Visual Computer最新文献

Transformer-based arterial spin labeling perfusion MRI denoising. 基于变压器的动脉自旋标记灌注MRI去噪。

IF 2.9 3区计算机科学

Visual Computer Pub Date : 2025-07-03 DOI: 10.1007/s00371-025-04061-x

Muhammad Nadeem Cheema, Lei Zhang, Anam Nazir, Yiran Li, John A Detre, Ze Wang

{"title":"Transformer-based arterial spin labeling perfusion MRI denoising.","authors":"Muhammad Nadeem Cheema, Lei Zhang, Anam Nazir, Yiran Li, John A Detre, Ze Wang","doi":"10.1007/s00371-025-04061-x","DOIUrl":"https://doi.org/10.1007/s00371-025-04061-x","url":null,"abstract":"Arterial Spin Labeling (ASL) perfusion MRI is the only non-invasive technique for quantifying regional cerebral blood flow (CBF) visualization, which is an important physiological variable. ASL MRI has a relatively low signal-to-noise-ratio (SNR), making it challenging to achieve high quality CBF images using limited data. Promising ASL CBF denoising results have been shown in recent convolutional neural network (CNN)-based methods. A common problem of these methods is the loss of output image texture and image intensity variabilities. To address this problem, we proposed a Hybrid U-Net and Swin Transformer (HUST) ASL CBF denoising method. Transformers explicitly encode spatial positions of input data and can learn features with long-range dependency. These features can substantially mitigate the image blurring issue and preserve individual data variability. We used the U-Net as the network backbone due to its demonstrated capability for capturing local and global features and replaced the original CNNs layers with transformers. Swin Transformer was used to reduce the number of parameters required by a regular transformer for image denoising. Reduction in parameters is achieved by hierarchical structure along with shifting window-based attention mechanism. The proposed method is trained and tested with 2D and 3D ASL CBF images, HUST substantially improved CBF image visualization and preserved image textures. The 2D data were acquired from 277 normal healthy subjects aged 23 to 47, 110 males, and 167 females were included. The 3D data (110 subjects) were pooled from a local database and were acquired using our background suppressed 3D stack of spirals fast spin echo pseudo-continuous ASL sequence 27-30. HUST makes it possible to substantially reduce the data acquisition time without compromising CBF quantification quality. HUST outperforms three state-of-the-art for both 2D and 3D ASL perfusion MRI data, achieving higher mean PSNR (45.15 for 3D, 33.67 for 2D) and SSIM (0.99 for 3D, 0.96 for 2D), indicating superior image quality and closer resemblance to the reference image.","PeriodicalId":49376,"journal":{"name":"Visual Computer","volume":" ","pages":""},"PeriodicalIF":2.9,"publicationDate":"2025-07-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12366763/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144976064","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"计算机科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Human Plasma Proteomic Profile of Clonal Hematopoiesis. 克隆性造血的人体血浆蛋白质组概况

IF 3 3区计算机科学

Visual Computer Pub Date : 2024-10-31 DOI: 10.1101/2023.07.25.550557

Zhi Yu, Amélie Vromman, Ngoc Quynh H Nguyen, Art Schuermans, Thiago Rentz, Shamsudheen K Vellarikkal, Md Mesbah Uddin, Abhishek Niroula, Gabriel Griffin, Michael C Honigberg, Amy E Lin, Christopher J Gibson, Daniel H Katz, Usman Tahir, Shi Fang, Sara Haidermota, Shriienidhie Ganesh, Tajmara Antoine, Joshua Weinstock, Thomas R Austin, Vasan S Ramachandran, Gina M Peloso, Whitney Hornsby, Peter Ganz, JoAnn E Manson, Bernhard Haring, Charles L Kooperberg, Alexander P Reiner, Joshua C Bis, Bruce M Psaty, Yuan-I Min, Adolfo Correa, Leslie A Lange, Wendy S Post, Jerome I Rotter, Stephen S Rich, James G Wilson, Benjamin L Ebert, Bing Yu, Christie M Ballantyne, Josef Coresh, Vijay G Sankaran, Alexander G Bick, Siddhartha Jaiswal, Robert E Gerszten, Peter Libby, Rajat M Gupta, Pradeep Natarajan

{"title":"Human Plasma Proteomic Profile of Clonal Hematopoiesis.","authors":"Zhi Yu, Amélie Vromman, Ngoc Quynh H Nguyen, Art Schuermans, Thiago Rentz, Shamsudheen K Vellarikkal, Md Mesbah Uddin, Abhishek Niroula, Gabriel Griffin, Michael C Honigberg, Amy E Lin, Christopher J Gibson, Daniel H Katz, Usman Tahir, Shi Fang, Sara Haidermota, Shriienidhie Ganesh, Tajmara Antoine, Joshua Weinstock, Thomas R Austin, Vasan S Ramachandran, Gina M Peloso, Whitney Hornsby, Peter Ganz, JoAnn E Manson, Bernhard Haring, Charles L Kooperberg, Alexander P Reiner, Joshua C Bis, Bruce M Psaty, Yuan-I Min, Adolfo Correa, Leslie A Lange, Wendy S Post, Jerome I Rotter, Stephen S Rich, James G Wilson, Benjamin L Ebert, Bing Yu, Christie M Ballantyne, Josef Coresh, Vijay G Sankaran, Alexander G Bick, Siddhartha Jaiswal, Robert E Gerszten, Peter Libby, Rajat M Gupta, Pradeep Natarajan","doi":"10.1101/2023.07.25.550557","DOIUrl":"10.1101/2023.07.25.550557","url":null,"abstract":"Plasma proteomic profiles associated with subclinical somatic mutations in blood cells may offer novel insights into downstream clinical consequences. Here, we explore such patterns in clonal hematopoiesis of indeterminate potential (CHIP), which is linked to several cancer and non-cancer outcomes, including coronary artery disease (CAD). Among 61,833 ancestrally diverse participants (3,881 with CHIP) from NHLBI TOPMed and UK Biobank with blood-based DNA sequencing and proteomic measurements (1,148 proteins by SomaScan in TOPMed and 2,917 proteins by Olink in UK Biobank), we identified 32 and 345 unique proteins from TOPMed and UK Biobank, respectively, associated with the most prevalent driver genes (DNMT3A, TET2, and ASXL1). These associations showed substantial heterogeneity by driver genes, sex, and race, and were enriched for immune response and inflammation pathways. Mendelian randomization in humans, coupled with ELISA in hematopoietic Tet2-/- vs wild-type mice validation, disentangled causal proteomic perturbations from TET2 CHIP. Lastly, we identified plasma proteins shared between CHIP and CAD.","PeriodicalId":49376,"journal":{"name":"Visual Computer","volume":"31 1","pages":""},"PeriodicalIF":3.0,"publicationDate":"2024-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11565774/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"73564233","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"计算机科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Robotic Low Anterior Resection After Transanal Minimally Invasive Surgery and Chemoradiation Therapy for T1N1a Rectal Cancer. 经肛门微创手术和化疗治疗 T1N1a 直肠癌后的机器人低位前切除术

IF 3.9 3区计算机科学

Visual Computer Pub Date : 2024-01-01 Epub Date: 2023-08-30 DOI: 10.1097/DCR.0000000000002923

Ryan A Schmelter, Marc A Gorvet, Zachary Grossmann, Clinton Crowder, Shankar R Raman