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3D mapping

Daniel I Glazer, Elmira Hassanzadeh, Andriy Fedorov, Olutayo I Olubiyi, Shayna S Goldberger, Tobias Penzkofer, Trevor A Flood, Paul Masry, Robert V Mulkern, Michelle S Hirsch, Clare M Tempany, Fiona M Fennessy
OBJECTIVE: To determine if tumor cell density and percentage of Gleason pattern within an outlined volumetric tumor region of interest (TROI) on whole-mount pathology (WMP) correlate with apparent diffusion coefficient (ADC) values on corresponding TROIs outlined on pre-operative MRI. METHODS: Men with biopsy-proven prostate adenocarcinoma undergoing multiparametric MRI (mpMRI) prior to prostatectomy were consented to this prospective study. WMP and mpMRI images were viewed using 3D Slicer and each TROI from WMP was contoured on the high b-value ADC maps (b0, 1400)...
October 22, 2016: Abdominal Radiology
Jia Min Lee, Wai Yee Yeong
Bioprinting is an emerging technology that allows the assembling of both living and non-living biological materials into an ideal complex layout for further tissue maturation. Bioprinting aims to produce engineered tissue or organ in a mechanized, organized, and optimized manner. Various biomaterials and techniques have been utilized to bioprint biological constructs in different shapes, sizes and resolutions. There is a need to systematically discuss and analyze the reported strategies employed to fabricate these constructs...
October 21, 2016: Advanced Healthcare Materials
Daniel Stäb, Steffen Bollmann, Christian Langkammer, Kristian Bredies, Markus Barth
With the advent of ultra-high field MRI scanners in clinical research, susceptibility based MRI has recently gained increasing interest because of its potential to assess subtle tissue changes underlying neurological pathologies/disorders. Conventional, but rather slow, three-dimensional (3D) spoiled gradient-echo (GRE) sequences are typically employed to assess the susceptibility of tissue. 3D echo-planar imaging (EPI) represents a fast alternative but generally comes with echo-time restrictions, geometrical distortions and signal dropouts that can become severe at ultra-high fields...
October 20, 2016: NMR in Biomedicine
Jiang Zhu, Li Qi, Yusi Miao, Teng Ma, Cuixia Dai, Yueqiao Qu, Youmin He, Yiwei Gao, Qifa Zhou, Zhongping Chen
Elastography provides a powerful tool for histopathological identification and clinical diagnosis based on information from tissue stiffness. Benefiting from high resolution, three-dimensional (3D), and noninvasive optical coherence tomography (OCT), optical micro-elastography has the ability to determine elastic properties with a resolution of ~10 μm in a 3D specimen. The shear wave velocity measurement can be used to quantify the elastic modulus. However, in current methods, shear waves are measured near the surface with an interference of surface waves...
October 20, 2016: Scientific Reports
Hyejung Won, Luis de la Torre-Ubieta, Jason L Stein, Neelroop N Parikshak, Jerry Huang, Carli K Opland, Michael J Gandal, Gavin J Sutton, Farhad Hormozdiari, Daning Lu, Changhoon Lee, Eleazar Eskin, Irina Voineagu, Jason Ernst, Daniel H Geschwind
Three-dimensional physical interactions within chromosomes dynamically regulate gene expression in a tissue-specific manner. However, the 3D organization of chromosomes during human brain development and its role in regulating gene networks dysregulated in neurodevelopmental disorders, such as autism or schizophrenia, are unknown. Here we generate high-resolution 3D maps of chromatin contacts during human corticogenesis, permitting large-scale annotation of previously uncharacterized regulatory relationships relevant to the evolution of human cognition and disease...
October 19, 2016: Nature
Eider M Arenaza-Urquijo, Robin de Flores, Julie Gonneaud, Miranka Wirth, Valentin Ourry, William Callewaert, Brigitte Landeau, Stéphanie Egret, Florence Mézenge, Béatrice Desgranges, Gaël Chételat
Engagement in cognitive activity (CA) and physical activity (PA) during the lifespan may counteract brain atrophy later in life. Here, we investigated engagement in CA and PA during late adulthood in association with gray matter volume (GM) in normal older adults, with special focus on the hippocampus. Forty-five cognitively normal older individuals (mean age: 72) underwent T1-weighted MRI and self-reported CA and PA assessment. Whole brain voxel-wise multiple regression models were carried out to assess the relationships between CA, PA and GM volume adjusted by age and sex...
October 18, 2016: Brain Imaging and Behavior
Shilpi Yadav, Jonathan K Williamson, Maria A Aronova, Andrew A Prince, Irina D Pokrovskaya, Richard D Leapman, Brian Storrie
Platelets are small, anucleate cell fragments that are central to hemostasis, thrombosis, and inflammation. They are derived from megakaryocytes from which they inherit their organelles. As platelets can synthesize proteins and contain many of the enzymes of the secretory pathway, one might expect all mature human platelets to contain a stacked Golgi apparatus, the central organelle of the secretory pathway. By thin section electron microscopy, stacked membranes resembling the stacked Golgi compartment in megakaryocytes and other nucleated cells can be detected in both proplatelets and platelets...
