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  1. Article: Prior information-guided reconstruction network for positron emission tomography images.

    Liu, Zhiyuan / Wang, Bo / Ye, Huihui / Liu, Huafeng

    Quantitative imaging in medicine and surgery

    2023  Volume 13, Issue 12, Page(s) 8230–8246

    Abstract: Background: Deep learning has recently shown great potential in medical image reconstruction tasks. For positron emission tomography (PET) images, the direct reconstruction from raw data to radioactivity images using deep learning without any constraint ...

    Abstract Background: Deep learning has recently shown great potential in medical image reconstruction tasks. For positron emission tomography (PET) images, the direct reconstruction from raw data to radioactivity images using deep learning without any constraint may lead to the production of nonexistent structures. The aim of this study was to specifically develop and test a flexibly deep learning-based reconstruction network guided by any form of prior knowledge to achieve high quality and high reliability reconstruction.
    Methods: We developed a novel prior information-guided reconstruction network (PIGRN) with a dual-channel generator and a 2-scale discriminator based on a conditional generative adversarial network (cGAN). Besides the raw data channel, an additional channel is provided in the generator for prior information (PI) to guide the training phase. The PI can be reconstructed images obtained via conventional methods, nuclear medical images from other modalities, attenuation correction maps from time-of-flight-PET (TOF-PET) data, or any other physical parameters. For this study, the reconstructed images generated by filtered back projection (FBP) were chosen as the input of the additional channel. To improve the image quality, a 2-scale discriminator was adopted which can focus on both the coarse and fine field of the reconstruction images. Experiments were carried out on both a simulation dataset and a real Sprague Dawley (SD) rat dataset.
    Results: Two classic deep learning-based reconstruction networks, including U-Net and Deep-PET, were compared in our study. Compared with these two methods, our method could provide much higher quality PET image reconstruction in the study of the simulation dataset. The peak signal-to-noise ratio (PSNR) value reached 31.8498, and the structure similarity index measure (SSIM) value reached 0.9754. The real study on SD rats indicated that the proposed network also has strong generalization ability.
    Conclusions: The flexible PIGRN based on cGAN for PET images combines both raw data and PI. The results of comparison experiments and a generalization experiment based on simulation and SD rat datasets demonstrated that the proposed PIGRN has the ability to improve image quality and has strong generalization ability.
    Language English
    Publishing date 2023-10-30
    Publishing country China
    Document type Journal Article
    ZDB-ID 2653586-5
    ISSN 2223-4306 ; 2223-4292
    ISSN (online) 2223-4306
    ISSN 2223-4292
    DOI 10.21037/qims-23-579
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Improved Balanced Steady-State Free Precession Based MR Fingerprinting with Deep Autoencoders.

    Lu, Hengfa / Ye, Huihui / Zhao, Bo

    Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference

    2022  Volume 2022, Page(s) 3029–3034

    Abstract: Magnetic Resonance (MR) Fingerprinting is an emerging transient-state imaging paradigm, which enables the quantization of multiple MR tissue parameters in a single experiment. Balanced steady-state free precession (bSSFP)-based MR Fingerprinting has ... ...

    Abstract Magnetic Resonance (MR) Fingerprinting is an emerging transient-state imaging paradigm, which enables the quantization of multiple MR tissue parameters in a single experiment. Balanced steady-state free precession (bSSFP)-based MR Fingerprinting has excellent signal-to-noise characteristics and also allows for acquiring both tissue parameter maps and field inhomogeneity maps. However, field inhomogeneity often results in complex magnetization evolutions in bSSFP-based MR Fingerprinting, which creates significant challenges in image reconstruction. In this paper, we introduce a new method to address the image reconstruction problem. The proposed method incorporates a low-dimensional nonlinear manifold learned from an ensemble of magnetization evolutions using a deep autoencoder. It provides much better representation power than a low-dimensional linear subspace in capturing complex magnetization evolutions. We formulate the image reconstruction problem with this nonlinear model and solve the resulting optimization problem using an algorithm based on variable splitting and the alternating direction method of multipliers. We evaluate the performance of the proposed method using numerical experiments and demonstrate that it significantly outperforms the state-of-art method using a linear subspace model.
    MeSH term(s) Algorithms ; Brain ; Image Processing, Computer-Assisted/methods ; Magnetic Resonance Imaging/methods ; Magnetic Resonance Spectroscopy
    Language English
    Publishing date 2022-09-09
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2694-0604
    ISSN (online) 2694-0604
    DOI 10.1109/EMBC48229.2022.9871003
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Yolk sac differentiation in urothelial carcinoma - A rare variant originating from aberrant differentiation of sarcomatoid components.

