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Yu, Lifeng

0000-0002-4267-1326

Mayo Clinic

Mayo Clinic

Citations 97

A deep learning‐ and partial least square regression‐based model observer for a low‐contrast lesion detection task in CT
Gong, Hao , Yu, Lifeng , Dilger, Samantha K. N. , Ren, Liqiang , Zhou, Wei , Dilger, Samantha K, Zhou, Wei , Yu, Lifeng , Leng, Shuai , Fletcher, Joel G. , McCollough, Cynthia H.

Medical Physics | March 20, 2019 | Volume: 46 | Issue: 5 | Pages: 2052-2063

10.1002/mp.13500 Get It

PurposeThis work aims to develop a new framework of image quality assessment using deep learning‐based model observer (DL‐MO) and to validate it in a low‐contrast lesion detection task that involves CT images with patient anatomical background.MethodsThe DL‐MO was developed using the transfer learning strategy to incorporate a pretrained deep convolutional neural network (CNN), a partial least square regression discriminant analysis (PLS‐DA) model and an internal noise component. The CNN was previously trained to achieve the state‐of‐the‐art classification accuracy over a natural image database. The earlier layers of the CNN were used as a deep feature extractor, with the assumption that similarity exists between the CNN and the human visual system. The PLSR model was used to further engineer the deep feature for the lesion detection task in CT images. The internal noise component was incorporated to model the inefficiency and variability of human observer (HO) performance, and to generate the ultimate DL‐MO test statistics. Seven abdominal CT exams were retrospectively collected from the same type of CT scanners. To compare DL‐MO with HO, 12 experimental conditions with varying lesion size, lesion contrast, radiation dose, and reconstruction types were generated, each condition with 154 trials. CT images of a real liver metastatic lesion were numerically modified to generate lesion models with four lesion sizes (5, 7, 9, and 11 mm) and three contrast levels (15, 20, and 25 HU). The lesions were inserted into patient liver images using a projection‐based method. A validated noise insertion tool was used to synthesize CT exams with 50% and 25% of routine radiation dose level. CT images were reconstructed using the weighted filtered back projection algorithm and an iterative reconstruction algorithm. Four medical physicists performed a two‐alternative forced choice (2AFC) detection task (with multislice scrolling viewing mode) on patient images across the 12 experimental conditions. DL‐MO was operated on the same datasets. Statistical analyses were performed to evaluate the correlation and agreement between DL‐MO and HO.ResultsA statistically significant positive correlation was observed between DL‐MO and HO for the 2AFC low‐contrast detection task that involves patient liver background. The corresponding Pearson product moment correlation coefficient was 0.986 [95% confidence interval (0.950, 0.996)]. Bland–Altman agreement analysis did not indicate statistically significant differences.ConclusionsThe proposed DL‐MO is highly correlated with HO in a low‐contrast detection task that involves realistic patient liver background. This study demonstrated the potential of the proposed DL‐MO to assess image quality directly based on patient images in realistic, clinically relevant CT tasks.
Clinical Assessment of Metal Artifact Reduction Methods in Dual-Energy CT Examinations of Instrumented Spines
Long, Zaiyang , Nagelschneider, Alex A. , Michalak, Gregory J. , Yu, Lifeng , DeLone, David R. , Kotsenas, Amy L. , Lehman, Vance T. , Fletcher, Joel G. , McCollough, Cynthia H. , Yu, Lifeng

American Journal of Roentgenology | December 12, 2018 | Volume: 212 | Issue: 2 | Pages: 395-401

10.2214/ajr.18.19757 Get It

Lead Shielding in Pediatric Chest CT: Effect of Apron Placement Outside the Scan Volume on Radiation Dose Reduction
Yu, Lifeng , Bruesewitz, Michael R. , Vrieze, Thomas J., Yu, Lifeng , McCollough, Cynthia H.

American Journal of Roentgenology | November 13, 2018 | Volume: 212 | Issue: 1 | Pages: 151-156

10.2214/ajr.17.19405 Get It

Observer Performance with Varying Radiation Dose and Reconstruction Methods for Detection of Hepatic Metastases
Fletcher, Joel G. , Fidler, Jeff L. , Venkatesh, Sudhakar K. , Hough, David M., Takahashi, Naoki , Yu, Lifeng , Johnson, Matthew P. , Leng, Shuai , Holmes, David R. , Carter, Rickey E. , Johnson, Matthew, Carter, Rickey, McCollough, Cynthia H , Fletcher, Joel G , Leng, Shuai , Carter, Rickey E , Venkatesh, Sudhakar K , Takahashi, Naoki , Fidler, Jeff L. , Yu, Lifeng , McCollough, Cynthia H.

