NDLI: Engineering a proteomics pipeline for the cellmap project

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Volume 4 - 2003

Fiber optic biosensors comprising nanocomposite multilayered polymer and nanoparticle ultrathin films

A microfluidic bioreporter system for space flight monitoring

Survival-time analysis of the postpartum anovulatory interval as measured by rise in urinary pregnanediol-3-glucuronide in lactating women

Acoustic immunosensor for real-time sensing of neurotransmitter GABA

Comparison of conformal and nonconformal meshes in the electromagnetic simulation of atherosclerotic lesions

A novel biosensor for on-line dialysis monitoring

Wearable sensor system for wireless state-of-health determination in cattle

Measurement site and photodetector size considerations in optimizing power consumption of a wearable reflectance pulse oximeter

A ring-shaped EMG measurement system for applying to user interface

Power line interference in ambulatory biopotential measurements

Miniature transmitter for implantable micro systems

Pyroelectric properties of Pb/sub 0.88/(Ln)/sub 0.08/Ti/sub 0.98/Mn/sub 0.02/O/sub 3/ (Ln=La, Sm, Eu) piezoceramics for biomedical use

Thermal and electrical characterization of the intervertebral disc

Tunnel diode oscillator applied as sensor-modulator for telemetry of temperature in human beings and animals

Inductively powered implantable microcoil temperature measurements: safety implications and operational guidelines

Solenoidal and planar microcoils for NMR spectroscopy

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On the design of a swept-field aspiration condenser measurement cell

Practical method for photon fluency evaluation of digital X-ray image system

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Bioelectrical impedance vector analysis in COPD patients

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Performance of impedance and inductance ventilation sensors on premature infants during natural breathing, motion, and airway obstruction

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Transcatheter measurement of myocardium electrical impedance: 2 versus 3 electrode method

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Assessment of knee osteoarthritis by bioelectrical impedance

A new approach for detection of leg movement using bio-impedance technique

Post mortem conductivity measurement of liver tissue using a contact free magnetic induction sensor

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VEP associated with pupillary responses for objective evaluation of the visual field

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Implementation of a standards-based pulse oximeter on a wearable, embedded platform

Comparing objective MLAEP detection techniques in time- and frequency-domain for anaesthesia monitoring

Frequency parameters from myographic signals for the evaluation of respiratory muscle activity during an increased ventilatory effort

In situ impedance spectroscopy of the intestinal mucosa in an ischemia-reperfusion model

Minimally invasive electrical impedance spectroscopy of skin exemplified by skin cancer assessments

Application of step response impedance spectroscopy for detection of skin irritation

Stimulus artifact cancellation in click evoked otoacoustic emissions using linear prediction

Simultaneous transient evoked otoacoustic emissions and auditory brainstem response for auditory evaluation

Head mounted goggle system with liquid crystal display for evaluation of eye tracking functions on neurological disease patients

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Comparison of electrical parameters of human body parts with vegetation

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Study of effects of modulated microwaves by method of face masking

Low-level microwave effect on nerve pulse propagation velocity

Influence of high voltage static electric field on antioxidant enzymes activity in male rats

Cardiac safety of high voltage TASER X26 waveform

Effects of 50 Hz ferromagnetic field exposure on apoptosis and proliferation of murine liver cell in vivo

Change in the body color and the urine quantity of goldfish caused by 50 Hz magnetic field exposure

Improvement of the resonant cavity applicator for brain tumor hyperthermia

Vector analysis of gastrointestinal biomagnetic fields

Simulation and verification of pacemaker antennas

Magnetic resonance technique of gradient magnetic field measurement

A smart sensor based on rules and its evaluation in daily routines

Goniometer based to computer

Dental intercommunication measuring

Monitoring functional ranges of upper-limb activity in a free-living environment

Non invasive procedure to evaluate the viscoelastic behavior of the brachial artery by oscillometric repeated measurements

Development and validation of an electrically controlled rotatory chair to be used as a simulator for spatial disorientation and motion sickness

Low noise multichannel amplifier for portable EEG biomedical applications

MYOS: an efficient multichannel EMG data acquisition and analysis system

Microfluidic characterization of a valved glaucoma drainage device with implications for enhanced therapeutic efficacy

Single trial discrimination between right and left hand movement with EEG signal

A low-power integrated circuit for adaptive detection of action potentials in noisy signals

Stimulus-resistant neural recording amplifier

Chemical sensing capability of MEMS implantable multichannel neural microelectrode arrays