    Krishnamurthy, Kritika / Rosen, Seymour / Ye, Huihui / Sun, Yue

    Annals of diagnostic pathology

    2022  Volume 58, Page(s) 151923

    Abstract: Yolk sac differentiation occurs in somatic neoplasms of the gastrointestinal and gynecologic tracts; it has rarely been reported in urothelial carcinoma. Here, we report three cases of yolk sac differentiation in sarcomatoid urothelial carcinoma. The ... ...

    Abstract Yolk sac differentiation occurs in somatic neoplasms of the gastrointestinal and gynecologic tracts; it has rarely been reported in urothelial carcinoma. Here, we report three cases of yolk sac differentiation in sarcomatoid urothelial carcinoma. The epithelioid component of the sarcomatoid urothelial carcinoma showed divergent differentiation, including squamous, conventional glandular, small cell carcinoma, and yolk sac components. The sarcomatoid component showed malignant spindle cells admixed with focal chondroid and rhabdoid elements. In all three cases, the yolk sac areas were admixed with the sarcomatoid component and showed a glandular pattern, with vacuolated, eosinophilic cytoplasm. These areas were positive for SALL4, variably positive for glypican 3 and AFP, and negative for the conventional urothelial markers GATA3, p63, and 34βE12. Yolk sac differentiation is an extremely rare occurrence in sarcomatoid urothelial carcinoma.
    MeSH term(s) Biomarkers, Tumor ; Carcinoma, Transitional Cell/diagnosis ; Carcinoma, Transitional Cell/pathology ; Female ; Humans ; Urinary Bladder Neoplasms/pathology ; Urothelium/pathology ; Yolk Sac/pathology
    Chemical Substances Biomarkers, Tumor
    Language English
    Publishing date 2022-02-12
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1440011-x
    ISSN 1532-8198 ; 1092-9134
    ISSN (online) 1532-8198
    ISSN 1092-9134
    DOI 10.1016/j.anndiagpath.2022.151923
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Mesothelioma of Uncertain Malignant Potential (MUMP) of the Tunica Vaginalis: Proposal for Reclassification as "Complex Mesothelial Tumor of the Tunica Vaginalis".

    Ding, Chien-Kuang C / Van Roo, Jason / Kryvenko, Oleksandr N / Ye, Huihui / McKenney, Jesse K / Epstein, Jonathan I

    The American journal of surgical pathology

    2024  Volume 48, Issue 4, Page(s) 387–394

    Abstract: A well-differentiated papillary mesothelial tumor (WDPMT) and malignant mesothelioma are 2 well-recognized entities arising from the testis tunica vaginalis. Another mesothelial lesion exclusively seen at this site is mesothelioma of uncertain malignant ... ...

