Resolving fluorophores by unmixing multispectral fluorescence tomography with independent component analysis.

Abstract:

:It is a challenging problem to resolve and identify drug (or non-specific fluorophore) distribution throughout the whole body of small animals in vivo. In this article, an algorithm of unmixing multispectral fluorescence tomography (MFT) images based on independent component analysis (ICA) is proposed to solve this problem. ICA is used to unmix the data matrix assembled by the reconstruction results from MFT. Then the independent components (ICs) that represent spatial structures and the corresponding spectrum courses (SCs) which are associated with spectral variations can be obtained. By combining the ICs with SCs, the recovered MFT images can be generated and fluorophore concentration can be calculated. Simulation studies, phantom experiments and animal experiments with different concentration contrasts and spectrum combinations are performed to test the performance of the proposed algorithm. Results demonstrate that the proposed algorithm can not only provide the spatial information of fluorophores, but also recover the actual reconstruction of MFT images.

journal_name

Phys Med Biol

authors

Pu H,Zhang G,He W,Liu F,Guang H,Zhang Y,Bai J,Luo J

doi

10.1088/0031-9155/59/17/5025

subject

Has Abstract

pub_date

2014-09-07 00:00:00

pages

5025-42

issue

17

eissn

0031-9155

issn

1361-6560

journal_volume

59

pub_type

杂志文章
  • Variation of the dielectric properties of tissues with age: the effect on the values of SAR in children when exposed to walkie-talkie devices.

    abstract::In vitro dielectric properties of ageing porcine tissues were measured in the frequency range of 50 MHz-20 GHz, and the total combined uncertainties of the measurements were assessed. The results show statistically significant reduction with age in both permittivity and conductivity of 10 out of 15 measured tissues. A...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/54/2/004

    authors: Peyman A,Gabriel C,Grant EH,Vermeeren G,Martens L

    更新日期:2009-01-21 00:00:00

  • Monte Carlo calculation of beam quality correction factors for PTW cylindrical ionization chambers in photon beams.

    abstract::The beam quality correction factor k Q for megavoltage photon beams has been calculated for eight PTW (Freiburg, Germany) ionization chambers (Farmer chambers PTW30010, PTW30011, PTW30012, and PTW30013, Semiflex 3D chambers PTW31021, PTW31010, and PTW31013, and the PinPoint 3D chamber PTW31016). Simulations performed ...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/1361-6560/ab9501

    authors: Giménez-Alventosa V,Giménez V,Ballester F,Vijande J,Andreo P

    更新日期:2020-10-07 00:00:00

  • Optimization and performance study of a proton CT system for pre-clinical small animal imaging.

    abstract::Proton computed tomography (pCT) promises to reduce or even eliminate range uncertainties inherent in the conversion of Hounsfield units into relative stopping power (RSP) for proton therapy treatment planning. This is of particular interest for proton irradiation studies in animal models due to the high precision req...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/1361-6560/ab8afc

    authors: Meyer S,Bortfeldt J,Lämmer P,Englbrecht FS,Pinto M,Schnürle K,Würl M,Parodi K

    更新日期:2020-08-13 00:00:00

  • Influence of vascular normalization on interstitial flow and delivery of liposomes in tumors.

    abstract::Elevated interstitial fluid pressure is one of the barriers of drug delivery in solid tumors. Recent studies have shown that normalization of tumor vasculature by anti-angiogenic factors may improve the delivery of conventional cytotoxic drugs, possibly by increasing blood flow, decreasing interstitial fluid pressure,...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/60/4/1477

    authors: Ozturk D,Yonucu S,Yilmaz D,Unlu MB

    更新日期:2015-02-21 00:00:00

  • Monte Carlo simulations to support start-up and treatment planning of scanned proton and carbon ion therapy at a synchrotron-based facility.

    abstract::Reliable treatment planning of highly conformal scanned ion beam therapy demands accurate tools for the determination and characterization of the individual pencil-like beams building up the integral dose delivery and related mixed radiation field. At present, clinically practicable inverse treatment planning systems ...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/57/12/3759

    authors: Parodi K,Mairani A,Brons S,Hasch BG,Sommerer F,Naumann J,Jäkel O,Haberer T,Debus J

    更新日期:2012-06-21 00:00:00

  • Monte Carlo calculations of the energy response of lithium dosemeters to high energy electrons (less than 30 MeV).

