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https://www.readbyqxmd.com/read/29149686/preliminary-application-of-structure-from-motion-and-gis-to-document-decomposition-and-taphonomic-processes
#1
Connor D Carlton, Samantha Mitchell, Patrick Lewis
Over the past decade, Structure from Motion (SfM) has increasingly been used as a means of digital preservation and for documenting archaeological excavations, architecture, and cultural material. However, few studies have tapped the potential of using SfM to document and analyze taphonomic processes affecting burials for forensic sciences purposes. This project utilizes SfM models to elucidate specific post-depositional events that affected a series of three human cadavers deposited at the South East Texas Applied Forensic Science Facility (STAFS)...
November 2, 2017: Forensic Science International
https://www.readbyqxmd.com/read/29149264/sim3c-simulation-of-hi-c-and-meta3c-proximity-ligation-sequencing-technologies
#2
Matthew Z DeMaere, Aaron E Darling
Background: Chromosome conformation capture (3C) and Hi-C DNA sequencing methods have rapidly advanced our understanding of the spatial organization of genomes and metagenomes. Many variants of these protocols have been developed, each with their own strengths. Currently there is no systematic means for simulating sequence data from this family of sequencing protocols, potentially hindering the advancement of algorithms to exploit this new datatype. Findings: We describe a computational simulator that, given simple parameters and reference genome sequences, will simulate Hi-C sequencing on those sequences...
November 15, 2017: GigaScience
https://www.readbyqxmd.com/read/29149090/computational-methods-for-modeling-aptamers-and-designing-riboswitches
#3
REVIEW
Sha Gong, Yanli Wang, Zhen Wang, Wenbing Zhang
Riboswitches, which are located within certain noncoding RNA region perform functions as genetic "switches", regulating when and where genes are expressed in response to certain ligands. Understanding the numerous functions of riboswitches requires computation models to predict structures and structural changes of the aptamer domains. Although aptamers often form a complex structure, computational approaches, such as RNAComposer and Rosetta, have already been applied to model the tertiary (three-dimensional (3D)) structure for several aptamers...
November 17, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29148785/rapid-quantitative-measurements-of-paramagnetic-relaxation-enhancements-in-cu-ii-tagged-proteins-by-proton-detected-solid-state-nmr-spectroscopy
#4
Dwaipayan Mukhopadhyay, Philippe S Nadaud, Matthew D Shannon, Christopher P Jaroniec
We demonstrate rapid quantitative measurements of site-resolved paramagnetic relaxation enhancements (PREs), which are a source of valuable structural restraints corresponding to electron-nucleus distances in the ~10-20 Å regime, in solid-state nuclear magnetic resonance (NMR) spectra of proteins containing covalent Cu(2+)-binding tags. Specifically, using protein GB1 K28C-EDTA-Cu(2+) mutant as a model, we show the determination of backbone amide (15)N longitudinal and (1)H transverse PREs within a few hours of experiment time based on proton-detected 2D or 3D correlation spectra recorded with magic-angle spinning frequencies ≥ ~60 kHz for samples containing ~10-50 nanomoles of (2)H,(13)C,(15)N-labeled protein back-exchanged in H2O...
November 17, 2017: Journal of Physical Chemistry Letters
https://www.readbyqxmd.com/read/29148696/the-epidermal-penetration-of-gold-nanoparticles-and-its-underlying-mechanism-based-on-human-reconstructed-3d-episkin-tm-model
#5
Fang Hao, Xiaoting Jin, Qian S Liu, Qunfang Zhou, Guibin Jiang
Nanomaterials are widely used in diverse aspects and their translocation behavior through the skin would be helpful in understanding the corresponding exposure risks. To reveal how surface functionalization of nanoparticles influence the skin penetration, three kinds of gold nanoparticles (GNPs) with negatively, neutrally and positively charged surfaces, i.e. cetyltrimethyl ammonium bromide-coated GNPs (CTAB@GNP), polyvinyl pyrrolidone-coated GNPs (PVP@GNP), and citrate-coated GNPs (Citrate@GNP), were studied using human reconstructed 3D EpiskinTM model...
