Browsing by Subject "Rotation"
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Item Open Access A depth aftereffect caused by viewing a rotating Ames window.(Perception, 1982-01) Rubin, DCAfter a rotating Ames window has been viewed, a normal test window held diagonal to the subject's line of sight appears to be distorted, having a larger back than front. The effect does not occur if a normal window is rotated or if the test window is held perpendicular to the subject's line of sight.Item Open Access A kinesin motor in a force-producing conformation.(BMC Struct Biol, 2010-07-05) Heuston, Elisabeth; Bronner, C Eric; Kull, F Jon; Endow, Sharyn ABACKGROUND: Kinesin motors hydrolyze ATP to produce force and move along microtubules, converting chemical energy into work by a mechanism that is only poorly understood. Key transitions and intermediate states in the process are still structurally uncharacterized, and remain outstanding questions in the field. Perturbing the motor by introducing point mutations could stabilize transitional or unstable states, providing critical information about these rarer states. RESULTS: Here we show that mutation of a single residue in the kinesin-14 Ncd causes the motor to release ADP and hydrolyze ATP faster than wild type, but move more slowly along microtubules in gliding assays, uncoupling nucleotide hydrolysis from force generation. A crystal structure of the motor shows a large rotation of the stalk, a conformation representing a force-producing stroke of Ncd. Three C-terminal residues of Ncd, visible for the first time, interact with the central beta-sheet and dock onto the motor core, forming a structure resembling the kinesin-1 neck linker, which has been proposed to be the primary force-generating mechanical element of kinesin-1. CONCLUSIONS: Force generation by minus-end Ncd involves docking of the C-terminus, which forms a structure resembling the kinesin-1 neck linker. The mechanism by which the plus- and minus-end motors produce force to move to opposite ends of the microtubule appears to involve the same conformational changes, but distinct structural linkers. Unstable ADP binding may destabilize the motor-ADP state, triggering Ncd stalk rotation and C-terminus docking, producing a working stroke of the motor.Item Open Access Increased proximal vertebral rotation is associated with shoulder imbalance after posterior spinal fusion for severe adolescent idiopathic scoliosis.(Spine deformity, 2022-09) Machida, Masayoshi; Rocos, Brett; Lebel, David E; Zeller, ReinhardPurpose
Residual shoulder imbalance is associated with suboptimal outcomes following the surgical correction of adolescent idiopathic scoliosis (AIS) including poor patient satisfaction. In this retrospective study, we evaluate the radiographic parameters and the relationship between the global and local indices of spinal alignment with shoulder balance pre- and postoperatively utilizing EOS imaging and 3D reconstruction.Methods
A retrospective radiographic analysis was performed on patients with AIS, treated with posterior spinal fusion. Postoperative radiographs were obtained immediately following surgery, at 6 months and final follow-up over 2 years postoperatively. 3D Radiographic measurements included in the coronal plane radiographic shoulder height difference (RSHD), proximal thoracic Cobb angle (PT) and main thoracic Cobb (MT), in the sagittal plane T4-T12 kyphosis, T12-L5 lordosis, in the axial plane proximal thoracic (PT AVR) and main thoracic apical vertebral rotation (MT AVR).Results
Sixty-six patients were included (63 females) with an average main thoracic curvature of 76 degrees. RSHD averaged 14 mm ± 14 preoperatively, -15 mm ± 12 postoperatively, -8.5 mm ± 11 at 6 months, and -8.3 mm ± 8.7 at final follow-up, respectively. Statistical analysis revealed a significant correlation between RSHD and proximal thoracic Cobb angle, between RSHD and proximal thoracic apical vertebral rotation (PTAVR) (r > 0.20, p < 0.05).Conclusion
The significant correlation presented in this study suggests that PT Cobb angle and PT AVR are involved in postoperative shoulder imbalance.The level of evidence
Level 4.Item Open Access Real-time B0 compensation during gantry rotation in a 0.35-T MRI-Linac.(Medical physics, 2022-10) Curcuru, Austen N; Kim, Taeho; Yang, Deshan; Gach, H MichaelBackground
