Generic repeat finder: a high-sensitivity tool for genome-wide de novo repeat detection

J Shi, C Liang - Plant physiology, 2019 - academic.oup.com
Comprehensive and accurate annotation of the repeatome, including transposons, is critical
for deepening our understanding of repeat origins, biogenesis, regulatory mechanisms, and …

Multiscale estimation of binding kinetics using Brownian dynamics, molecular dynamics and milestoning

LW Votapka, RE Amaro - PLoS computational biology, 2015 - journals.plos.org
The kinetic rate constants of binding were estimated for four biochemically relevant
molecular systems by a method that uses milestoning theory to combine Brownian dynamics …

Cost utility analysis of the cervical artificial disc vs fusion for the treatment of 2-level symptomatic degenerative disc disease: 5-year follow-up

JD Ament, Z Yang, P Nunley, MB Stone, D Lee… - …, 2016 - journals.lww.com
BACKGROUND: The cervical total disc replacement (cTDR) was developed to treat cervical
degenerative disc disease while preserving motion. OBJECTIVE: Cost-effectiveness of this …

PopShift: A thermodynamically sound approach to estimate binding free energies by accounting for ligand-induced population shifts from a ligand-free MSM

LG Smith, B Novak, M Osato, DL Mobley… - Biophysical Journal, 2024 - cell.com
1Department of Biochemistry and Biophysics, University of Pennsylvania, Philadelphia, PA,
USA, 2Department of Biochemistry and Biophysics, Washington University in St. Louis, St …

[HTML][HTML] Cost-effectiveness of IGRA/QFT-Plus for TB screening of migrants in Oman

S Al Abri, A Kowada, F Yaqoubi, S Al Khalili… - International Journal of …, 2020 - Elsevier
Objective To estimate the cost of a screening program for identifying latent tuberculosis (TB)
infections in migrants to Oman. Methods A Markov model was used to estimate the cost of …

[HTML][HTML] Image encryption scheme based on multiscale block compressed sensing and Markov model

Y Shi, Y Hu, B Wang - Entropy, 2021 - mdpi.com
Many image encryption schemes based on compressed sensing have the problem of poor
quality of decrypted images. To deal with this problem, this paper develops an image …

Thermodynamics, morphology, and kinetics of early-stage self-assembly of π-conjugated oligopeptides

BA Thurston, JD Tovar, AL Ferguson - Molecular Simulation, 2016 - Taylor & Francis
Synthetic oligopeptides containing-conjugated cores self-assemble novel materials with
attractive electronic and photophysical properties. All-atom, explicit solvent molecular …

Information flow and catalytic dyad in SARS-CoV2 main protease Mpro enzyme using embedded discrete Markov chains and centrality measures

LA Olivares-Quiroz - Journal of Complex Networks, 2024 - academic.oup.com
In this work, we use a network representation of the globular crystalline structure of a given
protein as a graph structure with N nodes and E edges in order to analyze quantitatively the …

Health Impact Assessment for second-hand smoke exposure in Germany—quantifying estimates for ischaemic heart diseases, COPD, and stroke

F Fischer, A Kraemer - … journal of environmental research and public …, 2016 - mdpi.com
Evidence of the adverse health effects attributable to second-hand smoke (SHS) exposure is
available. This study aims to quantify the impact of SHS exposure on ischaemic heart …

[PDF][PDF] Analysis of Risk of Death due to COVID-19 in Cameroon

SW Youdom, HEZ Tonnang - oap-onlinejournals.org
Methods A susceptible-infected-recovered-dead (SIRD)-like model coupled with a discrete
time-dependent Markov chain was applied to predict COVID-19 distribution and assess the …