    abstract::Monte Carlo calculations of the energy response of LiF dosemeters have been carried out to help resolve the discrepancy between the measurements of Holt, Edelstein and Clark (1975) and those of Paliwal and Almond (1975) and others. It is concluded that the assumptions used by Holt et al. are largely responsible. They ...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/22/5/003

    authors: O'Brien K

    更新日期:1977-09-01 00:00:00

  • Comparison of a finite-element multigroup discrete-ordinates code with Monte Carlo for radiotherapy calculations.

    abstract::Radiotherapy calculations often involve complex geometries such as interfaces between materials of vastly differing atomic number, such as lung, bone and/or air interfaces. Monte Carlo methods have been used to calculate accurately the perturbation effects of the interfaces. However, these methods can be computational...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/51/9/010

    authors: Gifford KA,Horton JL,Wareing TA,Failla G,Mourtada F

    更新日期:2006-05-07 00:00:00

  • 4D digital tomosynthesis image reconstruction using brute force-based adaptive total variation (BF-ATV) in a prototype LINAC system.

    abstract::Respiratory-correlated cone-beam CT (CBCT) not only inhibits rapid scanning due to the slow speed of the LINAC head gantry rotation, but its implementation for routine patient imaging is impractical because of the high radiation dose delivered during the process. Digital tomosynthesis (DTS) is a potentially faster tec...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/1361-6560/ab0d50

    authors: Choi S,Lee S,Kang YN,Hsieh SS,Kim HJ

    更新日期:2019-05-02 00:00:00

  • Development of the complex permittivity measurement system for high-loss biological samples using the free space method in quasi-millimeter and millimeter wave bands.

    abstract::The free space method using a pair of lens antennas was modified for the complex permittivity measurement of biological samples from 20 to 110 GHz. Two methodologies were used to obtain the complex permittivities by the free space method, which were based on the reflection and transmission coefficients. The measuremen...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/58/5/1625

    authors: Sasaki K,Segawa H,Mizuno M,Wake K,Watanabe S,Hashimoto O

    更新日期:2013-03-07 00:00:00

  • An automatic method for determining the centre of rotation of a mechanically scanned reflection UCT system.

    abstract::A method will be described for determining the centre of rotation of a mechanically scanned reflection ultrasound computed tomography system. It is based on the principle of obtaining opposing images of a test object containing many point targets. The method is automatic in the sense that the centre of rotation is cal...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/39/12/017

    authors: Jago JR

    更新日期:1994-12-01 00:00:00

  • Measuring optical temperature coefficients of Intralipid.

    abstract::The temperature sensitivities of absorption and reduced scattering coefficients in the range 700-1000 nm are determined for the liquid phantom Intralipid using spatially resolved continuous wave measurements. The measurements were conducted on a 10 L heated volume of 1% Intralipid subjected to a 40-30 degrees C coolin...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/52/9/003

    authors: McGlone VA,Martinsen P,Künnemeyer R,Jordan B,Cletus B

    更新日期:2007-05-07 00:00:00

  • Computed LET distributions in the build-up region of tissue for 14 MeV neutrons.

    abstract::Experimental radiobiological investigations of fast neutron beams involve irradiation of thin cell layers. The irradiation of cells is done either in free air or with a material such as graphite, TE plastic or bone-equivalent plastic covering the cells. This paper discusses the computed dose distributions in LET at sh...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/24/5/007

    authors: Bhatia DP,Nagarajan PS

    更新日期:1979-09-01 00:00:00

  • Simulations of a micro-PET system based on liquid xenon.

    abstract::The imaging performance of a high-resolution preclinical micro-positron emission tomography (micro-PET) system employing liquid xenon (LXe) as the gamma-ray detection medium was simulated. The arrangement comprises a ring of detectors consisting of trapezoidal LXe time projection ionization chambers and two arrays of ...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/57/6/1685

    authors: Miceli A,Glister J,Andreyev A,Bryman D,Kurchaninov L,Lu P,Muennich A,Retiere F,Sossi V

    更新日期:2012-03-21 00:00:00

  • High temporal resolution and streak-free four-dimensional cone-beam computed tomography.

