Reproducibility of registration-based measures of lung tissue expansion.
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ABSTRACT:
SUBMITTER: Du K
PROVIDER: S-EPMC3306443 | biostudies-other | 2012 Mar
REPOSITORIES: biostudies-other
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Project description:Regional lung volume change as a function of lung inflation serves as an index of parenchymal and airway status as well as an index of regional ventilation and can be used to detect pathologic changes over time. In this paper, the authors propose a new regional measure of lung mechanics-the specific air volume change by corrected Jacobian. The authors compare this new measure, along with two existing registration based measures of lung ventilation, to a regional ventilation measurement derived from xenon-CT (Xe-CT) imaging.4DCT and Xe-CT datasets from four adult sheep are used in this study. Nonlinear, 3D image registration is applied to register an image acquired near end inspiration to an image acquired near end expiration. Approximately 200 annotated anatomical points are used as landmarks to evaluate registration accuracy. Three different registration based measures of regional lung mechanics are derived and compared: the specific air volume change calculated from the Jacobian (SAJ); the specific air volume change calculated by the corrected Jacobian (SACJ); and the specific air volume change by intensity change (SAI). The authors show that the commonly used SAI measure can be derived from the direct SAJ measure by using the air-tissue mixture model and assuming there is no tissue volume change between the end inspiration and end expiration datasets. All three ventilation measures are evaluated by comparing to Xe-CT estimates of regional ventilation.After registration, the mean registration error is on the order of 1 mm. For cubical regions of interest (ROIs) in cubes with size 20 mm × 20 mm × 20 mm, the SAJ and SACJ measures show significantly higher correlation (linear regression, average r(2) = 0.75 and r(2) = 0.82) with the Xe-CT based measure of specific ventilation (sV) than the SAI measure. For ROIs in slabs along the ventral-dorsal vertical direction with size of 150 mm × 8 mm × 40 mm, the SAJ, SACJ, and SAI all show high correlation (linear regression, average r(2) = 0.88, r(2) = 0.92, and r(2) = 0.87) with the Xe-CT based sV without significant differences when comparing between the three methods. The authors demonstrate a linear relationship between the difference of specific air volume change and difference of tissue volume in all four animals (linear regression, average r(2) = 0.86).Given a deformation field by an image registration algorithm, significant differences between the SAJ, SACJ, and SAI measures were found at a regional level compared to the Xe-CT sV in four sheep that were studied. The SACJ introduced here, provides better correlations with Xe-CT based sV than the SAJ and SAI measures, thus providing an improved surrogate for regional ventilation.
| S-EPMC3416881 | biostudies-other
Project description:Four-dimensional computed tomography (4DCT) can be used to make measurements of pulmonary function longitudinally. The sensitivity of such measurements to identify change depends on measurement uncertainty. Previously, intrasubject reproducibility of Jacobian-based measures of lung tissue expansion was studied in two repeat prior-RT 4DCT human acquisitions. Difference in respiratory effort such as breathing amplitude and frequency may affect longitudinal function assessment. In this study, the authors present normalization schemes that correct ventilation images for variations in respiratory effort and assess the reproducibility improvement after effort correction.Repeat 4DCT image data acquired within a short time interval from 24 patients prior to radiation therapy (RT) were used for this analysis. Using a tissue volume preserving deformable image registration algorithm, Jacobian ventilation maps in two scanning sessions were computed and compared on the same coordinate for reproducibility analysis. In addition to computing the ventilation maps from end expiration to end inspiration, the authors investigated the effort normalization strategies using other intermediated inspiration phases upon the principles of equivalent tidal volume (ETV) and equivalent lung volume (ELV). Scatter plots and mean square error of the repeat ventilation maps and the Jacobian ratio map were generated for four conditions: no effort correction, global normalization, ETV, and ELV. In addition, gamma pass rate was calculated from a modified gamma index evaluation between two ventilation maps, using acceptance criterions of 2 mm distance-to-agreement and 5% ventilation difference.The pattern of regional pulmonary ventilation changes as lung volume changes. All effort correction strategies improved reproducibility when changes in respiratory effort were greater than 150 cc (p < 0.005 with regard to the gamma pass rate). Improvement of reproducibility was correlated with respiratory effort difference (R = 0.744 for ELV in the cohort with tidal volume difference greater than 100 cc). In general for all subjects, global normalization, ETV and ELV significantly improved reproducibility compared to no effort correction (p = 0.009, 0.002, 0.005 respectively). When tidal volume difference was small (less than 100 cc), none of the three effort correction strategies improved reproducibility significantly (p = 0.52, 0.46, 0.46 respectively). For the cohort (N = 13) with tidal volume difference greater than 100 cc, the average gamma pass rate improves from 57.3% before correction to 66.3% after global normalization, and 76.3% after ELV. ELV was found to be significantly better than global normalization (p = 0.04 for all subjects, and p = 0.003 for the cohort with tidal volume difference greater than 100 cc).All effort correction strategies improve the reproducibility of the authors' pulmonary ventilation measures, and the improvement of reproducibility is highly correlated with the changes in respiratory effort. ELV gives better results as effort difference increase, followed by ETV, then global. However, based on the spatial and temporal heterogeneity in the lung expansion rate, a single scaling factor (e.g., global normalization) appears to be less accurate to correct the ventilation map when changes in respiratory effort are large.