Multifunctional neuroprobes with integrated chemical and electrical neural interfaces

Long term in vitro monitoring of polyimide microprobe electrical properties

An integrated microchip for dielectrophoresis based characterization and manipulation of cells

A micro sensing probe for detecting individual biological cells

Application of the reciprocity theorem to volume conduction based data communication systems between implantable devices and computers

A volume conduction antenna for implantable devices

Stentenna: a micromachined antenna stent for wireless monitoring of implantable microsensors

Benzocyclobutene (BCB) based intracortical neural implant

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Separation of blood in microchannel bends

Integrated CE chip - concentration and high-resolution cyclic CE technology

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Design and implementation considerations for an advanced wireless interface in miniaturized integrated sensor microsystems

A microfluidic channel for cell separation

Computer simulation of stress analysis in benzocyclobutene (BCB) based neural interface

Tracking rotation and translation of laser microsurgical instruments

Rate-dependent inverse hysteresis feedforward controller for microsurgical tool

MRI systems as a mean of propulsion for a microdevice in blood vessels

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A rapid, whole blood immunoassay using metal nanoshells

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Overview of the biomedical engineering history in Mexico: a personal point of view

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A secure database for human specimen repositories

A possible EMB award recognizing excellent research by graduate students published in EMB journals

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Biomedical engineering minor: an option for EE students in Argentina

Rethinking the undergraduate biomedical engineering curriculum after an analysis of the 20 previous years

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Applications of computational models in education

Peer-reviewed literature - a resource for teaching mathematical modeling to undergraduates in biomedical engineering

ICELL: an interactive web resource for simulation-based teaching and learning in electrophysiology training

NLX: building web pages with interactive calculations in minutes

Electrical interactions between cardiac cells: what can we learn from two-cell systems?

Inquiry-based biomedical signal processing laboratory: from practice to simulation

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Proposing the IOC pedagogy for Japanese higher education in the Universalize era

Biomedical engineering curriculum: should it be the bioengineering curriculum?

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Biomedical engineering education and related research activity in Hungary

Computerized games sequency for written language acquisition in special education

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Entering the U.S. medical device market

Mining and interpretation of association rules among protein sequence motifs

Genome bases sequences characterization by a neuro-fuzzy predictor

Effect of feature extraction and feature selection on expression data from epithelial ovarian cancer

Effects of spot and background defects on quantitative data from spotted microarrays

CellMapBase-an information system supporting high-throughput proteomics for the Cell Map project

Exhaustive search for fuzzy gene networks from microarray data

Immune-microassay with optical proteinchip for protein detection

In situ quantification of genomic instability in breast cancer progression

Updated instrumentation for continuous array genotyping of short insertion/deletion polymorphisms

Optimization of biomedical engineering within a comprehensive cancer center

Clinical engineering methodology applied in the Tucuman's public health system: first results for X-ray service

Incorporating usability design factors into development of clinical decision support systems

A new proposal of quality indicators for clinical engineering

In vitro and in vivo evaluation of electromagnetic interference between wireless home monitoring pacemakers and GSM mobile phones

Methodology for identification of susceptible areas to electromagnetic interference in the hospital

Exploring current risks of mobile telephony in hospital and clinical environments

Contribution for the functionality and the safety in magnetic resonance: an approach for the imaging quality

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Case studies using graphically enhanced computer software to improve technology assessments and enhance clinical decisions

Clinical engineering in medical technology assessment

Microcomputer based system to assess defibrillators

Collaborative environments for telecardiology

Antioquia's telemedicine network: informatic and telecommunication technologies to service of health

The influence of display format on decision-making in a lung transplant home monitoring program-preliminary results

TeleMed-the telematic system supporting intensive insulin treatment of the newly diagnosed type 1 diabetic patients: first clinical application

Adjusting DICOM specifications when using wireless LANs: the MedLAN example

Monitoring of body weight for heart failure patients: variability of weight and self-reporting

Website for hospitals technological management system support

A coding algorithm for SMS data transmission in tele-home care system

Safe control of ultrasound probe on abdomen by pulling cables for robotic tele-echography system

Possibilities to use the practice of telemedicine in actual technological conditions to remote areas

Evaluation and selection of general purpose infusion pumps

The development of clinical engineering in Latin America and the Caribbean

Biomedical engineering equipment management system (BEEMS)

Studying mammalian neurons in vitro with multielectrode arrays

Long-term bidirectional neuron interfaces for robotic control, and in vitro learning studies

