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Engineering in Medicine and Biology Magazine, IEEE

Issue 3 • Date May-June 2005

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Displaying Results 1 - 25 of 40
  • A look at... shape and function from motion in medical imaging: Part I

    Publication Year: 2005 , Page(s): 29 - 31
    Cited by:  Papers (2)
    Save to Project icon | Request Permissions | Click to expandQuick Abstract | PDF file iconPDF (832 KB) |  | HTML iconHTML  

    Image sequence analysis has been an active research area for many years. It brought new insights into a lot of distinct applications, ranging from site securing (intrusion detection) to image coding and video indexing as well as path determination or object handling in robotics. The pioneering contributions provided in the 1980s (e.g., the works of Hildreth, Nagel, and Horn and Schunck) aimed at two-dimensional (2-D) image sequence analysis through motion field estimation have benefited from major technological and methodological advances. New capabilities in capturing three-dimensional scenes have opened the road for emerging applications and have therefore led to more demanding solutions for object feature extraction, reconstruction, and interpretation. This column revisits some up-to-date problems in digital imaging. A future column will point out some of the challenges that should be considered in medical imaging. Topics covered include motion estimation; motion based image segmentation; and tracking. View full abstract»

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  • Functional proteomics with biolinguistic methods

    Publication Year: 2005 , Page(s): 73 - 80
    Cited by:  Papers (1)
    Save to Project icon | Request Permissions | Click to expandQuick Abstract | PDF file iconPDF (1670 KB) |  | HTML iconHTML  

    In this article, new algorithms for comparative proteomics using extensions of n-gram analysis are described. Results demonstrate that these algorithms are more sensitive than those currently available for both genomics and proteomics analysis, enabling a more accurate portrayal of similarity of gene function. The algorithms allow the comparison of protein sequences using biochemical properties that enable the protein molecules to fold and perform the necessary functions. The algorithms described are amenable to parallelization with effective domain database partitioning. This makes them an attractive alternative for searching protein databases by developing high-speed, functionally partitioned searches. View full abstract»

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  • Optimization techniques for string selection and comparison problems in genomics

    Publication Year: 2005 , Page(s): 81 - 87
    Cited by:  Papers (10)
    Save to Project icon | Request Permissions | Click to expandQuick Abstract | PDF file iconPDF (928 KB) |  | HTML iconHTML  

    In this article, a discussion of optimization issues occurring in the area of genomics such as string comparison and selection problems are discussed. With this objective, an important part of the existing results in this area will be discussed. The problems that are of interest in this paper include the closest string problem (CSP), closest substring problem (CSSP), farthest string problem (FSP), farthest substring problem (FSSP), and far from most string (FFMSP) problem. The paper presents a detailed view of the most important problems occurring in the area of string comparison and selection, using the Hamming distance measure is given. View full abstract»

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  • Predicting secondary structures of proteins

    Publication Year: 2005 , Page(s): 88 - 94
    Cited by:  Papers (2)
    Save to Project icon | Request Permissions | Click to expandQuick Abstract | PDF file iconPDF (1148 KB) |  | HTML iconHTML  

    The article presents the application of a new machine-learning algorithm for the prediction of secondary structures of proteins. The logical analysis of data (LAD) algorithm was applied to recognize which amino acids properties could be analyzed to deliver additional information, independent from protein homology, useful in determining the secondary structure of a protein. The study showed that to get better results, LAD should be used as a first stage of analysis in combination with another method that is able to take into account a more detailed understanding of the physical chemistry of proteins and amino acids. View full abstract»

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  • Proteins and their shape strings

    Publication Year: 2005 , Page(s): 41 - 49
    Cited by:  Papers (6)
    Save to Project icon | Request Permissions | Click to expandQuick Abstract | PDF file iconPDF (1480 KB) |  | HTML iconHTML  

    The paper presents an exemplary computer representation of protein structure. The paper described how the configurations of protein backbone turns can be recovered from shape-string (sequence of symbols) descriptions, which are compressed and approximate, by looking them up in a table. Although they are used internally in many algorithms, shape strings are not generally regarded as an annotation that humans should read. Protein structure is much more conserved by evolution than sequence is. Shape strings can be very revealing to the human eye and should identify distant homologues whose sequences have diverged in the fog of time. View full abstract»

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  • Clinical Engineering - [Book review]

    Publication Year: 2005 , Page(s): 18 - 19
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    Freely Available from IEEE
  • Exhibit and reach out

