.
Full text: pdf.

H. Bengtsson, Identification and normalization of plate effect in cDNA microarray data, Preprints in Mathematical Sciences, 2002:28, Mathematical Statistics, Lund University, 2002.
Full text: pdf. Abstract: txt.

J. Nilsson, Methods for classification of gene expressions, Master's theses in Mathematical Sciences 2002:E5, Mathematics, Lund University, 2002.
Full text: pdf.

H. Bengtsson, B. Calder, I. S. Mian, M. Callow, E. Rubin, and T. P. Speed, Identifying Differentially Expressed Genes in cDNA Microarray Experiments, Science SAGE KE 2001 (12), vp8. [DOI: 10.1126/sageke.2001.12.vp8]
Full text: http://sageke.sciencemag.org/cgi/content/full/2001/12/vp8

Statistical Methods for Gene Mapping

A. Kurbasic and O. Hössjer, Relative Risk for General Phenotypes and Genetic Models., Preprints in Mathematical Sciences 2005:7, Mathematical Statistics, Lund University, 2005.
Full text: pdf.

L. Ängquist and O. Hössjer, Using Importance Sampling to Improve Simulation in Linkage Analysis, Statistical Applications in Genetics and Molecular Biology, Volume 3 - Issue 1 - Article 5, May 2004.
Full text/Abstract: pdf.

A. Kurbasic and O. Hössjer, On Computation of P-values in Parametric Linkage Analysis, Human Heredity 2004, Vol. 57, No. 4.
Full text: http://content.karger.com/ProdukteDB/produkte.asp?Doi=81448

L. Ängquist and O. Hössjer, Using Importance Sampling to Improve Simulation in Linkage Analysis, Preprints in Mathematical Sciences 2003:34, Mathematical Statistics, Lund University, 2003.
Full text: ps. Abstract: ps.

L. Ängquist, Kopplingsanalys - ett led i forskningen om folksjukdomars uppkomst, Popular Science Summary, Revision of Communication Technique Course Project, Lund University, 2003.
Full text: ps (Swedish only).

L. Ängquist and O. Hössjer, Improving the Calculation of Statistical Significance in Genome-Wide Scans, Preprints in Mathematical Sciences 2003:3, Mathematical Statistics, Lund University, 2003.
Abstract: ps

L. Ängquist, Conditional Two-Locus NPL-Analyses: Theory and Applications, Master's Thesis in Mathematical Sciences 2001:E22, Mathematical Statistics, Lund University, 2001.
Full text: ps.

A. Kurbasic, Targeted Parametric Linkage Analysis in Eight Families with Non-BRCA1/BRCA2 Breast Cancer, Master's Thesis in Mathematical Sciences, Centre for Mathematical Sciences, Lund University, 2000.
Full text: pdf.

Various subjects

E. Basic, Comparative DNA analysis, Master's theses in Mathematical Sciences 2005:E33, Mathematics, Lund University, 2005.
Full text: pdf.