Results 51 to 60 of about 428,274 (251)

Pydna: a simulation and documentation tool for DNA assembly strategies using python

BMC Bioinformatics, 2015
Recent advances in synthetic biology have provided tools to efficiently construct complex DNA molecules which are an important part of many molecular biology and biotechnology projects. The planning of such constructs has traditionally been done manually
Filipa Pereira, F. Azevedo, Ângela Carvalho, Gabriela F. Ribeiro, Mark W. Budde, B. Johansson   +5 more
semanticscholar   +1 more source

Knockout of the mitoribosome rescue factors Ict1 or Mtrfr is viable in zebrafish but not mice: compensatory mechanisms underlying each factor's loss

FEBS Open Bio, EarlyView.
Mitochondria contain two mitoribosome rescue factors, ICT1 and MTRFR (C12orf65). ICT1 also functions as a mitoribosomal protein in mice and humans, and its loss is lethal. Although Mtrfr knockout mice could not be generated, knockout zebrafish lines for ict1 and mtrfr were established.
Nobukazu Nameki, Chika Tomisawa, Soichiro Hoshino, Hidehiko Shimizu, Masashi Abe, Sho Arai, Kanako Kuwasako, Naoki Asakawa, Yusuke Inoue, Takuro Horii, Izuho Hatada, Masakatsu Watanabe   +11 more
wiley   +1 more source

Egglog Python: A Pythonic Library for E-graphs [PDF]

arXiv, 2023
E-graphs have emerged as a versatile data structure with applications in synthesis, optimization, and verification through techniques such as equality saturation. This paper introduces Python bindings for the experimental egglog library (previously called egg-smol), which aims to bring the benefits of e-graphs to the Python ecosystem.
arxiv  

EbbRT: Elastic Building Block Runtime - overview [PDF]

, 2015
EbbRT provides a lightweight runtime that enables the construction of reusable, low-level system software which can integrate with existing, general purpose systems. It achieves this by providing a library that can be linked into a process on an existing
Appavoo, Jonathan, Cadden, James, Dong, Han, Krieger, Orran, Schatzberg, Dan   +4 more
core   +1 more source

Automated rapidplan model validation using Eclipse scripting API

Journal of Applied Clinical Medical Physics, EarlyView.
Abstract RapidPlan offers efficiency gains and quality improvements in treatment planning. Prior to its use in the clinic, it requires an extensive validation procedure in which established clinical plans and those generated by the model are compared. The manual iterative nature of this process is resource intensive, as numerous iterations are required
Bradley Beeksma, Andrew Dipuglia, Joerg Lehmann   +2 more
wiley   +1 more source

PythonFOAM: In-situ data analyses with OpenFOAM and Python [PDF]

arXiv, 2021
We outline the development of a general-purpose Python-based data analysis tool for OpenFOAM. Our implementation relies on the construction of OpenFOAM applications that have bindings to data analysis libraries in Python. Double precision data in OpenFOAM is cast to a NumPy array using the NumPy C-API and Python modules may then be used for arbitrary ...
arxiv  

KMCLib: A general framework for lattice kinetic Monte Carlo (KMC) simulations

, 2014
KMCLib is a general framework for lattice kinetic Monte Carlo (KMC) simulations. The program can handle simulations of the diffusion and reaction of millions of particles in one, two, or three dimensions, and is designed to be easily extended and ...
Leetmaa, Mikael, Skorodumova, Natalia V.
core   +1 more source

Actionable Wearables Data for the Neurology Clinic: A Proof‐of‐Concept Tool

Annals of Clinical and Translational Neurology, EarlyView.
ABSTRACT Objective Wearable devices can monitor key health and fitness domains. In multiple sclerosis (MS), monitoring step count and sleep is feasible, valid, and offers a holistic glimpse of patient functioning and worsening. However, data generated from wearables are typically unavailable at the point of care.
Nicolette Miller, Ebenezer Chinedu‐Eneh, Jaeleene Wijangco, Kyra Henderson, Nikki Sisodia, Narender Sara, Jennifer Reihm, Shane Poole, Jim Rowson, Chu‐Yueh Guo, Jeffrey M. Gelfand, Valerie J. Block, Riley Bove   +12 more
wiley   +1 more source

PNet: A Python Library for Petri Net Modeling and Simulation [PDF]

Advances in Computer Science: an international journal 5(4): 24-30 (2016), 2023
Petri Net is a formalism to describe changes between 2 or more states across discrete time and has been used to model many systems. We present PNet - a pure Python library for Petri Net modeling and simulation in Python programming language. The design of PNet focuses on reducing the learning curve needed to define a Petri Net by using a text-based ...
arxiv  

Whole‐Blood RNA Sequencing Profiling of Patients With Rheumatoid Arthritis Treated With Tofacitinib

ACR Open Rheumatology, EarlyView.
Objective Patients with rheumatoid arthritis (RA) often fail to respond to therapies, including JAK inhibitors (JAKi), and treatment allocation is made via a trial‐and‐error strategy. A comprehensive analysis of responses to JAKi, including tofacitinib, by RNA sequencing (RNAseq) would allow the discovery of transcriptomic markers with a two‐fold ...
Chiara Bellocchi, Ennio Giulio Favalli, Gabriella Maioli, Elena Agape, Marzia Rossato, Matteo Paini, Adriana Severino, Barbara Vigone, Martina Biggioggero, Elena Trombetta, Roberto Caporali, Lorenzo Beretta   +11 more
wiley   +1 more source