    Publication Year: 2005 , Page(s): 26
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  • Around the world - biomedical engineering in vietnam today

    Publication Year: 2005 , Page(s): 7 - 17
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  • Biomedical platforms-Realigning the normal and the pathological in late-twentieth-century medicine - [Book review]

    Publication Year: 2005 , Page(s): 19
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  • RESNA - The Journal with a Passion For Life

    Publication Year: 2005 , Page(s): 137
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  • Call for all clinicians

    Publication Year: 2005 , Page(s): 27
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  • Herman Paul Schwan 1915-2005

    Publication Year: 2005 , Page(s): 15
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    Freely Available from IEEE
  • Government affairs - technology, policy, and funding

    Publication Year: 2005 , Page(s): 129 - 131
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  • Key challenges in proteomics and proteoinformatics

    Publication Year: 2005 , Page(s): 34 - 40
    Cited by:  Papers (5)
    Save to Project icon | Request Permissions | Click to expandQuick Abstract | PDF file iconPDF (955 KB) |  | HTML iconHTML  

    In this article, a survey on experimental and computational approaches related to proteomics is presented. Considered broadly, proteomics includes: techniques for identifying proteins in a sample, detecting posttranslational modifications (changes to proteins after translation), predicting the structure and function of proteins from sequence data, and integrating information about protein sequences from different databases. The paper focuses on the ways in which recent biological findings complicate the mapping from genes to RNA to protein. The authors argue that the challenges encountered in proteomics provide a valuable lesson on the complexity of life itself, as live organisms always contradict oversimplified models of biological information flow. In this overview, a snapshot of contemporary issues in proteomics is shown. View full abstract»

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  • The IEEE Engineering in Medicine and Biology Society (IEEE EMBS)

    Publication Year: 2005 , Page(s): 135
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  • Does protein structure influence trypsin miscleavage?

    Publication Year: 2005 , Page(s): 58 - 66
    Cited by:  Papers (3)
    Save to Project icon | Request Permissions | Click to expandQuick Abstract | PDF file iconPDF (1557 KB) |  | HTML iconHTML  

    In this article, a new database that relates structural information from proteins in protein data bank to closely related protein sequences in humans was developed. Because the match criteria are extremely stringent, the structure of proteins in other species to infer characteristics of the human proteins was used. As a demonstration of the approach, this database has been applied to the problem of identifying likely trypsin miscleavage sites, a significant problem in proteomics. However, the approach is very general, and can be used to answer many kinds of structural questions (including questions related to posttranslational modifications). The study found that both the surface area and the secondary structure of cleavage sites have highly statistically significant effects on trypsin cleavage. The results of this analysis do not, however, suggest that surface area or secondary structure properties of particular peptides can be used to predict miscleavage sites, at least at a global level. This analysis of cleavage sites demonstrates the general power of homology-based techniques, in which the characteristics of a single protein that has a structure that has been solved can be used to infer properties of other proteins. We expect that our database of related proteins, structures, and sequences and our ability to query experimentally determined sets of peptides against this database will allow us to answer many other questions relation to global protein expression and modification. View full abstract»

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  • Ten Questions About Human Error, A New View of Human Factors and System Safety - [Book reviews]

    Publication Year: 2005 , Page(s): 18
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    Freely Available from IEEE
  • Patents - Keeping your stories straight

    Publication Year: 2005 , Page(s): 128
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  • Society news - EMBS survey results

    Publication Year: 2005 , Page(s): 12 - 14
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  • BME company profiles entelos: predictive model systems for disease

    Publication Year: 2005 , Page(s): 20 - 23
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  • IEEE Engineering in Medicine and Biology Magazine

    Publication Year: 2005 , Page(s): 0_1
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    Freely Available from IEEE
  • Table of content

    Publication Year: 2005 , Page(s): 1 - 2
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    Freely Available from IEEE
  • From the editor - Study abroad, magazine scrutiny

    Publication Year: 2005 , Page(s): 4 - 5
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  • Letters to the editor - Otto Schmitt's legacy continues to reverbrate

    Publication Year: 2005 , Page(s): 6
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  • Student's corner - Bombay-keeping a finger on the student pulse

    Publication Year: 2005 , Page(s): 16 - 17
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Aims & Scope

IEEE Engineering in Medicine and Biology Magazine contains articles on current technologies and methods used in biomedical and clinical engineering.

 

This Magazine ceased publication in 2010. The current retitled publication is IEEE Pulse.

Full Aims & Scope