November 17, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29148617/microfibers-as-physiologically-relevant-platforms-for-creation-of-3d-cell-cultures
#6
REVIEW
Marilyn C McNamara, Farrokh Sharifi, Alex H Wrede, Daniel F Kimlinger, Deepak-George Thomas, Jonathan B Vander Wiel, Yuanfen Chen, Reza Montazami, Nicole N Hashemi
Microfibers have received much attention due to their promise for creating flexible and highly relevant tissue models for use in biomedical applications such as 3D cell culture, tissue modeling, and clinical treatments. A generated tissue or implanted material should mimic the natural microenvironment in terms of structural and mechanical properties as well as cell adhesion, differentiation, and growth rate. Therefore, the mechanical and biological properties of the fibers are of importance. This paper briefly introduces common fiber fabrication approaches, provides examples of polymers used in biomedical applications, and then reviews the methods applied to modify the mechanical and biological properties of fibers fabricated using different approaches for creating a highly controlled microenvironment for cell culturing...
November 17, 2017: Macromolecular Bioscience
https://www.readbyqxmd.com/read/29148586/a-dynamic-ultrasound-simulation-of-a-pulsating-three-layered-cca-for-validation-of-2d-wall-motion-and-blood-velocity-estimation-algorithms
#7
Xiao Hu, Yufeng Zhang, Guanghui Cai, Kexin Zhang, Li Deng, Lian Gao, Suya Han, Jianhua Chen
PURPOSE: A dynamic ultrasound simulation model for the common carotid artery (CCA) with three arterial layers for validation of 2D wall motion and blood velocity estimation algorithms is proposed in present study. This model describes layers with not only characteristics of echo distributions conforming to clinical ones, but also varying thicknesses, axial and radial displacements with pulsatile blood pressure during a cardiac cycle. METHODS: The modeling process is as follows: first, a geometrical model according with the clinical structure size of a CCA is built based on the preset layer thicknesses and the diameter of lumen...
November 17, 2017: Medical Physics
https://www.readbyqxmd.com/read/29148138/artificial-walking-technologies-to-improve-gait-in-cerebral-palsy-multichannel-neuromuscular-stimulation
#8
Jessica Rose, Katelyn Cahill-Rowley, Erin E Butler
Cerebral palsy (CP) is the most common childhood motor disability and often results in debilitating walking abnormalities, such as flexed-knee and stiff-knee gait. Current medical and surgical treatments are only partially effective in improving gait abnormalities and may cause significant muscle weakness. However, emerging artificial walking technologies, such as step-initiated, multichannel neuromuscular electrical stimulation (NMES), can substantially improve gait patterns and promote muscle strength in children with spastic CP...
November 2017: Artificial Organs
https://www.readbyqxmd.com/read/29148121/position-accuracy-of-implant-analogs-on-3d-printed-polymer-versus-conventional-dental-stone-casts-measured-using-a-coordinate-measuring-machine
#9
Marta Revilla-León, Óscar Gonzalez-Martín, Javier Pérez López, José Luis Sánchez-Rubio, Mutlu Özcan
PURPOSE: To compare the accuracy of implant analog positions on complete edentulous maxillary casts made of either dental stone or additive manufactured polymers using a coordinate measuring machine (CMM). MATERIAL AND METHODS: A completely edentulous maxillary model of a patient with 7 implant analogs was obtained. From this model, two types of casts were duplicated, namely conventional dental stone (CDS) using a custom tray impression technique after splinting (N = 5) and polymer cast using additive manufacturing based on the STL file generated...
