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Topic: General Data Format for Biomedical Signals

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1143

Litigants in person

Henri II de Montmorency

	Enhancing a biomedical information extraction system with dictionary mining and context disambiguation
		Biomedical information is growing explosively, and new and useful results are appearing daily in research publications.
		To enable data mining and knowledge discovery from such documents, this data must be made available in a structured format.
		Because of the very large amounts of data being generated, it is difficult to have human curators extract all of the information and present it in a form usable by data mining and knowledge discovery tools.
	www.research.ibm.com /journal/rd/485/mukherjea.html (4268 words)

	Teledesign Systems, Inc. -Wireless data acquisition
		Data used to be collected using input/output devices, sensors, etc. and passed to the data processing center.
		GPS data collection from a receiver at a known location is used to correct the data from a receiver at an unknown location.
		The data thus collected is used to study various parameters of a system and the implications it would have on the dependent processes/systems.
	www.teledesignsystems.com /wireless_data.html (5220 words)

	Data Submission
		GENBANK ENLISTING COMMUNITY SUPPORT To meet the goal of an accurate and current data bank, GenBank and the scientific journals are requesting members of the molecular biology community to submit their data directly to the data bank.
		FULLY AUTOMATED DATA ENTRY Authorin submissions received via electronic mail are checked automatically by a suite of computer programs designed to validate the sequence data and their associated information.
		Please include in your submission any additional sequence data which is not reported in your manuscript but which has been reliably determined (for example, introns or flanking sequences).
	www.scs.uiuc.edu /documentation/gcgmanual/appendix_ii.html (1543 words)

	[No title]
		General information on ANN history, available techniques and applications can be found elsewhere [e.g., 3] ANNs In Biological Signal Processing Artificial neural networks lend themselves very naturally to applications involving biological signal processing and recognition [4].
		For example, event-synchronized signals, such as brain evoked potentials (BEP) and periodical, self-synchronized or paced signals, such as electrocardiograms (ECG), are easily time- locked onto the ANN's input vector.
		Aside the aforementioned biological signals, ANN aplications are still rarely found [8,9], thus giving an indication of its huge potential for new developments.
	www.ibiblio.org /pub/academic/medicine/brazil-mirror/neuralnets/NIB-papers/biosignal.txt (1849 words)

	The Biomedical Information Science and Technology Initiative (Site not responding. Last check: 2007-11-03)
		Biomedical computing is not a recognized discipline, and despite the extraordinary demand for people with good education in both biomedicine and computing, only a few cross-disciplinary training programs exist.
		Biomedical researchers need to know better how to use the powerful technology that both informs and advances their work, but the time spent developing that expertise should not come at the expense of time spent focusing on basic scientific problems.
		Geneticists are running analyses of large numbers of subjects against the enormous amounts of data now being released about the human genome, utilizing the data from hundreds of subjects and their family members to map disease genes within a region of 30-40 megabases of DNA — more than 100 megabytes of information on each person.
	www.nih.gov /welcome/director/060399.htm (8704 words)

	BIOEN / EE 436 BIOMEDICAL INSTRUMENTATION
		The format of the term project is an independent miniature proposal, which can be a need-driven proposal (as opposed to a hypothesis-driven one).
		The measurement technique can be in a broad sense, such as the use/development of hardware, software, and new assay, etc. A few students might share the same topic; however, you are required to work on your topic independently.
		Note: You are welcome to choose a biomedical question by yourself (with instructor’s approval), which can be relevant to your research or the one you are interested in, but it can not be your thesis project or the project you are currently working.
	courses.washington.edu /bioen581/bioen581-syllabus.htm (478 words)

	NCBI FieldGuide Glossary
		One way of generating such a matrix is to examine alignments of real proteins that are known to be homologous (see Homolog) and tabulate the substitution frequencies of the various amino acid pairs at all positions.
		A curated database is a derivative database containing molecular records that are compiled and edited from primary molecular data by experts who maintain and are responsible for the content of the records.
		This is the format of the sequence records in the GenBank flatfile release.
	www.ncbi.nlm.nih.gov /Class/FieldGuide/glossary.html (6885 words)

	Maths Neural Network Data Mining Analysis ActiveX Software, Component, C#, Visual Basic,.Net, Singular Value
		ICA is useful in a wide range of data analysis tasks where we seek to understand and analyse sequential or time-based data in terms of their underlying composition, where the composition signals are as independent of each other as possible.
		PCA is useful in a wide range of data analysis tasks where we seek to understand and analyse sequential or time-based data in terms of their underlying composition, where the composition signals are as independent of each other as possible.
		The data is classified by allocating each data point to a class and then iteratively moving the data points between classes until we obtain the tightest overall cluster of points in each class.
	windale.com /mathsstudiox.php3 (3844 words)