| S-EPMC3843762 | biostudies-other
Project description:Lung function depends on lung expansion and contraction during the respiratory cycle. Respiratory-gated CT imaging and image registration can be used to estimate the regional lung volume change by observing CT voxel density changes during inspiration or expiration. In this study, the authors examine the reproducibility of intensity-based estimates of lung tissue expansion and contraction in three mechanically ventilated sheep and ten spontaneously breathing humans. The intensity-based estimates are compared to the estimates of lung function derived from image registration deformation field.4DCT data set was acquired for a cohort of spontaneously breathing humans and anesthetized and mechanically ventilated sheep. For each subject, two 4DCT scans were performed with a short time interval between acquisitions. From each 4DCT data set, an image pair consisting of a volume reconstructed near end inspiration and a volume reconstructed near end exhalation was selected. The end inspiration and end exhalation images were registered using a tissue volume preserving deformable registration algorithm. The CT density change in the registered image pair was used to compute intensity-based specific air volume change (SAC) and the intensity-based Jacobian (IJAC), while the transformation-based Jacobian (TJAC) was computed directly from the image registration deformation field. IJAC is introduced to make the intensity-based and transformation-based methods comparable since SAC and Jacobian may not be associated with the same physiological phenomenon and have different units. Scan-to-scan variations in respiratory effort were corrected using a global scaling factor for normalization. A gamma index metric was introduced to quantify voxel-by-voxel reproducibility considering both differences in ventilation and distance between matching voxels. The authors also tested how different CT prefiltering levels affected intensity-based ventilation reproducibility.Higher reproducibility was found for anesthetized mechanically ventilated animals than for the humans for both the intensity-based (IJAC) and transformation-based (TJAC) ventilation estimates. The human IJAC maps had scan-to-scan correlation coefficients of 0.45 ± 0.14, a gamma pass rate 70 ± 8 without normalization and 75 ± 5 with normalization. The human TJAC maps had correlation coefficients 0.81 ± 0.10, a gamma pass rate 86 ± 11 without normalization and 93 ± 4 with normalization. The gamma pass rate and correlation coefficient of the IJAC maps gradually increased with increased smoothing, but were still much lower than those of the TJAC maps.The transformation-based ventilation maps show better reproducibility than the intensity-based maps, especially in human subjects. Reproducibility was also found to depend on variations in respiratory effort; all techniques were better when applied to images from mechanically ventilated sheep compared to spontaneously breathing human subjects. Nevertheless, intensity-based techniques applied to mechanically ventilated sheep were less reproducible than the transformation-based applied to spontaneously breathing humans, suggesting the method used to determine ventilation maps is important. Prefiltering of the CT images may help to improve the reproducibility of the intensity-based ventilation estimates, but even with filtering the reproducibility of the intensity-based ventilation estimates is not as good as that of transformation-based ventilation estimates.
| S-EPMC3676396 | biostudies-other
Project description:Population studies of brain function with resting-state functional magnetic resonance imaging (rs-fMRI) rely on accurate intersubject registration of functional areas. This is typically achieved through registration using high-resolution structural images with more spatial details and better tissue contrast. However, accumulating evidence has suggested that such strategy cannot align functional regions well because functional areas are not necessarily consistent with anatomical structures. To alleviate this problem, a number of registration algorithms based directly on rs-fMRI data have been developed, most of which utilize functional connectivity (FC) features for registration. However, most of these methods usually extract functional features only from the thin and highly curved cortical grey matter (GM), posing great challenges to accurate estimation of whole-brain deformation fields. In this article, we demonstrate that additional useful functional features can also be extracted from the whole brain, not restricted to the GM, particularly the white-matter (WM), for improving the overall functional registration. Specifically, we quantify local anisotropic correlation patterns of the blood oxygenation level-dependent (BOLD) signals using tissue-specific patch-based functional correlation tensors (ts-PFCTs) in both GM and WM. Functional registration is then performed by integrating the features from different tissues using the multi-channel large deformation diffeomorphic metric mapping (mLDDMM) algorithm. Experimental results show that our method achieves superior functional registration performance, compared with conventional registration methods.