November 17, 2017: Journal of Prosthodontics: Official Journal of the American College of Prosthodontists
https://www.readbyqxmd.com/read/29148064/a-validation-study-of-the-langley-et-al-2017-decision-tree-model-for-sex-estimation
#10
Heather M Garvin, Alexandra R Klales
Langley et al. (2017) developed a sex estimation decision tree utilizing two traditional cranial traits (glabella and mastoid) and a new trait: zygomatic extension. This study aimed to test the reliability of their zygomatic extension scoring method and validate their sex estimation method. Ordinal score data were collected from 281 male and female U.S. White and Black individuals. The five traditional cranial traits were collected from physical specimens, while zygomatic extension was scored from 3D cranial models...
November 17, 2017: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/29148039/3d-analysis-of-sexual-dimorphism-in-size-shape-and-breathing-kinematics-of-human-lungs
#11
Nicole Torres-Tamayo, Daniel García-Martínez, Stephanie Lois Zlolniski, Isabel Torres-Sánchez, Francisco García-Río, Markus Bastir
Sexual dimorphism in the human respiratory system has been previously reported at the skeletal (cranial and thoracic) level, but also at the pulmonary level. Regarding lungs, foregoing studies have yielded sex-related differences in pulmonary size as well as lung shape details, but different methodological approaches have led to discrepant results on differences in respiratory patterns between males and females. The purpose of this study is to analyse sexual dimorphism in human lungs during forced respiration using 3D geometric morphometrics...
November 17, 2017: Journal of Anatomy
https://www.readbyqxmd.com/read/29148013/vitom%C3%A2-3d-system-in-surgeon-microsurgical-vascular-training-our-model-and-experience
#12
Vincenzo Davide Palumbo, Salvatore Fazzotta, Giuseppe Damiano, Attilio Ignazio Lo Monte
No abstract text is available yet for this article.
November 11, 2017: Journal of Vascular Access
https://www.readbyqxmd.com/read/29147824/an-integrated-qsar-modeling-approach-to-explore-the-structure-property-and-selectivity-relationships-of-n-benzoyl-l-biphenylalanines-as-integrin-antagonists
#13
Sk Abdul Amin, Nilanjan Adhikari, Sonam Bhargava, Shovanlal Gayen, Tarun Jha
Integrins [Formula: see text] and [Formula: see text] are important targets to treat different inflammatory diseases, such as multiple sclerosis, inflammatory bowel diseases, rheumatoid arthritis, atherosclerosis, and asthma. Despite being valuable targets, only a few work has been reported to date regarding molecular modeling studies on these integrins. Not only that, none of these reports addressed the selectivity issue between integrins [Formula: see text] and [Formula: see text]. Therefore, a major challenge regarding the design and discovery of selective integrin antagonists remains...
November 17, 2017: Molecular Diversity
https://www.readbyqxmd.com/read/29147717/the-role-of-hierarchical-design-and-morphology-in-the-mechanical-response-of-diatom-inspired-structures-via-simulation
#14
Alejandro Gutiérrez, Metin G Guney, Gary K Fedder, Lilian P Dávila
Diatoms are microscopic algae with intricate shell morphologies and features ranging from the nanometer to the micrometer scale, which have been proposed as templates for drug delivery carriers, optical devices, and metamaterials design. Several studies have found that diatom shells show unique mechanical properties such as high specific strength and resilience. One hypothesis is that these properties stem from the structural arrangement of the material at the nanometer and micrometer length scales, challenging the concept between what constitutes a "material" versus a "structure"...
November 17, 2017: Biomaterials Science
https://www.readbyqxmd.com/read/29147714/stable-na-plating-stripping-electrochemistry-realized-by-a-3d-cu-current-collector-with-thin-nanowires
#15
Yanying Lu, Qiu Zhang, Mo Han, Jun Chen
Current collectors have a significant role in Na plating and stripping. Here we demonstrate that a three-dimensional (3D) Cu current collector with thin nanowires (<40 nm) can significantly promote the electrochemical deposition stability of Na via tuning a Na metal plating model, therefore contributing to a high efficiency, long lifespan, and low overpotential during electrode/battery cycling.
