PUBLICATIONS

Recent Publications

• Mapping Resection Progress by Tool-Tip Tracking during Brain Tumor Surgery for Real-Time Estimation of Residual Tumor February 11, 2023
  Surgical resection continues to be the primary initial therapeutic strategy in the treatment of patients with brain tumors. Computerized cranial neuronavigation based on preoperative imaging offers precision guidance during craniotomy and early tumor resection but progressively loses validity with brain shift. Intraoperative MRI (iMRI) and intraoperative ultrasound (iUS) can update the imaging used for guidance […]
  Parikshit Juvekar
• Global cancer surgery in low-resource settings: A strengths, weaknesses, opportunities, and threats analysis January 4, 2023
  Global cancer surgery is an essential and complex component of oncologic care. This study aims to describe global cancer surgery literature since the 2015 Lancet Commission on Global Surgery and Cancer Surgery and perform a strengths, weaknesses, opportunities, and threats (SWOT) analysis. A systematic search was performed in PubMed of global cancer surgery articles. Themes […]
  Samantha J Sadler
• SurfaceNets for Multi-Label Segmentations with Preservation of Sharp Boundaries November 3, 2022
  We extend 3D SurfaceNets to generate surfaces of segmented 3D medical images composed of multiple materials represented as indexed labels. Our extension generates smooth, high-quality triangle meshes suitable for rendering and tetrahedralization, preserves topology and sharp boundaries between materials, guarantees a user-specified accuracy, and is fast enough that users can interactively explore the trade-off between […]
  Sarah F Frisken
• BAF Complex Maintains Glioma Stem Cells in Pediatric H3K27M Glioma October 28, 2022
  Diffuse midline gliomas are uniformly fatal pediatric central nervous system cancers that are refractory to standard-of-care therapeutic modalities. The primary genetic drivers are a set of recurrent amino acid substitutions in genes encoding histone H3 (H3K27M), which are currently undruggable. These H3K27M oncohistones perturb normal chromatin architecture, resulting in an aberrant epigenetic landscape. To interrogate […]
  Eshini Panditharatna
• Quantitative Analysis of Liver Disease Using MRI-Based Radiomic Features of the Liver and Spleen October 26, 2022
  CONCLUSIONS: MR-based liver and spleen radiomic features had high accuracy in identifying cirrhosis, after stratification by clinical compensation/decompensation and MELD. Shape and texture features performed better than size features. These findings will inform radiomic-based applications for cirrhosis diagnosis and severity.
  Jordan Sack
• Multimodal Representation Learning via Maximization of Local Mutual Information October 25, 2022
  We propose and demonstrate a representation learning approach by maximizing the mutual information between local features of images and text. The goal of this approach is to learn useful image representations by taking advantage of the rich information contained in the free text that describes the findings in the image. Our method trains image and […]
  Ruizhi Liao
• Radiologists' Contribution to Variation in Detecting Clinically Significant Prostate Cancer in Men With Prostate MRI October 16, 2022
  OBJECTIVE: Assess radiologists' contribution to variation in clinically significant prostate cancer (csPCa) detection in patients with elevated prostate-specific antigen (PSA) and multiparametric MRI (mpMRI).
  Sachin Naik
• Chronic convection-enhanced delivery of topotecan for patients with recurrent glioblastoma: a first-in-patient, single-centre, single-arm, phase 1b trial October 15, 2022
  BACKGROUND: Topotecan is cytotoxic to glioma cells but is clinically ineffective because of drug delivery limitations. Systemic delivery is limited by toxicity and insufficient brain penetrance, and, to date, convection-enhanced delivery (CED) has been restricted to a single treatment of restricted duration. To address this problem, we engineered a subcutaneously implanted catheter-pump system capable of […]
  Eleonora F Spinazzi
• Oncometabolite d-2HG alters T cell metabolism to impair CD8⁺ T cell function September 29, 2022
  Gain-of-function mutations in isocitrate dehydrogenase (IDH) in human cancers result in the production of d-2-hydroxyglutarate (d-2HG), an oncometabolite that promotes tumorigenesis through epigenetic alterations. The cancer cell-intrinsic effects of d-2HG are well understood, but its tumor cell-nonautonomous roles remain poorly explored. We compared the oncometabolite d-2HG with its enantiomer, l-2HG, and found that tumor-derived d-2HG […]
  Giulia Notarangelo
• Automatic segmentation of prostate and extracapsular structures in MRI to predict needle deflection in percutaneous prostate intervention September 24, 2022
  CONCLUSION: Our segmentation method using 3D U-Net provided an accurate anatomical understanding of the prostate and extracapsular structures. In addition, our method was suitable for segmenting functional and complication-related structures. Finally, 3D images of the prostate and extracapsular structures could simulate the needle pathway to predict needle deflections.