    Abstract A well-differentiated papillary mesothelial tumor (WDPMT) and malignant mesothelioma are 2 well-recognized entities arising from the testis tunica vaginalis. Another mesothelial lesion exclusively seen at this site is mesothelioma of uncertain malignant potential (MUMP)-a lesion reminiscent of WDPMT yet demonstrating variable proportions of more complex architectural patterns that could be confused with invasion. MUMP was first described in 2010 with a total of 11 cases reported to date. Herein, we describe 19 additional patients who underwent hydrocelectomy, excision, and/or orchiectomy. Novel morphologic patterns found in addition to the 2010 series include spindle cells, keloidal-type collagen, and multicystic architecture lined by bland mesothelial cells. Clinical follow-up in 9 patients for more than 1 year (1.5 to 22.5 y, median 4.5 y) revealed no evidence of disease recurrence or metastases. Despite greater architectural complexity, MUMP has (1) bland cytology; (2) merging in with WDPMT areas; (3) low mitotic rate and Ki-67 nuclear labeling index; (4) retention of MTAP and BAP1 expression; and (5) benign clinical follow-up. If these cases were malignant mesotheliomas, one would have expected at least some of the patients to demonstrate disease recurrence/progression without adjuvant therapy within the available follow-up time, particularly with limited resection in most patients. Thus, we propose that "mesothelioma of uncertain malignant potential" be renamed as "complex mesothelial tumor of the tunica vaginalis." Using the term "complex" draws a contrast with the simple cuboidal lining and simple papillary architecture seen in WDPMT. Also, labeling the lesion as "tumor" removes the stigmata of "uncertain malignant potential" and "mesothelioma" that are alarming to patients and clinicians, and potentially could unduly lead to more extensive surgery in an attempt at "complete" resection. At the same time, not definitively labeling the lesion as benign allows recommendations for follow-up.
    MeSH term(s) Male ; Humans ; Mesothelioma, Malignant ; Testicular Neoplasms/pathology ; Neoplasm Recurrence, Local ; Mesothelioma/surgery ; Mesothelioma/pathology
    Language English
    Publishing date 2024-01-25
    Publishing country United States
    Document type Journal Article
    ZDB-ID 752964-8
    ISSN 1532-0979 ; 0147-5185
    ISSN (online) 1532-0979
    ISSN 0147-5185
    DOI 10.1097/PAS.0000000000002185
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: GOx-Powered Janus Platelet Nanomotors for Targeted Delivery of Thrombolytic Drugs in Treating Thrombotic Diseases.

    Fang, Xiaojuan / Ye, Huihui / Shi, Keqing / Wang, Kaicheng / Huang, Yueyue / Zhang, Xianwei / Pan, Jingye

    ACS biomaterials science & engineering

    2023  Volume 9, Issue 7, Page(s) 4302–4310

    Abstract: Low efficiency of targeting and delivery toward the thrombus site poses challenges to using thrombolytic drugs. Inspired by the biomimetic system of platelet membranes (PMs) and glucose oxidase (GOx) modification technologies, we develop a novel GOx- ... ...

    Abstract Low efficiency of targeting and delivery toward the thrombus site poses challenges to using thrombolytic drugs. Inspired by the biomimetic system of platelet membranes (PMs) and glucose oxidase (GOx) modification technologies, we develop a novel GOx-powered Janus nanomotor by asymmetrically attaching the GOx to polymeric nanomotors coated with the PMs. Then the PM-coated nanomotors were conjugated with urokinase plasminogen activators (uPAs) on their surfaces. The PM-camouflaged design conferred excellent biocompatibility to the nanomotors and improved their targeting ability to thrombus. The Janus distribution of GOx also allows the uneven decomposition of glucose in biofluids to produce a chemophoretic motion, increasing the drug delivery efficiency of nanomotors. In addition, these nanomotors are located at the lesion site due to the mutual adhesion and aggregation of platelet membranes. Furthermore, thrombolysis effects of nanomotors are enhanced in static and dynamic thrombus as well as in mouse models. It is believed that the novel PM-coated enzyme-powered nanomotors represent a great value for thrombolysis treatment.
    MeSH term(s) Animals ; Mice ; Fibrinolytic Agents/therapeutic use ; Glucose Oxidase ; Thrombosis/drug therapy ; Blood Platelets ; Polymers
    Chemical Substances Fibrinolytic Agents ; Glucose Oxidase (EC 1.1.3.4) ; Polymers
    Language English
    Publishing date 2023-06-12
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 2373-9878
    ISSN (online) 2373-9878
    DOI 10.1021/acsbiomaterials.3c00387
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Book ; Online: Accelerated MR Fingerprinting with Low-Rank and Generative Subspace Modeling

    Lu, Hengfa / Ye, Huihui / Wald, Lawrence L. / Zhao, Bo

    2023  

    Abstract: Magnetic Resonance (MR) Fingerprinting is an emerging multi-parametric quantitative MR imaging technique, for which image reconstruction methods utilizing low-rank and subspace constraints have achieved state-of-the-art performance. However, this class ... ...

