Bjoern Menze – Publications

Edited Volumes

[1] Menze BH, Langs G, Tu Z and Criminisi A (eds.).
Medical Computer Vision: Recognition techniques and applications in medical imaging.
Proc MICCAI MCV 2010. Lecture Notes in Computer Science 6533. Springer Publishing, Heidelberg. 2011.
(publisher) (workshop)

Journals

[17] Menze BH and Ur JA. Mapping patterns of long-term settlement in Northern Mesopotamia at a large scale. Proceedings of the National Academy of Science of the United States 2012. In press
(PubMed) (publisher) (data repository)
[16] Konukoglu E, Relan J, Cilingir U, Menze BH, Chinchapatnam P, Jadidif A, Cochet H, Hocini M, Delingette H, Jais P, Hassaguerre M, Ayache N and Sermesant M.
Efficient probabilistic model personalization integrating uncertainty on data and parameters: application to Eikonal-diffusion models in cardiac electrophysiology
Progress in Biophysics and Molecular Biology 2011. In Press.
(PubMed) (publisher) (preprint)
[15] Geremia E, Clatz O, Menze BH, Konukoglu E, Criminisi A and Ayache N.
Spatial decision forests for MS lesion segmentation in multi-channel magnetic resonance images.
Neuroimage 2011. In Press.
(PubMed) (publisher) (preprint)
[14] Kelm BM, Kaster FO, Henning A, Weber MA, Bachert P, Boesiger P, Hamprecht FA and Menze BH.
Using spatial prior knowledge in the spectral fitting of magnetic resonance spectroscopic images.
NMR in Biomedicine 2011. In Press.
(PubMed) (publisher) (preprint)
[13] Langs G, Menze BH, Lashkari D and Golland P.
Detecting stable distributed patterns of brain activation in fMRI using Gini contrast.
Neuroimage 2011. In Press.
(PubMed) (publisher) (preprint)
[12] Riklin-Raviv T, Van Leemput K, Menze BH, Wells WM and Golland P.
Segmentation of image ensembles via latent atlases.
Medical Image Analysis 2010. 14:654–65.
(PubMed) (publisher) (preprint)
[11] Konukoglu E, Clatz O, Menze BH, Stieltjes B, Weber MA, Mandonnet E, Delinegette H and Ayache N.
Image guided personalization of reaction-diffusion type tumor growth models using modified anisotropic Eikonal equations.
IEEE Transactions on Medical Imaging 2010. 29:77–95
(PubMed) (publisher) (preprint)
[10] Kelm BM, Menze BH, Nix O, Zechmann C and Hamprecht FA.
Estimating kinetic parameter maps from dynamic contrast-enhanced MRI using spatial prior knowledge.
IEEE Transaction on Medical Imaging 2009. 28:1534–47.
(PubMed) (publisher) (preprint)
[9] Menze BH, Kelm BM, Masuch R, Himmelreich U, Bachert P, Petrich W and Hamprecht FA.
A comparison of random forest and its Gini importance with standard chemometric methods for the feature selection and classification of spectral data.
BMC Bioinformatics 2009. 10: 213.
(PubMed) (publisher, open access)
[8] Hayn M, Beirle S, Hamprecht FA, Platt U and Menze BH*, Wagner T*.
Analysing spatio-temporal patterns of the global NO2-distribution retrieved from GOME satellite observations using a generalized additive model. (* shared authorship)
Atmospheric Chemistry and Physics 2009. 9: 6459–6477.
(publisher, open access)
[7] Görlitz L, Menze BH, Kelm BM and Hamprecht FA.
Processing spectral data.
Surface and Interface Analysis 2009. 41: 636–644.
(publisher) (preprint)
[6] Koenig T, Menze BH, Kirchner M, Monigatti F, Parker KC, Patterson T, Jebanathirajah Steen JA, Hamprecht FA and Steen H.
Robust Prediction of the MASCOT score for an improved quality assessment in mass spectrometric proteomics.
Journal of Proteome Research 2008. 7: 3708–17.
(PubMed) (publisher) (preprint)
[5] Menze BH, Kelm BM, Weber MA, Bachert P and Hamprecht FA.
Mimicking the human expert: pattern recognition for an automated assessment of data quality in magnetic resonance spectroscopic images.
Magnetic Resonance in Medicine 2008. 59: 1457–66.
(PubMed) (publisher) (preprint)
[4] Menze BH, Petrich W and Hamprecht FA.
Multivariate feature selection and hierarchical classification for infrared spectroscopy: serum-based detection of bovine spongiform encephalopathy. ABC Poster Prize
Analytical and Bioanalytical Chemistry 2007. 387: 801–1807
(PubMed) (publisher) (preprint)
[3] Kelm BM, Menze BH, Zechmann CM, Baudendistel KT and Hamprecht FA.
Automated estimation of tumor probability in prostate magnetic resonance spectroscopic imaging: pattern recognition vs. quantification.
Magnetic Resonance in Medicine 2007. 57: 150–159
(PubMed) (publisher) (preprint)
[2] Menze BH, Lichy MP, Bachert P, Kelm BM, Schlemmer HP and Hamprecht FA.
Optimal classification of long echo time in vivo magnetic resonance spectra in the detection of recurrent brain tumors.
NMR in Biomedicine 2006. 19: 599–60
(PubMed) (publisher) (preprint)
[1] Menze BH, Ur JA and Sherratt AG.
Detection of ancient settlement mounds – Archaeological survey based on the SRTM terrain model.
Photogrammetric Engineering and Remote Sensing 2006. 72: 321–327
(publisher, open access)