October 18, 2016: Platelets
Christopher S Medina, Octavian Biris, Tomas L Falzone, Xiaowei Zhang, Amber J Zimmerman, Elaine L Bearer
Microtubule-based motors carry cargo back and forth between the synaptic region and the cell body. Defects in axonal transport result in peripheral neuropathies, some of which are caused by mutations in KIF5A, a gene encoding one of the heavy chain isoforms of conventional kinesin-1. Some mutations in KIF5A also cause severe central nervous system defects in humans. While transport dynamics in the peripheral nervous system have been well characterized experimentally, transport in the central nervous system is less experimentally accessible and until now not well described...
October 14, 2016: NeuroImage
Ines Westphal, Claudia Jedelhauser, Gregor Liebsch, Arnd Wilhelmi, Attila Aszodi, Matthias Schieker
Bone tissue engineering (BTE) utilizing biomaterial scaffolds and human mesenchymal stem cells (hMSCs) is a promising approach for the treatment of bone defects. The quality of engineered tissue is crucially affected by numerous parameters including cell density and the oxygen supply. In this study, a novel oxygen-imaging sensor was introduced to monitor the oxygen distribution in three dimensional (3D) scaffolds in order to analyze a new cell-seeding strategy. Immortalized hMSCs, pre-cultured in a monolayer for 30-40% or 70-80% confluence, were used to seed demineralized bone matrix (DBM) scaffolds...
October 17, 2016: Biotechnology and Bioengineering
Amaal Abrahams, Nicolas Mouchet, Nicolas Gouault, Françoise Lohézic Le Dévéhat, Myriam Le Roch, Isabelle Rouaud, David Gilot, Marie-Dominique Galibert
The stress-activated p38α MAP Kinase is an integral and critical component of the UV-induced inflammatory response. Despite the advances in recent years in the development of p38 kinase inhibitors, validation of these compounds in the diseased models remains limited. Based on the pharmacological profile of p38α inhibitor lead compound, SB203580, we synthesized a series of pyrrole-derivatives. Using UV-irradiated human skin punch-biopsies and cell cultures, we identified and validated the inhibitory activity of the derivatives by quantitatively measuring their effect on the expression of p38α target genes using real-time PCR...
October 17, 2016: Photochemical & Photobiological Sciences
Christopher J Benjamin, Kyle J Wright, Scott C Bolton, Seok-Hee Hyun, Kyle Krynski, Mahima Grover, Guimei Yu, Fei Guo, Tamara L Kinzer-Ursem, Wen Jiang, David H Thompson
We report the fabrication of transmission electron microscopy (TEM) grids bearing graphene oxide (GO) sheets that have been modified with N(α), N(α)-dicarboxymethyllysine (NTA) and deactivating agents to block non-selective binding between GO-NTA sheets and non-target proteins. The resulting GO-NTA-coated grids with these improved antifouling properties were then used to isolate His6-T7 bacteriophage and His6-GroEL directly from cell lysates. To demonstrate the utility and simplified workflow enabled by these grids, we performed cryo-electron microscopy (cryo-EM) of His6-GroEL obtained from clarified E...
October 17, 2016: Scientific Reports
Allen Q Ye, Olusola A Ajilore, Giorgio Conte, Johnson GadElkarim, Galen Thomas-Ramos, Liang Zhan, Shaolin Yang, Anand Kumar, Richard L Magin, Angus G Forbes, Alex D Leow
This paper describes novel methods for constructing the intrinsic geometry of the human brain connectome using dimensionality-reduction techniques. We posit that the high-dimensional, complex geometry that represents this intrinsic topology can be mathematically embedded into lower dimensions using coupling patterns encoded in the corresponding brain connectivity graphs. We tested both linear and nonlinear dimensionality-reduction techniques using the diffusion-weighted structural connectome data acquired from a sample of healthy subjects...
December 2015: Brain Informatics
Ashish Phophalia, Suman K Mitra
In this paper, we have presented a two stage method, using Kernel Principal Componenet Analysis (KPCA) and Rough Set Theory (RST), for denoising volumetric MRI data. A Rough Set Theory (RST) based clustering technique has been used for voxel based processing. The method groups similar voxels (3D cubes) using class and edge information derived from noisy input. Each cluster thus formed now represented via basis vector. These vectors now projected into to kernel space and PCA is performed in the feature space...
October 13, 2016: Magnetic Resonance Imaging
Kerstin Mueller, Rebecca Fahrig, Michael Manhart, Yu Deuerling-Zheng, Jarrett Rosenberg, Teri Moore, Arundhuti Ganguly, Nishita Kothary
RATIONALE AND OBJECTIVES: Intra-procedural measurement of hepatic perfusion following liver embolization continues to be a challenge. Blood volume imaging before and after interventional procedures would allow identifying the treatment end point or even allow predicting treatment outcome. Recent liver oncology studies showed the feasibility of parenchymal blood volume (PBV) imaging using an angiographic C-arm system. This study was done to evaluate the reproducibility of PBV measurements using cone beam computed tomography (CBCT) before and after embolization of the liver in a swine model...