Radiology | September 11, 2018 | Volume: 289 | Issue: 2 | Pages: 455-464

10.1148/radiol.2018180125 Get It

Evaluation of projection‐ and dual‐energy‐based methods for metal artifact reduction in CT using a phantom study
Long, Zaiyang , Bruesewitz, Michael R. , Amrami, Kimberly K. , Adkins, Mark C., Glazebrook, Katrina N. , Kofler, James M., Halaweish, Ahmed F., Yu, Lifeng , DeLone, David R. , Morris, Jonathan M. , Leng, Shuai , McCollough, Cynthia H. , Fletcher, Joel G. , Yu, Lifeng

Journal of Applied Clinical Medical Physics | May 11, 2018 | Volume: 19 | Issue: 4 | Pages: 252-260

10.1002/acm2.12347 Get It

AbstractObjectivesBoth projection and dual‐energy (DE)‐based methods have been used for metal artifact reduction (MAR) in CT. The two methods can also be combined. The purpose of this work was to evaluate these three MAR methods using phantom experiments for five types of metal implants.Materials and MethodsFive phantoms representing spine, dental, hip, shoulder, and knee were constructed with metal implants. These phantoms were scanned using both single‐energy (SE) and DE protocols with matched radiation output. The SE data were processed using a projection‐based MAR (iMAR, Siemens) algorithm, while the DE data were processed to generate virtual monochromatic images at high keV (Mono+, Siemens). In addition, the DE images after iMAR were used to generate Mono+ images (DE iMAR Mono+). Artifacts were quantitatively evaluated using CT numbers at different regions of interest. Iodine contrast‐to‐noise ratio (CNR) was evaluated in the spine phantom. Three musculoskeletal radiologists and two neuro‐radiologists independently ranked the artifact reduction.ResultsThe DE Mono+ at high keV resulted in reduced artifacts but also lower iodine CNR. The iMAR method alone caused missing tissue artifacts in dental phantom. DE iMAR Mono+ caused wrong CT numbers in close proximity to the metal prostheses in knee and hip phantoms. All musculoskeletal radiologists ranked SE iMAR > DE iMAR Mono+ > DE Mono+ for knee and hip, while DE iMAR Mono+ > SE iMAR > DE Mono+ for shoulder. Both neuro‐radiologists ranked DE iMAR Mono+ > DE Mono+ > SE iMAR for spine and DE Mono+ > DE iMAR Mono+ > SE iMAR for dental.ConclusionsThe SE iMAR was the best choice for the hip and knee prostheses, while DE Mono+ at high keV was best for dental implants and DE iMAR Mono+ was best for spine and shoulder prostheses. Artifacts were also introduced by MAR algorithms.
Inter‐laboratory comparison of channelized hotelling observer computation
Ba, Alexandre, Abbey, Craig K. , Baek, Jongduk , Han, Minah , Balta, Christiana, Brankov, Jovan G. , Massanés, Francesc, Gifford, Howard C. , Veldkamp, Wouter J. H. , Petrov, Dimitar, Marshall, Nicholas , Samuelson, F. W. , Zeng, Rongping , Solomon, Justin B., Samei, Ehsan , Timberg, Pontus, Förnvik, Hannie, Reiser, Ingrid , Yu, Lifeng , Gong, Hao , Bochud, François , Bouwman, Ramona W. , Giron, Irene Hernandez , Solomon, Justin , Yu, Lifeng , Reiser, Ingrid

Medical Physics | April 28, 2018 | Volume: 45 | Issue: 7 | Pages: 3019-3030

10.1002/mp.12940 Get It

PurposeThe task‐based assessment of image quality using model observers is increasingly used for the assessment of different imaging modalities. However, the performance computation of model observers needs standardization as well as a well‐established trust in its implementation methodology and uncertainty estimation. The purpose of this work was to determine the degree of equivalence of the channelized Hotelling observer performance and uncertainty estimation using an intercomparison exercise.Materials and MethodsImage samples to estimate model observer performance for detection tasks were generated from two‐dimensional CT image slices of a uniform water phantom. A common set of images was sent to participating laboratories to perform and document the following tasks: (a) estimate the detectability index of a well‐defined CHO and its uncertainty in three conditions involving different sized targets all at the same dose, and (b) apply this CHO to an image set where ground truth was unknown to participants (lower image dose). In addition, and on an optional basis, we asked the participating laboratories to (c) estimate the performance of real human observers from a psychophysical experiment of their choice. Each of the 13 participating laboratories was confidentially assigned a participant number and image sets could be downloaded through a secure server. Results were distributed with each participant recognizable by its number and then each laboratory was able to modify their results with justification as model observer calculation are not yet a routine and potentially error prone.ResultsDetectability index increased with signal size for all participants and was very consistent for 6 mm sized target while showing higher variability for 8 and 10 mm sized target. There was one order of magnitude between the lowest and the largest uncertainty estimation.ConclusionsThis intercomparison helped define the state of the art of model observer performance computation and with thirteen participants, reflects openness and trust within the medical imaging community. The performance of a CHO with explicitly defined channels and a relatively large number of test images was consistently estimated by all participants. In contrast, the paper demonstrates that there is no agreement on estimating the variance of detectability in the training and testing setting.
Low‐dose CT for the detection and classification of metastatic liver lesions: Results of the 2016 Low Dose CT Grand Challenge
Bartley, Adam C. , Carter, Rickey E. , Chen, Baiyu , Drees, Tammy A., Edwards, Phillip K , Holmes, David R. , Huang, Alice E. , Khan, Farhana, McMillan, Kyle, Michalak, Gregory J. , Nunez, Kristina M., Yu, Lifeng , Edwards, Phillip, McMillan, Kyle L, Carter, Rickey E , McCollough, Cynthia H. , Leng, Shuai , Yu, Lifeng , Fletcher, Joel G.