  Satoshi Kobayashi
• Spatially resolved characterization of tissue metabolic compartments in fasted and high-fat diet livers September 6, 2022
  Cells adapt their metabolism to physiological stimuli, and metabolic heterogeneity exists between cell types, within tissues, and subcellular compartments. The liver plays an essential role in maintaining whole-body metabolic homeostasis and is structurally defined by metabolic zones. These zones are well-understood on the transcriptomic level, but have not been comprehensively characterized on the metabolomic level. […]
  Sylwia A Stopka
• Highdicom: a Python Library for Standardized Encoding of Image Annotations and Machine Learning Model Outputs in Pathology and Radiology August 22, 2022
  Machine learning (ML) is revolutionizing image-based diagnostics in pathology and radiology. ML models have shown promising results in research settings, but the lack of interoperability between ML systems and enterprise medical imaging systems has been a major barrier for clinical integration and evaluation. The DICOM^(®) standard specifies information object definitions (IODs) and services for the […]
  Christopher P Bridge
• A druggable addiction to de novo pyrimidine biosynthesis in diffuse midline glioma August 19, 2022
  Diffuse midline glioma (DMG) is a uniformly fatal pediatric cancer driven by oncohistones that do not readily lend themselves to drug development. To identify druggable targets for DMG, we conducted a genome-wide CRISPR screen that reveals a DMG selective dependency on the de novo pathway for pyrimidine biosynthesis. This metabolic vulnerability reflects an elevated rate […]
  Sharmistha Pal
• De novo pyrimidine synthesis is a targetable vulnerability in IDH mutant glioma August 19, 2022
  Mutations affecting isocitrate dehydrogenase (IDH) enzymes are prevalent in glioma, leukemia, and other cancers. Although mutant IDH inhibitors are effective against leukemia, they seem to be less active in aggressive glioma, underscoring the need for alternative treatment strategies. Through a chemical synthetic lethality screen, we discovered that IDH1-mutant glioma cells are hypersensitive to drugs targeting […]
  Diana D Shi
• Single cell spatial analysis reveals the topology of immunomodulatory purinergic signaling in glioblastoma August 16, 2022
  How the glioma immune microenvironment fosters tumorigenesis remains incompletely defined. Here, we use single-cell RNA-sequencing and multiplexed tissue-imaging to characterize the composition, spatial organization, and clinical significance of extracellular purinergic signaling in glioma. We show that microglia are the predominant source of CD39, while tumor cells principally express CD73. In glioblastoma, CD73 is associated with […]
  Shannon Coy
• Superficial white matter microstructure affects processing speed in cerebral small vessel disease July 13, 2022
  White matter hyperintensities (WMH) are a typical feature of cerebral small vessel disease (CSVD), which contributes to about 50% of dementias worldwide. Microstructural alterations in deep white matter (DWM) have been widely examined in CSVD. However, little is known about abnormalities in superficial white matter (SWM) and their relevance for processing speed, the main cognitive […]
  Shuyue Wang
• Promoting the use of the PI-QUAL score for prostate MRI quality: results from the ESOR Nicholas Gourtsoyiannis teaching fellowship June 30, 2022
  CONCLUSIONS: A teaching course (dedicated lecture + hands-on workshop) on PI-QUAL significantly improved the application of this scoring system to assess the quality of prostate MRI examinations.
  Francesco Giganti
• Multicenter Repeatability and Reproducibility of MR Fingerprinting in Phantoms and in Prostatic Tissue June 17, 2022
  CONCLUSION: Prostate MRF measurements of T(1) and T(2) are repeatable and reproducible between MRI scanners at different centers on different continents for the above measurement ranges.
  Wei-Ching Lo
• MRI-guided focused ultrasound focal therapy for patients with intermediate-risk prostate cancer: a phase 2b, multicentre study June 17, 2022
  BACKGROUND: Men with grade group 2 or 3 prostate cancer are often considered ineligible for active surveillance; some patients with grade group 2 prostate cancer who are managed with active surveillance will have early disease progression requiring radical therapy. This study aimed to investigate whether MRI-guided focused ultrasound focal therapy can safely reduce treatment burden […]
  Behfar Ehdaie
• EMDQ-SLAM: Real-time High-resolution Reconstruction of Soft Tissue Surface from Stereo Laparoscopy Videos June 6, 2022
  We propose a novel stereo laparoscopy video-based non-rigid SLAM method called EMDQ-SLAM, which can incrementally reconstruct thee-dimensional (3D) models of soft tissue surfaces in real-time and preserve high-resolution color textures. EMDQ-SLAM uses the expectation maximization and dual quaternion (EMDQ) algorithm combined with SURF features to track the camera motion and estimate tissue deformation between video […]
  Haoyin Zhou