November 17, 2017: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/29147132/numerical-investigation-of-pulse-wave-propagation-in-arteries-using-fluid-structure-interaction-capabilities
#16
Hisham Elkenani, Essam Al-Bahkali, Mhamed Souli
The aim of this study is to present a reliable computational scheme to serve in pulse wave velocity (PWV) assessment in large arteries. Clinicians considered it as an indication of human blood vessels' stiffness. The simulation of PWV was conducted using a 3D elastic tube representing an artery. The constitutive material model specific for vascular applications was applied to the tube material. The fluid was defined with an equation of state representing the blood material. The onset of a velocity pulse was applied at the tube inlet to produce wave propagation...
2017: Computational and Mathematical Methods in Medicine
https://www.readbyqxmd.com/read/29147015/structure-of-flgk-reveals-the-divergence-of-the-bacterial-hook-filament-junction-of-campylobacter
#17
Paula V Bulieris, Nausad H Shaikh, Peter L Freddolino, Fadel A Samatey
Evolution of a nano-machine consisting of multiple parts, each with a specific function, is a complex process. A change in one part should eventually result in changes in other parts, if the overall function is to be conserved. In bacterial flagella, the filament and the hook have distinct functions and their respective proteins, FliC and FlgE, have different three-dimensional structures. The filament functions as a helical propeller and the hook as a flexible universal joint. Two proteins, FlgK and FlgL, assure a smooth connectivity between the hook and the filament...
November 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29146240/channelled-tablets-an-innovative-approach-to-accelerating-drug-release-from-3d-printed-tablets
#18
Muzna Sadia, Basel Arafat, Waqar Ahmed, Robert E Forbes, Mohamed A Alhnan
Conventional immediate release dosage forms involve compressing the powder with a disintegrating agent that enables rapid disintegration and dissolution upon oral ingestion. Among 3D printing technologies, the fused deposition modelling (FDM) 3D printing technique has considerable potential for patient-specific dosage form. However, the use of FDM 3D printing in tablet manufacturing requires large portion of polymer, which slows down drug release through erosion and diffusion mechanisms. In this study, we demonstrate for the first time the use of a novel design approach of caplets with perforating channels to accelerate drug release from 3D printed tablets...
November 13, 2017: Journal of Controlled Release: Official Journal of the Controlled Release Society
https://www.readbyqxmd.com/read/29145830/differences-in-vertebral-morphology-around-the-apical-vertebrae-between-neuromuscular-scoliosis-and-idiopathic-scoliosis-in-skeletally-immature-patients-a-three-dimensional-morphometric-analysis
#19
Takahiro Makino, Yusuke Sakai, Masafumi Kashii, Shota Takenaka, Kazuomi Sugamoto, Hideki Yoshikawa, Takashi Kaito
BACKGROUND: Recent morphological analyses of vertebrae in patients with scoliosis have revealed three-dimensional (3D) deformities in the vertebral bodies. However, it remains controversial whether these deformities are secondary changes caused by asymmetrical vertebral loading or primary changes caused by aberrant asymmetrical vertebral growth. Furthermore, the difference in vertebral morphology between scoliosis with different pathogeneses remains unclear. This study was aimed to investigate the difference in the coronal asymmetry of vertebral bodies between neuromuscular scoliosis (NS) in Duchenne muscular dystrophy (DMD) and idiopathic scoliosis (IS) using in vivo 3D analysis...
November 16, 2017: BMC Musculoskeletal Disorders
https://www.readbyqxmd.com/read/29145725/effectiveness-of-3d-printed-models-in-obtaining-informed-consent-to-complex-aortic-surgery-in-25-patients
#20
Enrico M Marone, Luigi F Rinaldi, Andrea Pietrabissa, Angelo Argenteri
No abstract text is available yet for this article.
November 16, 2017: Journal of Cardiovascular Surgery
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