Medical Physics | October 13, 2017 | Volume: 44 | Issue: 10 | Pages: No page available

10.1002/mp.12345 Get It

Purpose Using common datasets, to estimate and compare the diagnostic performance of image‐based denoising techniques or iterative reconstruction algorithms for the task of detecting hepatic metastases. Methods Datasets from contrast‐enhanced CT scans of the liver were provided to participants in an NIH ‐, AAPM ‐ and Mayo Clinic‐sponsored Low Dose CT Grand Challenge. Training data included full‐dose and quarter‐dose scans of the ACR CT accreditation phantom and 10 patient examinations; both images and projections were provided in the training data. Projection data were supplied in a vendor‐neutral standardized format ( DICOM ‐ CT ‐ PD ). Twenty quarter‐dose patient datasets were provided to each participant for testing the performance of their technique. Images were provided to sites intending to perform denoising in the image domain. Fully preprocessed projection data and statistical noise maps were provided to sites intending to perform iterative reconstruction. Upon return of the denoised or iteratively reconstructed quarter‐dose images, randomized, blinded evaluation of the cases was performed using a Latin Square study design by 11 senior radiology residents or fellows, who marked the locations of identified hepatic metastases. Markings were scored against reference locations of clinically or pathologically demonstrated metastases to determine a per‐lesion normalized score and a per‐case normalized score (a faculty abdominal radiologist established the reference location using clinical and pathological information). Scores increased for correct detections; scores decreased for missed or incorrect detections. The winner for the competition was the entry that produced the highest total score (mean of the per‐lesion and per‐case normalized score). Reader confidence was used to compute a Jackknife alternative free‐response receiver operating characteristic ( JAFROC ) figure of merit, which was used for breaking ties. Results 103 participants from 90 sites and 26 countries registered to participate. Training data were shared with 77 sites that completed the data sharing agreements. Subsequently, 41 sites downloaded the 20 test cases, which included only the 25% dose data ( CTDI vol = 3.0 ± 1.8 mG y, SSDE = 3.5 ± 1.3 mG y). 22 sites submitted results for evaluation. One site provided binary images and one site provided images with severe artifacts; cases from these sites were excluded from review and the participants removed from the challenge. The mean (range) per‐lesion and per‐case normalized scores were −24.2% (−75.8%, 3%) and 47% (10%, 70%), respectively. Compared to reader results for commercially reconstructed quarter‐dose images with no noise reduction, 11 of the 20 sites showed a numeric improvement in the mean JAFROC figure of merit. Notably two sites performed comparably to the reader results for full‐dose commercial images. The study was not designed for these comparisons, so wide confidence intervals surrounded these figures of merit and the results should be used only to motivate future testing. Conclusion Infrastructure and methodology were developed to rapidly estimate observer performance for liver metastasis detection in low‐dose CT examinations of the liver after either image‐based denoising or iterative reconstruction. The results demonstrated large differences in detection and classification performance between noise reduction methods, although the majority of methods provided some improvement in performance relative to the commercial quarter‐dose images with no noise reduction applied.
Use of a channelized Hotelling observer to assess CT image quality and optimize dose reduction for iteratively reconstructed images
Favazza, Christopher , Ferrero, Andrea , Yu, Lifeng , McMillan, Kyle, Favazza, Christopher P, McMillan, Kyle L, McCollough, Cynthia H , Leng, Shuai , Yu, Lifeng , Leng, Shuai

Journal of Medical Imaging | October 3, 2017 | Volume: 4 | Issue: 03 | Pages: 1

10.1117/1.jmi.4.3.031213 Get It

Spectral performance of a whole-body research photon counting detector CT: quantitative accuracy in derived image sets
Zhou, Wei , Yu, Zhicong , Halaweish, Ahmed, Krauß, Bernhard , Schmidt, Bernhard , Yu, Lifeng , Kappler, S. , McCollough, C, McCollough, Cynthia, Leng, Shuai , Halaweish, Ahmed, Yu, Lifeng , Zhou, Wei