Rotation of the ferromagnetic gantry of a low magnetic field MRI-Linac was previously demonstrated to cause large center frequency offsets of ±400 Hz. The B0 off-resonances cause image artifacts and imaging isocenter shifts that would preclude MRI-guided arc therapy.Purpose
The purpose of this study was to measure and compensate for center frequency offsets in real time during gantry rotation on a 0.35-T MRI-Linac using a free induction decay (FID) navigator.Methods
A nonselective FID navigator was added before each 2D balanced steady-state free precession cine image acquisition on a 0.35-T MRI-Linac. Images were acquired at 7.3 frames per second. Phase data from the initial FID navigator (while the gantry was stationary) was used as a reference. The phase data from each subsequent FID navigator was used to calculate the real-time B0 off-resonance. The transmitter/receiver phase and the phase accrual over the adjacent image acquisition were adjusted to correct for the center frequency offset. Measurements were performed using an MRI-Linac dynamic phantom prior to and while the gantry rotated clockwise and counterclockwise. Image quality and signal-to-noise ratio (SNR) were compared between uncorrected and B0 -corrected MRIs using a reference image acquired while the gantry was stationary. Four targets in the phantom were manually contoured on the first image frame, and an active contouring algorithm was used retrospectively on each subsequent frame to assess image variations and calculate Dice coefficients. Additionally, three healthy volunteers were imaged using the same pulse sequences with and without real-time B0 compensation during gantry rotation. Normalized root mean square errors (nRMSEs) were calculated for the phantom and in vivo to assess the efficacy of the B0 compensation on image quality. The measured center frequency offsets from the volunteer and MRI dynamic phantom navigator data were also compared. The sinusoidal behavior of the center frequency offsets was modeled based on the gantry layout and long-time constant eddy currents resulting from gantry rotation.Results
The duration of the FID navigator and processing was 4.5 ms. The FID navigator resulted in a ≤11% drop in SNR in the phantom and in vivo (liver). Dice coefficients from the MRI-guided radiation therapy (MR-IGRT) phantom contour measurements remained above 0.8 with B0 compensation. Without B0 compensation, the Dice coefficients dropped below 0.8 for up to 21% of the time depending on the contour. Real-time B0 compensation resulted in mean reductions in nRMSE of 51% and 16% for the MR-IGRT phantom and in vivo, respectively. Peak-to-peak center frequency offsets ranged from 757 to 773 Hz in the phantom and 760 to 871 Hz in vivo.Conclusion
Dynamic real-time B0 compensation significantly improved image quality and reduced artifacts during gantry rotation in the phantom and in vivo. However, the FID navigator resulted in a small drop in the imaging duty cycle and SNR.Item Open Access Torsional behavior of chromatin is modulated by rotational phasing of nucleosomes.(Nucleic Acids Res, 2014-09) Nam, Gi-Moon; Arya, GauravTorsionally stressed DNA plays a critical role in genome organization and regulation. While the effects of torsional stresses on naked DNA have been well studied, little is known about how these stresses propagate within chromatin and affect its organization. Here we investigate the torsional behavior of nucleosome arrays by means of Brownian dynamics simulations of a coarse-grained model of chromatin. Our simulations reveal a strong dependence of the torsional response on the rotational phase angle Ψ0 between adjacent nucleosomes. Extreme values of Ψ0 lead to asymmetric, bell-shaped extension-rotation profiles with sharp maxima shifted toward positive or negative rotations, depending on the sign of Ψ0, and to fast, irregular propagation of DNA twist. In contrast, moderate Ψ0 yield more symmetric profiles with broad maxima and slow, uniform propagation of twist. The observed behavior is shown to arise from an interplay between nucleosomal transitions into states with crossed and open linker DNAs and global supercoiling of arrays into left- and right-handed coils, where Ψ0 serves to modulate the energy landscape of nucleosomal states. Our results also explain the torsional resilience of chromatin, reconcile differences between experimentally measured extension-rotation profiles, and suggest a role of torsional stresses in regulating chromatin assembly and organization.