    abstract::Cone-beam computed tomography (CBCT) has been clinically used to verify patient position and to localize the target of treatment in image-guided radiation therapy (IGRT). However, when the chest and the upper abdomen are scanned, respiratory-induced motion blurring limits the utility of CBCT. In order to mitigate this...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/53/20/006

    authors: Leng S,Tang J,Zambelli J,Nett B,Tolakanahalli R,Chen GH

    更新日期:2008-10-21 00:00:00

  • Plane wave versus focused transmissions for contrast enhanced ultrasound imaging: the role of parameter settings and the effects of flow rate on contrast measurements.

    abstract::Contrast enhanced ultrasound (CEUS) and dynamic contrast enhanced ultrasound (DCE-US) can be used to provide information about the vasculature aiding diagnosis and monitoring of a number of pathologies including cancer. In the development of a CEUS imaging system, there are many choices to be made, such as whether to ...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/1361-6560/ab13f2

    authors: Moghimirad E,Bamber J,Harris E

    更新日期:2019-04-23 00:00:00

  • Dictionary learning for data recovery in positron emission tomography.

    abstract::Compressed sensing (CS) aims to recover images from fewer measurements than that governed by the Nyquist sampling theorem. Most CS methods use analytical predefined sparsifying domains such as total variation, wavelets, curvelets, and finite transforms to perform this task. In this study, we evaluated the use of dicti...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/60/15/5853

    authors: Valiollahzadeh S,Clark JW,Mawlawi O

    更新日期:2015-08-07 00:00:00

  • Quantification and normalization of x-ray mammograms.

    abstract::The analysis of (x-ray) mammograms remains qualitative, relying on the judgement of clinicians. We present a novel method to compute a quantitative, normalized measure of tissue radiodensity traversed by the primary beam incident on each pixel of a mammogram, a measure we term the standard attenuation rate (SAR). SAR ...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/57/20/6519

    authors: Tromans CE,Cocker MR,Brady SM

    更新日期:2012-10-21 00:00:00

  • Spectrum reconstruction from dose measurements as a linear inverse problem.

    abstract::There are three ways to determine the spectrum of a clinical photon beam: direct measurement, modelling the source and reconstruction from ion-chamber measurements. We focus on reconstruction because the necessary equipment is readily available and it provides independent confirmation of source models for a given mach...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/49/22/005

    authors: Armbruster B,Hamilton RJ,Kuehl AK

    更新日期:2004-11-21 00:00:00

  • Calculation of 10 MV x-ray spectra emitted by a medical linear accelerator using the BFGS quasi-Newton method.

    abstract::To calculate photon spectra for a 10 MV x-ray beam emitted by a medical linear accelerator, we performed numerical analysis using the aluminium transmission data obtained along the central axis of the beam under the narrow beam condition corresponding to a 3x3 cm2 field at a 100 cm distance from the source. We used th...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/52/2/014

    authors: Shimozato T,Tabushi K,Kitoh S,Shiota Y,Hirayama C,Suzuki S

    更新日期:2007-01-21 00:00:00

  • Potential applications of the quantitative susceptibility mapping (QSM) in MR-guided radiation therapy.

    abstract::Magnetic resonance-guided radiation therapy (MR-GRT) offers great potential to improve radiation treatment outcomes by providing more accurate and patient-tailored therapy. Despite superior soft tissue contrast in MRI, one of the challenges towards MRI-only workflows is that the process often requires some sort of 'MR...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/1361-6560/ab2623

    authors: Nosrati R,Paudel M,Ravi A,Pejovic-Milic A,Morton G,Stanisz GJ

    更新日期:2019-07-16 00:00:00

  • Single patient convolutional neural networks for real-time MR reconstruction: a proof of concept application in lung tumor segmentation for adaptive radiotherapy.

    abstract::Investigate 3D (spatial and temporal) convolutional neural networks (CNNs) for real-time on-the-fly magnetic resonance imaging (MRI) reconstruction. In particular, we investigated the applicability of training CNNs on a patient-by-patient basis for the purpose of lung tumor segmentation. Data were acquired with our 3 ...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/1361-6560/ab408e

    authors: Dietz B,Yun J,Yip E,Gabos Z,Fallone BG,Wachowicz K

    更新日期:2019-09-23 00:00:00

  • A new extended-length parallel-plate ionization chamber.