Physics in Medicine & Biology | July 20, 2017 | Volume: 62 | Issue: 17 | Pages: 7216-7232

10.1088/1361-6560/aa8103 Get It

Abstract Photon-counting computed tomography (PCCT) uses a photon counting detector to count individual photons and allocate them to specific energy bins by comparing photon energy to preset thresholds. This enables simultaneous multi-energy CT with a single source and detector. Phantom studies were performed to assess the spectral performance of a research PCCT scanner by assessing the accuracy of derived images sets. Specifically, we assessed the accuracy of iodine quantification in iodine map images and of CT number accuracy in virtual monoenergetic images (VMI). Vials containing iodine with five known concentrations were scanned on the PCCT scanner after being placed in phantoms representing the attenuation of different size patients. For comparison, the same vials and phantoms were also scanned on 2nd and 3rd generation dual-source, dual-energy scanners. After material decomposition, iodine maps were generated, from which iodine concentration was measured for each vial and phantom size and compared with the known concentration. Additionally, VMIs were generated and CT number accuracy was compared to the reference standard, which was calculated based on known iodine concentration and attenuation coefficients at each keV obtained from the U.S. National Institute of Standards and Technology (NIST). Results showed accurate iodine quantification (root mean square error of 0.5 mgI/cc) and accurate CT number of VMIs (percentage error of 8.9%) using the PCCT scanner. The overall performance of the PCCT scanner, in terms of iodine quantification and VMI CT number accuracy, was comparable to that of EID-based dual-source, dual-energy scanners.
Correlation between a 2D channelized Hotelling observer and human observers in a low‐contrast detection task with multislice reading in CT
Yu, Lifeng , Chen, Baiyu , Kofler, James M., Favazza, Christopher , Kupinski, Matthew A. , Favazza, Christopher P, Yu, Lifeng , Leng, Shuai , McCollough, Cynthia H.

Medical Physics | May 28, 2017 | Volume: 44 | Issue: 8 | Pages: 3990-3999

10.1002/mp.12380 Get It

PurposeModel observers have been successfully developed and used to assess the quality of static 2D CT images. However, radiologists typically read images by paging through multiple 2D slices (i.e., multislice reading). The purpose of this study was to correlate human and model observer performance in a low‐contrast detection task performed using both 2D and multislice reading, and to determine if the 2D model observer still correlate well with human observer performance in multislice reading.MethodsA phantom containing 18 low‐contrast spheres (6 sizes × 3 contrast levels) was scanned on a 192‐slice CT scanner at five dose levels (CTDIvol = 27, 13.5, 6.8, 3.4, and 1.7 mGy), each repeated 100 times. Images were reconstructed using both filtered‐backprojection (FBP) and an iterative reconstruction (IR) method (ADMIRE, Siemens). A 3D volume of interest (VOI) around each sphere was extracted and placed side‐by‐side with a signal‐absent VOI to create a 2‐alternative forced choice (2AFC) trial. Sixteen 2AFC studies were generated, each with 100 trials, to evaluate the impact of radiation dose, lesion size and contrast, and reconstruction methods on object detection. In total, 1600 trials were presented to both model and human observers. Three medical physicists acted as human observers and were allowed to page through the 3D volumes to make a decision for each 2AFC trial. The human observer performance was compared with the performance of a multislice channelized Hotelling observer (CHO_MS), which integrates multislice image data, and with the performance of previously validated CHO, which operates on static 2D images (CHO_2D). For comparison, the same 16 2AFC studies were also performed in a 2D viewing mode by the human observers and compared with the multislice viewing performance and the two CHO models.ResultsHuman observer performance was well correlated with the CHO_2D performance in the 2D viewing mode [Pearson product‐moment correlation coefficient R = 0.972, 95% confidence interval (CI): 0.919 to 0.990] and with the CHO_MS performance in the multislice viewing mode (R = 0.952, 95% CI: 0.865 to 0.984). The CHO_2D performance, calculated from the 2D viewing mode, also had a strong correlation with human observer performance in the multislice viewing mode (R = 0.957, 95% CI: 879 to 0.985). Human observer performance varied between the multislice and 2D modes. One reader performed better in the multislice mode (P = 0.013); whereas the other two readers showed no significant difference between the two viewing modes (P = 0.057 and P = 0.38).ConclusionsA 2D CHO model is highly correlated with human observer performance in detecting spherical low contrast objects in multislice viewing of CT images. This finding provides some evidence for the use of a simpler, 2D CHO to assess image quality in clinically relevant CT tasks where multislice viewing is used.