| S-EPMC6176927 | biostudies-literature
Project description:BACKGROUND:In preparation for longitudinal analyses of white matter development in youths with family histories of substance use disorders (FH+) or without such histories (FH-), we examined the reproducibility and reliability of global and regional measures of fractional anisotropy (FA) values, measured using the Enhancing Neuro Imaging Genetics Through Meta Analysis (ENIGMA)-diffusion tensor imaging (DTI) protocol. Highly reliable measures are necessary to detect any subtle differences in brain development. METHODS:First, we analyzed reproducibility data in a sample of 12 healthy young adults (ages 20-28) imaged three times within a week. Next, we calculated the same metrics in data collected 1-year apart in the sample of 68 FH+ and 21 FH- adolescents. This is a timeframe where within subject changes in white matter microstructure are small compared to between subject variance. Reproducibility was estimated by examining mean coefficients of variation (MCV), mean absolute differences (MAD), and intraclass correlations (ICC) for global and tract-specific FA values. RESULTS:We found excellent reproducibility for whole-brain DTI-FA values and most of the white matter tracts, except for the corticospinal tract and the fornix in both adults and youths. There was no significant effect of FH-group on reproducibility (p = .4). Reproducibility metrics were not significantly different between adolescents and adults (all p > .2). In post hoc analyses, the reproducibility metrics for regional FA values showed a strong positive correlation (r = .6) with the regional FA heritability measures previously reported by ENIGMA-DTI. CONCLUSION:Overall, this study demonstrated an excellent reproducibility of ENIGMA-DTI FA, positing it as viable analysis tools for longitudinal studies and other protocols that repeatedly assess white matter microstructure.
| S-EPMC5318368 | biostudies-literature
Project description:BACKGROUND:The reproducibility of echocardiographic measurements of myocardial strain, performed in a community-based setting, has not been reported previously. METHODS:The reproducibility of left ventricular strain measurements was examined in two samples of 20 participants each from the Offspring Cohort of the Framingham Heart Study (mean age, 63 ± 9 years; 59% women). Two-dimensional speckle-tracking-based measurements of global peak left ventricular strain in systole were performed in the apical four-chamber, apical two-chamber, and midventricular parasternal short-axis views. RESULTS:Interobserver intraclass correlation coefficients were ?0.84 for all global strain measurements, with average coefficients of variation of ?4% for global longitudinal and circumferential strain and <8% for global transverse and radial strain. For left ventricular strain measurements performed in each of the three views, intraobserver intraclass correlation coefficients were ?0.91 among time points spanning a total 8-month period. The average coefficients of variation were <6% for global longitudinal and circumferential strain and <9% for global transverse and radial strain. Interobserver and intraobserver reproducibility findings were similar in analyses adjusting for frame rate. CONCLUSIONS:Excellent reproducibility of global longitudinal and circumferential strain measurements and very good reproducibility of global transverse and radial strain measurements were observed. Taken together, these findings demonstrate the reproducibility of performing echocardiographic strain measurements in a large, epidemiologic community-based setting.
| S-EPMC3812381 | biostudies-literature
Project description:To implement and evaluate a block matching-based registration (BMR) algorithm for locally advanced lung tumor localization during image-guided radiotherapy.Small (1 cm(3)), nonoverlapping image subvolumes ("blocks") were automatically identified on the planning image to cover the tumor surface using a measure of the local intensity gradient. Blocks were independently and automatically registered to the on-treatment image using a rigid transform. To improve speed and robustness, registrations were performed iteratively from coarse to fine image resolution. At each resolution, all block displacements having a near-maximum similarity score were stored. From this list, a single displacement vector for each block was iteratively selected which maximized the consistency of displacement vectors across immediately neighboring blocks. These selected displacements were regularized using a median filter before proceeding to registrations at finer image resolutions. After evaluating all image resolutions, the global rigid transform of the on-treatment image was computed using a Procrustes analysis, providing the couch shift for patient setup correction. This algorithm was evaluated for 18 locally advanced lung cancer patients, each with 4-7 weekly on-treatment computed tomography scans having physician-delineated gross tumor volumes. Volume overlap (VO) and border displacement errors (BDE) were calculated relative to the nominal physician-identified targets to establish residual error after registration.Implementation of multiresolution registration improved block matching accuracy by 39% compared to registration using only the full resolution images. By also considering multiple potential displacements per block, initial errors were reduced by 65%. Using the final implementation of the BMR algorithm, VO was significantly improved from 77% ± 21% (range: 0%-100%) in the initial bony alignment to 91% ± 8% (range: 56%-100%;p < 0.001). Left-right, anterior-posterior, and superior-inferior systematic BDE were 3.2, 2.4, and 4.4 mm, respectively, with random BDE of 2.4, 2.1, and 2.7 mm. Margins required to include both localization and delineation uncertainties ranged from 5.0 to 11.7 mm, an average of 40% less than required for bony alignment.BMR is a promising approach for automatic lung tumor localization. Further evaluation is warranted to assess the accuracy and robustness of BMR against other potential localization strategies.