	CEB - Ground truth data for document image analysis
		This data, as ground truth, would be invaluable in the design of innovative and efficient algorithms for automatic zoning, labeling and reformatting by the computer science and medical informatics communities.
		The format chosen for all data is XML: for images, OCR-converted data and operator-verified data since XML excels in adaptation (to accommodate changes in data), maintenance, linking (from one piece of data to another), simplicity, and portability over networks, operating systems and development environments.
		Once the data is available in XML format along with the original TIFF image, researchers need the functionality to visualize and analyze the data.
	archive.nlm.nih.gov /pubs/ford/groundTruthData/gtd.php (2062 words)

	[No title]
		This definition excludes many biomedical images that might otherwise be considered, such as images of electrophoretic gels and their blots, as these are intended to reveal the composition of samples, rather than spatial relationships in a biological structure.
		This definition excludes much biomedical data that might otherwise be considered an image, such as autoradiographs and other representations of electrophoretic gels and their blots, that are intended to reveal the composition of the sample.
		Biomedical datasets such as images do not exist in isolation and are always related to other images as part of a study or experimental project.
	www.countway.med.harvard.edu /bil/documents/ShortProposal.doc (4738 words)

	Columbia University Biomedical Informatics
		The first year general consists of coursework that introduces students to the field of biomedical informatics, and provides a foundation in relevant areas of computer science, biomedicine, and biostatistics.
		The approach is from the general to the particular, to provide students with a workable overall knowledge of hospital organization as well as more particular insight into certain typical and key departments.
		The ability to analyze data at levels ranging from the individual patient to the national population could prove to be a valuable skill as students pursue their public health careers and advanced studies.
	www.dmi.columbia.edu /educ/courses/courses.html (3057 words)

	Extended deadline (IEEE CBMS) - Track on Grid for Biomedical Informatics :: Bioinformatica.info :: News and data on ... (Site not responding. Last check: 2007-11-03)
		Biomedical Informatics is quickly evolving into a research field that encompasses the use of all kinds of biomedical information, from genetic and proteomic data to image data associated with particular patients in clinical settings.
		Biomedical Informatics comprises the fields of Bioinformatics (e.g., genomics and proteomics) and Medical Informatics (e.g., medical image analysis), and deals with issues related to the access to information technology in medicine, the analysis of genomics data, security, interoperability and integration of data-intensive biomedical applications.
		- face effectively the growth of data they need to manage and process, exploiting recent methods such as data mining, taking into account that biomedical data are produced and stored continuously; and integrate and share data and findings in a controlled manner.
	www.bioinformatica.info /modules.php?op=modload&name=News&file=article&sid=303 (887 words)

	LabVIEW for Measurement and Data Analysis - Tutorial - Development Library - National Instruments
		This is generally the case when dealing with applications where decisions have to be made during run time and the results have direct consequences on the process, typically through the changing of parameters or executing of actions.
		In these cases, the application must handle the data coming from the process, and then manipulate, simplify, format, and present the data in a way that it is most useful to the user.
		However, in many cases the data set is limited because of a genuine lack of data or because users need to ensure that the spectral characteristics of the signal do not change over the duration of the data record.
	zone.ni.com /devzone/conceptd.nsf/webmain/C945B6FE25D62BCF86256C91005F9FE1?opendocument (3291 words)

	Automatic Reformatting of OCR Text from Biomedical Journal Articles
		A second generation MARS system is being designed to automate the entry of other fields, focussing primarily at present on the article title, author names and their institutional or organizational affiliation.
		Another reason is that the desired data is spread out over the entire field and not contiguous.
		Convert is a broad category that deals with general requirements to convert one pattern of text with another.
	archive.nlm.nih.gov /pubs/sdiut/reformat.php (2544 words)

	UGA Cellular Biology \| Faculty \| Charles H. Keith
		In my laboratory we study the molecular mechanisms by which extracellular signals are transduced into effects on the cytoskeleton, and the consequence that these effects have on the development and function of neuronal cells in culture.
		We are currently examining the mechanisms by which signals such as membrane depolarization and substrate adhesivity modulate the polymerization and configuration of microtubules in neuronal growth cones, and the way in which these changes affect axonal and dendritic outgrowth.
		We use quantitative microsopic and image analysis of fluorescent tubulin and of fluorescent ion indicators to perform these studies in living cells, as they cannot yet be reconstructed outside of the cell.
	www.uga.edu /cellbio/keith.html (489 words)