    Abstract Magnetic Resonance (MR) Fingerprinting is an emerging multi-parametric quantitative MR imaging technique, for which image reconstruction methods utilizing low-rank and subspace constraints have achieved state-of-the-art performance. However, this class of methods often suffers from an ill-conditioned model-fitting issue, which degrades the performance as the data acquisition lengths become short and/or the signal-to-noise ratio becomes low. To address this problem, we present a new image reconstruction method for MR Fingerprinting, integrating low-rank and subspace modeling with a deep generative prior. Specifically, the proposed method captures the strong spatiotemporal correlation of contrast-weighted time-series images in MR Fingerprinting via a low-rank factorization. Further, it utilizes an untrained convolutional generative neural network to represent the spatial subspace of the low-rank model, while estimating the temporal subspace of the model from simulated magnetization evolutions generated based on spin physics. Here the architecture of the generative neural network serves as an effective regularizer for the ill-conditioned inverse problem without additional spatial training data that are often expensive to acquire. The proposed formulation results in a non-convex optimization problem, for which we develop an algorithm based on variable splitting and alternating direction method of multipliers.We evaluate the performance of the proposed method with numerical simulations and in vivo experiments and demonstrate that the proposed method outperforms the state-of-the-art low-rank and subspace reconstruction.
    Keywords Electrical Engineering and Systems Science - Image and Video Processing
    Subject code 006
    Publishing date 2023-05-17
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  7. Article ; Online: Molecular correlates of intermediate- and high-risk localized prostate cancer.

    Ye, Huihui / Sowalsky, Adam G

    Urologic oncology

    2018  Volume 36, Issue 8, Page(s) 368–374

    Abstract: Clinicopathologic parameters, including Gleason score, remain the most validated prognostic factors for patients diagnosed with localized prostate cancer (PCa). However, patients of the same risk groups have exhibited heterogeneity of disease outcomes. ... ...

    Abstract Clinicopathologic parameters, including Gleason score, remain the most validated prognostic factors for patients diagnosed with localized prostate cancer (PCa). However, patients of the same risk groups have exhibited heterogeneity of disease outcomes. To improve risk classification, multiple molecular risk classifiers have been developed, which were designed to inform beyond existing clinicopathologic classifiers. Alterations affecting tumor suppressors and oncogenes, such as PTEN, MYC, BRCA2, and TP53, which have been long associated with aggressive PCa, demonstrated grade-dependent frequency of alterations in localized PCas. In addition to these genetic hallmarks, several RNA-based commercial tests have been recently developed to help identify men who would benefit from earlier interventions. Large genomic studies also correlate germline genetic alterations and epigenetic features with adverse outcomes, further strengthening the link between the risk of metastasis and a stepwise accumulation of driver molecular lesions.
    MeSH term(s) Humans ; Male ; Prostatic Neoplasms/genetics ; Prostatic Neoplasms/metabolism ; Prostatic Neoplasms/pathology
    Language English
    Publishing date 2018-03-02
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Intramural ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S. ; Review
    ZDB-ID 1336505-8
    ISSN 1873-2496 ; 1078-1439
    ISSN (online) 1873-2496
    ISSN 1078-1439
    DOI 10.1016/j.urolonc.2017.12.022
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Reply to Alessia Cimadamore, Liang Cheng, Antonio Lopez-Beltran, Marina Scarpelli, and Rodolfo Montironi's Letter to the Editor re: Scott Wilkinson, Huihui Ye, Fatima Karzai, et al. Nascent Prostate Cancer Heterogeneity Drives Evolution and Resistance to Intense Hormonal Therapy. Eur Urol. In press. https://doi.org/10.1016/j.eururo.2021.03.009: Focus on Intraductal Carcinoma of the Prostate.

    Wilkinson, Scott / Ye, Huihui / Lis, Rosina T / Sowalsky, Adam G

    European urology

    2021  Volume 80, Issue 3, Page(s) e83–e84

    MeSH term(s) Carcinoma, Intraductal, Noninfiltrating ; Humans ; Male ; Prostatic Neoplasms
    Language English
    Publishing date 2021-06-18
    Publishing country Switzerland
    Document type Letter ; Research Support, N.I.H., Intramural ; Comment
    ZDB-ID 193790-x
    ISSN 1873-7560 ; 1421-993X ; 0302-2838
    ISSN (online) 1873-7560 ; 1421-993X
    ISSN 0302-2838
    DOI 10.1016/j.eururo.2021.06.002
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Scrotal fibrous hamartoma of infancy: A case report and literature review of a rare tumor of the genitourinary tract.

