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Loss of structural specificity in 3D genome organization upon viral infection is predicted by polymer physics.
J Chem Phys
January 2025
Dipartimento di Fisica, Università degli Studi di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant'Angelo, 80126 Naples, Italy.
In the last years, it has been proved that some viruses are able to re-structure chromatin organization and alter the epigenomic landscape of the host genome. In addition, they are able to affect the physical mechanisms shaping chromatin 3D structure, with a consequent impact on gene activity. Here, we investigate with polymer physics genome re-organization of the host genome upon SARS-CoV-2 viral infection and how it can impact structural variability within the population of single-cell chromatin configurations.
View Article and Find Full Text PDFCognitive Control Network and Language Reorganization in Patients with Brain Tumors.
AJNR Am J Neuroradiol
December 2024
From the Department of Radiology, (Luca Pasquini), Yale New Haven Hospital, Yale Medical School, New Haven, CT, USA; Department of Radiology (Luca Pasquini, Mehrnaz Jenabi, Andrei I. Holodny), Memorial Sloan Kettering Cancer Center, New York, NY, USA; Department of Medical Physics (Antonio Napolitano, Leonardo Spitoni), Bambino Gesù Children's Hospital, Rome, Italy; Department of Engineering (Maurizio Schmid), University Roma Tre, Rome, Italy; Department of Radiology (Francesco Dellepiane) Bambino Gesù Children's Hospital, Rome, Italy; Department of Medical Physics (Kyung K. Peck), Memorial Sloan Kettering Cancer Center, New York, NY, USA; Department of Radiology (Andrei I. Holodny), Weill Medical College of Cornell University, New York, NY, USA; Department of Neuroscience (Andrei I. Holodny), Weill Cornell Graduate School of the Medical Sciences, New York, NY, USA.
Background And Purpose: The interaction between language and other cognitive networks in patients harboring brain tumors is poorly understood. We studied the modification of the cognitive control network (CCN) induced by brain tumors and its participation in language reorganization. We hypothesized that patients with brain tumors and reorganized language would show modification of the CCN compared to patients who remain left dominant.
View Article and Find Full Text PDFMethodology for the correction of a CBCT volume from the skull to the natural head position.
MethodsX
December 2024
Faculty of Engineering, Universidad Autónoma de Occidente, Cali, Colombia.
The orientation of the head during the acquisition of cone beam computed tomography (CBCT) is crucial for accurate cephalometric measurements. However, involuntary head movements during the scan can result in misaligned images. This study presents a method to correct the natural head position (NHP) in CBCT skull images after acquisition.
View Article and Find Full Text PDFLeveraging the Thermodynamics of Protein Conformations in Drug Discovery.
J Chem Inf Model
December 2024
Schrödinger Inc., 1540 Broadway, 24th Floor, New York, New York 10036-4041, United States.
As the name implies, structure-based drug design requires confidence in the holo complex structure. The ability to clarify which protein conformation to use when ambiguity arises would be incredibly useful. We present a large scale validation of the computational method Protein Reorganization Free Energy Perturbation (PReorg-FEP) and demonstrate its quantitative accuracy in selecting the correct protein conformation among candidate models in apo or ligand induced states for 14 different systems.
View Article and Find Full Text PDFCalcaneal lengthening osteotomy using ipsilateral fibular graft in the treatment of flexible flatfoot deformity: preliminary results.
Eur J Orthop Surg Traumatol
November 2024
Department of Orthopaedic Surgery, Kasr Al-Ainy Faculty of Medicine, Cairo University, Cairo, Egypt.
Purpose: Flexible flatfoot deformity is quite common among adolescents. This study aimed to report the preliminary results of calcaneal lengthening osteotomy using a fibular bone graft.
Methods: This single-center, retrospective study included 28 patients (28 feet) with symptomatic flexible flatfoot deformity.
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