	WPI 2005-2006 Graduate Catalog - Biomedical Engineering
		Topics in biomedical engineering are presented both by authorities in the field and graduate students in the program.
		Students may meet the attendance requirement for this course in several ways, including attendance at weekly biomedical engineering seminars on the WPI campus, attendance at similar seminar courses at other universities or biotech firms, attendance at appropriate conferences, meetings or symposia, or in any other way deemed appropriate by the course instructor.
		Biomedical signal characterization, time domain analysis techniques (transfer functions, convolution, auto- and cross-correlation), frequency domain (Fourier analysis), continuous and discrete signals, deterministic and stochastic signal analysis methods.
	www.wpi.edu /Pubs/Catalogs/Grad/Current/bmecourses.html (2191 words)

	Proj14 (Site not responding. Last check: 2007-11-03)
		Several data series will be studied using these methods and the spectral content of the signals will be analysed.
		The effect of various data windows applied to the data will be investigated.
		All of these methods are applicable to general fields of science and engineering and hopefully the project will prove useful for students hoping to specialise in different areas.
	www-h.eng.cam.ac.uk /teaching/projects/yr3_guide_old/yr3_proj_99/computer_proj/proj14.html (366 words)

	Workshop on Standardization in E-Health
		The standardization of medical records can also allow generation of basic healthcare statistics (frequency among patients of one or more conditions, duration of stay in hospital, use of particular drug, inserting in a experimental protocol) as well as more sophisticated tests.
		HTML is based on data presentation (data form) and not on the data contents, in this way the doctor can consult a list of data but it is not possible to send them to another doctor or to make a "cut and paste" on his data base.
		With the use of SGML (Standardized General Markup Language, standard ISO 8879:1986) and XML (eXtensible Markup Language) it is possible now to solve this problem, making a standardization of the information exchanged and not of the data format.
	www.itu.int /ITU-T/worksem/e-health/abstracts/abs-s4-03.html (546 words)

	Better Data Acquisition Leads to Better Products, IOtech Inc. (Site not responding. Last check: 2007-11-03)
		And DAQ is used by a wide variety of people, including data analysis, pharmaceutical labs, construction technicians, and product developers to perform a range of custom measurements.
		The following stories reveal the data gathering and analysis instruments used behind the scenes, which are necessary to providing critical services and cutting-edge products to the medical industry.
		Our signal conditioning is especially strong at measuring physical parameters such as temperature measurement, vibration measurement, and strain measurement.
	www.iotech.com /meddesign04.html (1058 words)

	University of Kentucky: Center for Biomedical Engineering (Site not responding. Last check: 2007-11-03)
		Biomedical systems models, dynamic programming, variational approach to optimal control problems, real-time parameter estimation, adaptive control methods and biomedical applications.
		Survey of the regulatory, legal, managerial, financial and medical environment in which the biomedical engineering profession is practiced.
		Review of current literature in the field of biomedical engineering, general discussion and presentation of papers on research in biomedical engineering.
	www.uky.edu /RGS/CBME/courses.php (1072 words)

	Physiology analysis software and systems (Site not responding. Last check: 2007-11-03)
		The device continuously collects and streams raw data to memory in a binary format using NI LabVIEW PDA technology.
		You can then easily process the data using MindWare biomedical signal processing suite software for general physiology signals, impedance cardiography, and heart rate variability.
		You also can transmit data for both instruments wirelessly in real time from the PDA to a desktop host PC via TCP/IP.When bundled with the MindWare biomedical signal processing suite and NI PDA-based tools, the ambulatory physiology monitor and impedance cardiograph extend physiology measurement into new environments with desktop performance and precision.
	www.mindwaretech.com /ni.htm (336 words)

	EBS – Extensible bio-signal file format (Site not responding. Last check: 2007-11-03)
		EBS is a simple binary file format for storing multi-channel time-series recordings and associated metadata.
		EBS is a simple general-purpose format that is also well suited for numerous other types of biomedical multi-channel time-series signals.
		Even though I have not been actively involved with processing bio-signal data for a number of years, as the original principal designer of EBS, I am happy to help EBS users with answering questions where I can.
	www.cl.cam.ac.uk /~mgk25/ebs (505 words)

	ETEC 448
		This is a list of file formats organized by type, seen on computers.
		Filename extensions are usually noted in parenthesis if they differ from the format name or abbreviation.
		ZXE - Executable that is generated by the Z++ compiler.
	www2.hawaii.edu /~elsielee/etec448/formats.shtml (860 words)

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