Select Conference Proceedings, Book Chapters and Educational Publications

Menze BH, Kelm BM, Splitthoff N, Koethe U and Hamprecht FA.
On oblique random forests.
In: Proc European Conference on Machine Learning (ECML PKDD 2011). LNCS 6912, 453-469.
(publisher) (preprint) (R Package)
Menze BH, Van Leemput K, Honkela A, Konukoglu E, Weber MA, Ayache N and Golland P.
A generative approach for image-based modeling of tumor growth.
In: Proc International Conference on Information Processing in Medical Imaging (IPMI 2011). LNCS 6801. 735-47
(PubMed) (publisher) (preprint)
Menze BH, Hamprecht FA.
Multimodal medical image analysis: from visualization to disease modeling.
Zeitschrift fur Medizinische Physik (Journal of Medical Physics) 2011. 1:1-2 Front Cover, Editorial
(PubMed) (publisher)
Menze BH, Ur JA.
Detection of early settlements in the central Tigris region by classifying multi-spectral satellite imagery.
In: P Miglus (ed.), Between the Cultures: The Central Tigris Region in Mesopotamia from the 3rd to the 1st Millennium BC, Heidelberger Studien zum Alten Orient 12. Heidelberger Orientverlag, Heidelberg, Germany. 2011.
Menze BH, Strettin E, Konukoglu E, Ayache N.
Image-based modeling of tumor growth in patients with glioma.
In: CS Garbe, R Rannacher, U Platt, T Wagner (eds.), Optimal control in image processing . Springer Verlag, Heidelberg, Germany. 2011
(preprint)
Menze BH, Van Leemput K, Lashkari D, Weber MA, Ayache N, Golland P.
A generative model for brain tumor segmentation in multi-modal images.
In: Proc MICCAI. Beijing, China. LNCS 6362, 2010
(PubMed) (preprint)
Geremia E, Menze BH, Clatz O, Konukoglu E, Criminisi A, Ayache N.
Spatial decision forests for MS lesion segmentation in multi-channel MR images.
In: Proc MICCAI. Beijing, China. LNCS 6362, 2010
MICCAI Young Scientist Award, Runner-Up