    abstract::A special parallel-plate ionization chamber was developed. The motivation for the construction of this new chamber was mainly to fulfil the need of a reference system for computed tomography standard beams in the Calibration Laboratory of IPEN. However, the chamber was tested also in standard radiation beams of mammog...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/50/16/012

    authors: Maia AF,Caldas LV

    更新日期:2005-08-21 00:00:00

  • [A simulation method for studying scintillation camera collimators].

    abstract::This paper presents a computer simulation of photon interaction with collimator septa, which allows the point spread function of scintillation camera collimators to be calculated. The method simulates photon attenuation along their propagation direction in a determinist way. Using this simulation, the spatial resoluti...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/35/5/006

    authors: Gantet P,Esquerré JP,Danet B,Guiraud R

    更新日期:1990-05-01 00:00:00

  • Experimental determination of the energy response of alanine pellets in the high dose rate 192Ir spectrum.

    abstract::An experimental determination of the energy correction factor for alanine/paraffin pellets in the 192Ir spectrum at varying distances from the source is presented. Alanine dosimeters were irradiated in water under full scatter conditions with a high dose rate (HDR) 192Ir source (Flexisource), using a dedicated holder....

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/56/20/007

    authors: Schaeken B,Cuypers R,Goossens J,Van den Weyngaert D,Verellen D

    更新日期:2011-10-21 00:00:00

  • A theoretical approach for non-equilibrium radiation dosimetry.

    abstract::This study presents a theoretical approach to the dosimetry for small and non-equilibrium radiation fields. We applied the newly developed VMCBC algorithm to the dosimetry for megavoltage photon beams using Monte Carlo techniques. The approach assumes that a Monte Carlo simulated beam can be calibrated per incident pa...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/53/13/006

    authors: Ding GX,Duggan DM,Coffey CW

    更新日期:2008-07-07 00:00:00

  • Optimizing wavelength choice for quantitative optoacoustic imaging using the Cramer-Rao lower bound.

    abstract::Several papers have recently addressed the issue of estimating chromophore concentration in optoacoustic imaging (OAI) using multiple wavelengths. The choice of wavelengths obviously affects the accuracy and precision of the estimates. One might assume that the wavelengths that maximize the extinction coefficients of ...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/55/23/004

    authors: Modgil D,La Riviére PJ

    更新日期:2010-12-07 00:00:00

  • Automatic generation of time resolved motion vector fields of coronary arteries and 4D surface extraction using rotational x-ray angiography.

    abstract::Rotational coronary angiography provides a multitude of x-ray projections of the contrast agent enhanced coronary arteries along a given trajectory with parallel ECG recording. These data can be used to derive motion information of the coronary arteries including vessel displacement and pulsation. In this paper, a ful...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/54/1/004

    authors: Jandt U,Schäfer D,Grass M,Rasche V

    更新日期:2009-01-07 00:00:00

  • Measurement and simulation of unmyelinated nerve electrostimulation: Lumbricus terrestris experiment and numerical model.

    abstract::The electrostimulation excitation threshold of a nerve depends on temporal and frequency parameters of the stimulus. These dependences were investigated in terms of: (1) strength-duration (SD) curve for a single monophasic rectangular pulse, and (2) frequency dependence of the excitation threshold for a continuous sin...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/61/12/4364

    authors: Šarolić A,Živković Z,Reilly JP

    更新日期:2016-06-21 00:00:00

  • Contactless remote induction of shear waves in soft tissues using a transcranial magnetic stimulation device.

    abstract::This study presents the first observation of shear waves induced remotely within soft tissues. It was performed through the combination of a transcranial magnetic stimulation device and a permanent magnet. A physical model based on Maxwell and Navier equations was developed. Experiments were performed on a cryogel pha...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/61/6/2582

    authors: Grasland-Mongrain P,Miller-Jolicoeur E,Tang A,Catheline S,Cloutier G

    更新日期:2016-03-21 00:00:00

  • A rapid colour stabilization technique for radiochromic film dosimetry.

    abstract::Various forms of GAFChromic film have been used for several years as radiographic media for measuring dose distributions of brachytherapy sources and small radiation fields. Upon irradiation the film changes colour and darkens with time post-irradiation. The darkening is most rapid in the first 24 h, and it has been s...

    journal_title:Physics in medicine and biology

    pub_type: 杂志文章

    doi:10.1088/0031-9155/43/10/001

    authors: Reinstein LE,Gluckman GR,Meek AG

    更新日期:1998-10-01 00:00:00