1,244 research outputs found
Image processing for plastic surgery planning
This thesis presents some image processing tools for plastic surgery planning. In particular,
it presents a novel method that combines local and global context in a probabilistic
relaxation framework to identify cephalometric landmarks used in Maxillofacial plastic
surgery. It also uses a method that utilises global and local symmetry to identify abnormalities
in CT frontal images of the human body. The proposed methodologies are
evaluated with the help of several clinical data supplied by collaborating plastic surgeons
Prototypes for Content-Based Image Retrieval in Clinical Practice
Content-based image retrieval (CBIR) has been proposed as key technology for computer-aided diagnostics (CAD). This paper reviews the state of the art and future challenges in CBIR for CAD applied to clinical practice
Broken phase effective potential in the two-loop Phi-derivable approximation and nature of the phase transition in a scalar theory
We study the phase transition of a real scalar phi^4 theory in the two-loop
Phi-derivable approximation using the imaginary time formalism, extending our
previous (analytical) discussion of the Hartree approximation. We combine Fast
Fourier Transform algorithms and accelerated Matsubara sums in order to achieve
a high accuracy. Our results confirm and complete earlier ones obtained in the
real time formalism [1] but which were less accurate due to the integration in
Minkowski space and the discretization of the spectral density function. We
also provide a complete and explicit discussion of the renormalization of the
two-loop Phi-derivable approximation at finite temperature, both in the
symmetric and in the broken phase, which was already used in the real-time
approach, but never published. Our main result is that the two-loop
Phi-derivable approximation suffices to cure the problem of the Hartree
approximation regarding the order of the transition: the transition is of the
second order type, as expected on general grounds. The corresponding critical
exponents are, however, of the mean-field type. Using a "RG-improved" version
of the approximation, motivated by our renormalization procedure, we find that
the exponents are modified. In particular, the exponent delta, which relates
the field expectation value phi to an external field h, changes from 3 to 5,
getting then closer to its expected value 4.789, obtained from accurate
numerical estimates [2].Comment: 54 pages, 16 figure
PynPoint: a modular pipeline architecture for processing and analysis of high-contrast imaging data
The direct detection and characterization of planetary and substellar
companions at small angular separations is a rapidly advancing field. Dedicated
high-contrast imaging instruments deliver unprecedented sensitivity, enabling
detailed insights into the atmospheres of young low-mass companions. In
addition, improvements in data reduction and PSF subtraction algorithms are
equally relevant for maximizing the scientific yield, both from new and
archival data sets. We aim at developing a generic and modular data reduction
pipeline for processing and analysis of high-contrast imaging data obtained
with pupil-stabilized observations. The package should be scalable and robust
for future implementations and in particular well suitable for the 3-5 micron
wavelength range where typically (ten) thousands of frames have to be processed
and an accurate subtraction of the thermal background emission is critical.
PynPoint is written in Python 2.7 and applies various image processing
techniques, as well as statistical tools for analyzing the data, building on
open-source Python packages. The current version of PynPoint has evolved from
an earlier version that was developed as a PSF subtraction tool based on PCA.
The architecture of PynPoint has been redesigned with the core functionalities
decoupled from the pipeline modules. Modules have been implemented for
dedicated processing and analysis steps, including background subtraction,
frame registration, PSF subtraction, photometric and astrometric measurements,
and estimation of detection limits. The pipeline package enables end-to-end
data reduction of pupil-stabilized data and supports classical dithering and
coronagraphic data sets. As an example, we processed archival VLT/NACO L' and
M' data of beta Pic b and reassessed the planet's brightness and position with
an MCMC analysis, and we provide a derivation of the photometric error budget.Comment: 16 pages, 9 figures, accepted for publication in A&A, PynPoint is
available at https://github.com/PynPoint/PynPoin
Digital Image Access & Retrieval
The 33th Annual Clinic on Library Applications of Data Processing, held at the University of Illinois at Urbana-Champaign in March of 1996, addressed the theme of "Digital Image Access & Retrieval." The papers from this conference cover a wide range of topics concerning digital imaging technology for visual resource collections. Papers covered three general areas: (1) systems, planning, and implementation; (2) automatic and semi-automatic indexing; and (3) preservation with the bulk of the conference focusing on indexing and retrieval.published or submitted for publicatio
Computational methods and tools for protein phosphorylation analysis
Signaling pathways represent a central regulatory mechanism of biological systems where a key event in their correct functioning is the reversible phosphorylation of proteins. Protein phosphorylation affects at least one-third of all proteins and is the most widely studied posttranslational modification. Phosphorylation analysis is still perceived, in general, as difficult or cumbersome and not readily attempted by many, despite the high value of such information. Specifically, determining the exact location of a phosphorylation site is currently considered a major hurdle, thus reliable approaches are necessary for the detection and localization of protein phosphorylation. The goal of this PhD thesis was to develop computation methods and tools for mass spectrometry-based protein phosphorylation analysis, particularly validation of phosphorylation sites. In the first two studies, we developed methods for improved identification of phosphorylation sites in MALDI-MS. In the first study it was achieved through the automatic combination of spectra from multiple matrices, while in the second study, an optimized protocol for sample loading and washing conditions was suggested. In the third study, we proposed and evaluated the hypothesis that in ESI-MS, tandem CID and HCD spectra of phosphopeptides can be accurately predicted and used in spectral library searching. This novel strategy for phosphosite validation and identification offered accuracy that outperformed the other currently existing popular methods and proved applicable to complex biological samples. And finally, we significantly improved the performance of our command-line prototype tool, added graphical user interface, and options for customizable simulation parameters and filtering of selected spectra, peptides or proteins. The new software, SimPhospho, is open-source and can be easily integrated in a phosphoproteomics data analysis workflow. Together, these bioinformatics methods and tools enable confident phosphosite assignment and improve reliable phosphoproteome identification and reportin
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