(PubMed) (preprint)
Kaster FO, Menze BH, Weber MA, Hamprecht FA.
Comparative validation of graphical models for learning tumor segmentations from noisy manual annotations.
In: Proc MICCAI Workshop on Medical Computer Vision (MCV 2010). Beijing, China. LNCS 2010
(publisher) (preprint)
Menze S, Menze C, Lipfert J, Menze BH, Harsch G.
Der Vorfahr aus der Bronzezeit. Archaeologische Erkenntnisgewinnung durch molekulargenetische Verwandtschafts- und Abstammungsanalytik.
Praxis der Naturwissenschaften - ChiS 2010. 59:6–11. (In German)
(publisher)
Riklin Raviv T, Menze BH, Van Leemput K, Stieltjes B, Weber MA, Ayache N, Wells WM and Golland P.
Joint segmentation via patient-specific latent anatomy model.
In: MICCAI Workshop on Probabilistic Methods in Medical Image Analysis (PMMIA 09). London, UK. 2009
(publisher) (preprint)
Menze BH, Konukoglu E, Clatz O, Stieltjes B, Nix O, Weber MA, Kikinis R and Ayache N.
Estimating the growth process of gliomas using physiological models.
In: Syllabus of the ISMRM Workshop on Frontiers of Magnetic Resonance: From Tumor Cell to Cancer Patient. Nice, France. 2008
(publisher)
Menze BH, Mühl S, Sherratt AG.
Virtual survey on north Mesopotamian tell sites by means of satellite remote sensing.
In: B Ooghe, G Verhoeven (eds.), Broadening horizons: Multidisciplinary Approaches to Landscape Study. Cambridge Scholars Publishing, Newcastle upon Tyne, UK. 2007 5–29
(publisher) (preprint)
Görlitz L*, Menze BH*, Weber MA, Kelm BM and Hamprecht FA.
Semi-supervised tumor detection in magnetic resonance spectroscopic images using discriminative random fields.
In: FA Hamprecht, C Schnörr, B Jähne (eds.) Proc DAGM 2007, LNCS 4713. Springer, Berlin. 2007 224–233
(* contributed equally)
(publisher) (preprint)
Menze BH, Kelm BM and Hamprecht FA.
From Eigenspots to Fisherspots – latent spaces in the nonlinear detection of spot patterns in a highly variable background.
In: HJ Lenz, R Decker (eds.), Advances in Data Analysis., vol. 33 of Studies in Classification, Data Analysis, and Knowledge Organization. Springer, Heidelberg and Berlin. 2007 255–262
(publisher) (preprint)
Menze BH and Ur JA.
Classification of multispectral ASTER imagery in the archaeological survey for settlement sites of the Near East.
In: ME Schaepman et al. (eds.), Proc 10th Intern Symp on Physical Measurements and Signature in Remote Sensing (ISPMSRS 07), Davos, Switzerland. Intern Arch of the Photogrammetry, Remote Sensing and Spatial Information Sciences, Vol. 36. 2007 244–249
(publisher) (preprint)
Carlsohn MF, Menze BH, Kelm BM, Hamprecht FA, Kercek A, Leitner R, Polder G.
Spectral imaging and applications.
In: R Lukac, KN Plataniotis (eds.), Color image processing: methods and applications, Image Processing. CRC Press, New York. 2006 393–419
(publisher)
Menze BH, Kelm BM, Weber MA, Bachert P and Hamprecht FA.
A pattern recognition approach in the classification of MRSI data quality.
In: Syllabus of the ISMRM workshop on data processing for MR spectroscopy and imaging, Warrenton, USA. 2006 ISMRM Travel Grant
(publisher)
Kelm BM, Menze BH, Müller N and Hamprecht FA.
Estimation of pharmaco-kinetic parameters using spatial prior knowledge.
In: Proc 23rd Annual Scientific Meeting of the European Society for Magnetic Resonance in Medicine and Biology (ESMRMB 06), Warsaw, Poland. 2006
EPOS highlights session
(publisher)
Kelm BM, Müller N, Menze BH and Hamprecht FA.
Bayesian estimation of smooth parameter maps for dynamic contrast-enhanced MR images with block-ICM.
In: MMBIA 2006: Mathematical Methods in Biomedical Image Analysis. Proc Computer Vision and Pattern Recognition Workshop (CVPRW 06), New York, USA. 2006 96–103
(publisher) (preprint)
Menze BH, Petrich W and Hamprecht FA.
Multivariate feature selection in the control of chemometric pattern recognition rules.
In: Shedding light on disease: Optical diagnosis for the new millenium. Proc 4th International Conference SPEC 2006, Heidelberg, Germany. 2006 Best Poster Award
(publisher)
Menze BH, Kelm BM and Hamprecht FA.
Automated separation of low quality and artifact spectra by pattern recognition in the processing of MR spectral images.
In: Proc 14th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM 06), Seattle, USA. 2006
(publisher)
Kelm BM, Menze BH, Neff T, Zechmann C and Hamprecht FA.
CLARET: a tool for fully automated evaluation of MRSI with pattern recognition methods.
In: H Handels, J Ehrhardt, A Horsch, HP Meinzer, T Tolxdorf (eds.), Bildverarbeitung für die Medizin 2006, Informatik Aktuell. Springer, Heidelberg and Berlin. 2006 51–55
(publisher) (preprint)
Menze BH, Kelm BM, Heck D, Lichy MP and Hamprecht FA.
Machine based rejection of low-quality spectra, and estimation of brain tumor probabilities from magnetic resonance spectroscopic images.
In: H Handels, J Ehrhardt, A Horsch, HP Meinzer, T Tolxdorf (eds.), Bildverarbeitung für die Medizin 2006, Informatik aktuell. Springer, Heidelberg and Berlin. 2006 31–35
(publisher) (preprint)
Menze BH, Ur JA and Sherratt AG.
Tell Spotting – surveying Near Eastern settlement mounds from space.
In: S Dequal (ed.), Proc 20th CIPA International Symposium (CIPA 05), Torino, Italy. 2005 458–462
(publisher) (preprint)
Menze BH, Kelm BM, Lichy MP, Bachert P, Schlemmer HP and Hamprecht FA.
Optimal processing in the automatic detection and localization of brain tumors using MRSI.
In: Proc 13th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM 05), Miami, USA. 2005
(publisher)
Menze BH, Wormit M, Bachert P, Lichy MP, Schlemmer HP and Hamprecht FA.
Classification of in vivo magnetic resonance spectra.
In: C Weihs, W Gaul (ed.), Classification, the ubiquitous challenge, vol. 31 of Studies in Classification, Data Analysis, and Knowledge Organization. Springer, Heidelberg and Berlin. 2005 362–369
(publisher) (preprint)
Menze BH, Wormit M, Bachert P, Schlemmer HP and Hamprecht FA.
Classification of magnetic resonance spectra by means of pattern recognition.
In: Proc 12th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (ISMRM 04), Kyoto, Japan. 2004 ISMRM Travel Grant
(publisher)
Menze BH.
"Diese Sorte wohnte fruher in den Fichten!" Zur Nachkriegsgeschichte der "Lippstadter Fichten" - einer modernen Wustung.
In: Report, Stadtarchiv Lippstadt 47p. 1997
(access)
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