    Starr, Savannah / Mendhiratta, Neil / Iskander, Paul J / Ye, Huihui / Sturm, Renea

    Urology case reports

    2022  Volume 45, Page(s) 102218

    Abstract: Fibrous hamartoma of infancy (FHI) is a rare, benign soft tissue lesion observed in infants characterized histologically by triphasic appearance of bland fibroblastic fascicles, mature adipose tissue, and nodules of primitive myxoid mesenchyme. ... ...

    Abstract Fibrous hamartoma of infancy (FHI) is a rare, benign soft tissue lesion observed in infants characterized histologically by triphasic appearance of bland fibroblastic fascicles, mature adipose tissue, and nodules of primitive myxoid mesenchyme. Preoperative and intraoperative recognition of FHI presents a significant diagnostic challenge due to nonspecific imaging findings and its histologic similarities to alternate benign and malignant entities. Management requires complete local excision and clinical follow-up to monitor for recurrence. Here, we present the diagnosis, management, and two-year follow-up of a 13-month-old boy with a scrotal FHI in addition to a comprehensive literature review of this entity.
    Language English
    Publishing date 2022-09-12
    Publishing country United States
    Document type Case Reports
    ZDB-ID 2745459-9
    ISSN 2214-4420
    ISSN 2214-4420
    DOI 10.1016/j.eucr.2022.102218
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: An efficient approach to optimal experimental design for magnetic resonance fingerprinting with B-splines.

    Scope Crafts, Evan / Lu, Hengfa / Ye, Huihui / Wald, Lawrence L / Zhao, Bo

    Magnetic resonance in medicine

    2022  Volume 88, Issue 1, Page(s) 239–253

    Abstract: Purpose: To introduce a computationally efficient approach to optimizing the data acquisition parameters of MR Fingerprinting experiments with the Cramér-Rao bound.: Methods: This paper presents a new approach to the optimal experimental design (OED) ...

    Abstract Purpose: To introduce a computationally efficient approach to optimizing the data acquisition parameters of MR Fingerprinting experiments with the Cramér-Rao bound.
    Methods: This paper presents a new approach to the optimal experimental design (OED) problem for MR Fingerprinting, which leverages an early observation that the optimized data acquisition parameters of MR Fingerprinting experiments are highly structured. Specifically, the proposed approach captures the desired structure by representing the sequences of data acquisition parameters with a special class of piecewise polynomials known as B-splines. This incorporates low-dimensional spline subspace constraints into the OED problem, which significantly reduces the search space of the problem, thereby improving the computational efficiency. With the rich B-spline representations, the proposed approach also allows for incorporating prior knowledge on the structure of different acquisition parameters, which facilitates the experimental design.
    Results: The effectiveness of the proposed approach was evaluated using numerical simulations, phantom experiments, and in vivo experiments. The proposed approach achieves a two-order-of-magnitude improvement of the computational efficiency over the state-of-the-art approaches, while providing a comparable signal-to-noise ratio efficiency benefit. It enables an optimal experimental design problem for MR Fingerprinting with a typical acquisition length to be solved in approximately 1 min.
    Conclusions: The proposed approach significantly improves the computational efficiency of the optimal experimental design for MR Fingerprinting, which enhances its practical utility for a variety of quantitative MRI applications.
    MeSH term(s) Algorithms ; Brain/diagnostic imaging ; Image Processing, Computer-Assisted/methods ; Magnetic Resonance Imaging/methods ; Magnetic Resonance Spectroscopy ; Phantoms, Imaging ; Research Design ; Signal-To-Noise Ratio
    Language English
    Publishing date 2022-03-07
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 605774-3
    ISSN 1522-2594 ; 0740-3194
    ISSN (online) 1522-2594
    ISSN 0740-3194
    DOI 10.1002/mrm.29212
    Database MEDical Literature Analysis and Retrieval System OnLINE

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