Microfabricated ceramic sensor arrays for direct interfacing to deep brain structures in primates

Nanostructured porous silicon scaffolds for improved biocompatibility of thin film microelectrodes

Ceramic-based microelectrode neuronal recordings in the rat and monkey

Clinical considerations for rapid electrochemical detection of glutamate during intra-operative and long-term monitoring

SEP: score for expression profile-a novel method for predicting clinical outcome in breast cancer

Dictionary model for the analysis of E. Coli promoter regions

Engineering a proteomics pipeline for the cellmap project

Smart wearable systems for personalised health management: current R&D and future challenges

Knitted bioclothes for cardiopulmonary monitoring

Wearable sensory-motor orthoses for tele-rehabilitation

Continuous monitoring of vital constants for mobile users: the MobiHealth approach

A wearable standards-based point-of-care system for home use

Wearable telemonitoring systems designed with interoperability in mind

Development of hands-free operation interface for wearable computer-Hyper Hospital at home

Smart clothes for the monitoring in real time and conditions of physiological, emotional and sensorial reactions of human

Cardiac potential mapping

Optical and electrical mapping of cardiac activity

Design of electrode systems for measuring cardiac micro-impedances using optical sensors

Computer heart models and the simulation of the electrocardiogram: newer strategies

Electrocardiographic tomographic imaging

Interactions of medical implants with the magnetic fields in MRI

Peripheral nerve stimulation by gradient switching fields in MRI

Inverse scattering algorithms for biological tissue diffraction tomography: a comparative study

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Dielectric spectroscopy of breast tissue - improved model of the precision open-ended coaxial probe

New approaches for the implementation of minimally invasive microelectrode arrays designed for brain-machine interfaces

Microelectrode coatings for neural stimulation and recording

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Multielectrode recording from motor cortex in behaving primates

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Nonlinear neural network dynamics in the mammalian respiratory oscillator

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Nonlinear neurodynamics model of heart rate variability, multifractality and chaos

Variability in motor control: supraspino-spinal interactions underlie fractal locomotor rhythms

Chaos in neural systems: from epilepsy to neurocomputing

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Static and dynamic properties of DNA languages

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Health informatics: a key driver for integrated drug delivery systems

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Engineering a proteomics pipeline for the cellmap project

Content Provider	IEEE Xplore Digital Library
Author	Kearney, R.E. Bencsath-Makkai, Z. Granja, C. Bell, A. Boismenu, D. Bergeron, J.
Copyright Year	2003
Abstract	Summary form only given. Proteomics, focuses on the identification, localization, and functional analysis of the protein make up of the cell. It evolved from genomics, where the focus is on the information of one target molecule DNA. Genomics involves the high throughput sequencing of DNA and the subsequent data storage and annotation; the process is complex but there is only one genome for each organism. In contrast, the proteins present in a cell, together with their function, sub-cellular location, and structure change dramatically with the organ, and the conditions faced by their host cells including: age, checkpoint in the cell cycle, and external or internal signaling events. Thus, there will be many proteomes for each organism and consequently, the quantity and complexity of proteomics data will be orders of magnitude greater genomic data. Acquiring, analyzing, and interpreting these vast data sets requires a robust proteomics pipeline that integrates a series of high-throughput technologies to lead the researcher from experimental design to biological insight. Engineering this proteomics pipeline requires the integrated application of information technology, biomedical engineering, and bioinformatics to implement individual analyses, link the different stages together, maximize throughput, optimize the information extracted from the data, and provide a comprehensive overview of the results. Moreover, since proteomics is inherently collaborative, the proteomics pipeline must provide for the flow of information to and from researchers working at different stages of one project or different projects. The Montreal Proteomics network is undertaking ambitious project which aims to characterize the proteome(s) of the organelles that make up the mammalian cell. This paper will define the functional requirements of the proteomics pipeline required to support this project and describe the hardware/software architecture and implementation strategy adopted. It will then discuss key elements of the current pipeline, document its performance, and describe ongoing research aimed at improving its accuracy and throughput. Finally, it will describe how new technologies can be expected to impact the proteomics pipelines.
Sponsorship	Whitaker Found
File Size	58649
File Format	PDF
ISBN	0780377893
ISSN	1094687X
DOI	10.1109/IEMBS.2003.1280966
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2003-09-17
Publisher Place	Mexico
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Proteomics Pipelines Bioinformatics Genomics Throughput DNA Organisms Biomedical engineering Functional analysis Protein engineering
Content Type	Text
Resource Type	Article

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