October 10, 2016: Academic Radiology
Angela Collarino, Sergi Vidal-Sicart, Germano Perotti, Renato A Valdés Olmos
This review discusses the state-of-the-art of sentinel lymph node mapping in gynaecological malignancies, including cervical cancer, endometrial cancer, and vulvar cancer, with an emphasis on new technological advances. For this objective, PubMed/MEDLINE was searched for relevant studies about the sentinel lymph node procedure in gynaecology. In particular, the use of preoperative lymphatic mapping with lymphoscintigraphy and single photon emission tomography/computed tomography (SPECT/CT) was identified in 18 studies...
2016: Clinical and Translational Imaging: Reviews in Nuclear Medicine and Molecular Imaging
Hadi Fayad, Holger Schmidt, Thomas Kuestner, Dimitris Visvikis
: Respiratory motion may reduce accuracy in fusion of functional and anatomical images using combined Positron emission tomography / Magnetic resonance (PET/MR) systems. Methodologies for the correction of respiratory motion in PET acquisitions using such systems are mostly based on the use of respiratory synchronized MR acquisitions to derive motion fields. Existing approaches based on tagging acquisitions may introduce artifacts in the MR images, while motion model approaches require the acquisition of training datasets...
October 13, 2016: Journal of Nuclear Medicine: Official Publication, Society of Nuclear Medicine
Bingbo Hou, Lihui Zheng, Guodong Niu, Lingmin Wu, Yu Qiao, Wei Sun, Ligang Ding, Gang Chen, Shu Zhang, Reginald Liew, Yan Yao
AIMS: This study was aimed to report the characteristics and treatment of ventricular tachycardia (VT) following surgical treatment of pulmonary stenosis with intact ventricular septum. METHODS AND RESULTS: Five patients underwent radiofrequency catheter ablation for sustained monomorphic left bundle branch block (LBBB) type VT who previously underwent surgical treatment of pulmonary stenosis. Except stimulation, voltage and activation mapping was performed using three-dimensional (3D) electro-anatomic mapping and ablation was applied accordingly...
October 12, 2016: Europace: European Pacing, Arrhythmias, and Cardiac Electrophysiology
Daniel Petras, Louis-Félix Nothias, Robert A Quinn, Theodore Alexandrov, Nuno Bandeira, Amina Bouslimani, Gabriel Castro-Falcón, Liangyu Chen, Tam Dang, Dimitrios J Floros, Vivian Y H Hook, Neha Garg, Nicole Hoffner, Yike Jiang, Clifford A Kapono, Irina Koester, Rob Knight, Christopher A Leber, Tiejun Ling, Tal Luzzatto-Knaan, Laura-Isobel McCall, Aaron Philip McGrath, Michael J Meehan, Jonathan K Merritt, Robert H Mills, Jamie Morton, Sonia Podvin, Ivan Protsyuk, Trevor Purdy, Kendall Satterfield, Stephen Searles, Sahil Shah, Sarah Shires, Dana Steffen, Margot White, Jelena Todoric, Robert Tuttle, Aneta Wojnicz, Valerie Sapp, Fernando Vargas, Jin Yang, Chao Zhang, Pieter C Dorrestein
The cars we drive, the homes we live in, the restaurants we visit, and the labs and offices we work in are all a part of the modern human habitat. Remarkably, little is known about the diversity of chemicals present in these environments and to what degree molecules from our bodies influence the built environment that surrounds us and vice versa. We therefore set out to visualize the chemical diversity of five built human habitats together with their occupants, to provide a snapshot of the various molecules to which humans are exposed on a daily basis...
October 12, 2016: Analytical Chemistry
Sumin Choi, Toan Trong Tran, Christopher Elbadawi, Charlene J Lobo, Xuewen Wang, Saulius Juodkazis, Gediminas Seniutinas, Milos Toth, Igor Aharonovich
Hexagonal boron nitride (hBN) is a wide bandgap van der Waals material that has recently emerged as promising platform for quantum photonics experiments. In this work we study the formation and localization of narrowband quantum emitters in large flakes (up to tens of microns wide) of hBN. The emitters can be activated in as-grown hBN by electron irradiation or high temperature annealing, and the emitter formation probability can be increased by ion implantation or focused laser irradiation of the as-grown material...
October 12, 2016: ACS Applied Materials & Interfaces
Kailiang Wang, Tinghong Liu, Xiaobin Zhao, XiaoTong Xia, Kai Zhang, Hui Qiao, Jianguo Zhang, Fangang Meng
INTRODUCTION: Fluorine-18-fluorodeoxyglucose positron-emission tomography ((18)F-FDG-PET) is widely used to help localize the hypometabolic epileptogenic focus for presurgical evaluation of drug-refractory epilepsy patients. Two voxel-based brain mapping methods to interpret (18)F-FDG-PET, statistical parametric mapping (SPM) and three-dimensional stereotactic surface projection (3D-SSP), improve the detection rate of seizure foci. This study aimed to compare the consistency of epileptic focus detection between SPM and 3D-SSP for (18)F-FDG-PET brain mapping analysis...
2016: Frontiers in Neurology
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