| S-EPMC3978354 | biostudies-other
Project description:The use of second-harmonic generation (SHG) microscopy in biomedical research is rapidly increasing. This is due in large part to the wide spread interest of using this imaging technique to examine the role of fibrillar collagen organization in diseases such as cancer. The co-examination of SHG images and traditional bright-field (BF) images of hematoxylin and eosin (H&E) stained tissue as a gold standard clinical validation is usually required. However, image registration of these two modalities has been mostly done by manually selecting corresponding landmarks which is labor intensive and error prone. We designed, implemented, and validated the first image intensity-based registration method capable of automatically aligning SHG images and BF images. In our algorithmic approach, a feature extractor is used to pre-process the BF image to block the content features not visible in SHG images and the output image is then aligned with the SHG image by maximizing the common image features. An alignment matrix maximizing the image mutual information is found by evolutionary optimization and the optimization is facilitated using a hierarchical multiresolution framework. The automatic registration results were compared to traditional manual registration to assess the performance of the algorithm. The proposed algorithm has been successfully used in several biomedical studies such as pancreatic and kidney cancer studies and shown great efficacy.
| S-EPMC6968755 | biostudies-literature
Project description:PurposeThe present study estimated the long-term reproducibility of accelerometer-based measures over 6 months in adults and the implications for statistical power, and attenuation in regression coefficients for future activity-disease studies.MethodsWe used data from 914 adults in the Interactive Diet and Activity Tracking in AARP study. Participants wore an activPAL 3 (AP) and an ActiGraph GT3X (AG) twice, 6 months apart. AP measures included time spent sitting or lying, standing, and stepping, whereas AG measures included time spent in sedentary, light, and moderate-to-vigorous physical activity (PA). Reproducibility of each metric and implications for epidemiological studies were determined based on intraclass correlation coefficients (ICC; 95% confidence interval).ResultsThe ICC values for AP estimates were 0.58 (95% confidence interval, 0.53-0.63) for sitting, 0.62 (0.57-0.67) for standing, and 0.57 (0.51-0.62) for stepping. The ICC values for AG were 0.56 (0.50-0.61) for sedentary, 0.54 (0.49-0.60) for light PA, and 0.58 (0.52-0.63) for moderate-to-vigorous PA. Modeling showed that increasing the number of replicate administrations to two or three resulted in the most noticeable increases in ICC values, statistical power, and reductions in attenuation coefficients. For example, administering the AP twice reduced within-subject variability by half and resulted in an increase in the ICC associated with sitting time from 0.58 to 0.74. Similar comparisons for AG and measure of sedentary time resulted in an increase in ICC values from 0.56 to 0.72. Increasing the number of replicate administrations from one to two reduced the attenuation in activity-outcome associations from 40% to 25%.ConclusionAccelerometer-based classifications of activity are moderately stable over time, but there is considerable within-subject variability that needs to be considered when estimating usual activity in future studies.
| S-EPMC7078017 | biostudies-literature
Project description:BackgroundCanada has low rates of deceased organ and tissue donation. Immigrants to Canada may differ in their registered support for deceased organ donation based on their country of origin.MethodsWe used linked administrative databases in Ontario (about 11 million residents aged ? 16 yr) to study the proportion of immigrants and long-term residents registered for deceased organ and tissue donation as of October 2013. We used modified Poisson regression to identify and quantify predictors of donor registration.ResultsCompared with long-term residents (n = 9?244?570), immigrants (n = 1?947?646) were much less likely to register for deceased organ and tissue donation (11.9% v. 26.5%). Immigrants from the United States, Australia and New Zealand had the highest registration rate (40.0%), whereas immigrants with the lowest registration rates were from Eastern Europe and Central Asia (9.4%), East Asia and Pacific (8.4%) and sub-Saharan Africa (7.9%). The largest numbers of unregistered immigrants were from India (n = 202?548), China (n = 186?678) and the Philippines (n = 125?686). Characteristics among the immigrant population associated with a higher likelihood of registration included economic immigrant status, living in a rural area (population < 10 000), living in an area with a lower ethnic concentration, less material deprivation, a higher education, ability to speak English and French, and more years residing in Canada.InterpretationImmigrants in Ontario were less likely to register for deceased organ and tissue donation than long-term residents. There is a need to better understand reasons for lower registration rates among Canadian immigrants and to create culture-sensitive materials to build support for deceased organ and tissue donation.
| S-EPMC5396453 | biostudies-literature