23 papers · ranked by Valyu relevance
Maximilian Haeussler, Kai Schönig, Hélène Eckert, Alexis Eschstruth + 8 more
'Joffrey Mianné' 'Jean-Baptiste Renaud' 'Sylvie Schneider-Maunoury' 'Alena Shkumatava' 'Lydia Teboul' 'Jim Kent' 'Jean-Stephane Joly' 'Jean-Paul Concordet'] Background The success of the CRISPR/Cas9 genome editing technique depends on the choice of the guide RNA sequence, which is facilitated by various websites.…
Jingyi Wei, Peter Lotfy, Kian Faizi, Sara Baungaard + 10 more
Transcriptome engineering technologies that can effectively and precisely perturb mammalian RNAs are needed to accelerate biological discovery and RNA therapeutics. However, the broad utility of programmable CRISPR-Cas13 ribonucleases has been hampered by an incomplete understanding of the design rules governing guide…
Yanying Yu, Sandra Gawlitt, Lisa Barros de Andrade e Sousa, Erinc Merdivan + 3 more
CRISPR interference (CRISPRi), the targeting of a catalytically dead Cas protein to block transcription, is the leading technique to silence gene expression in bacteria. Genome-scale CRISPRi essentiality screens provide one data source from which rules for guide design can be extracted. However, depletion confounds…
Yanying Yu, Sandra Gawlitt, Lisa Barros de Andrade e Sousa, Erinc Merdivan + 3 more
'Erinc Merdivan' 'Marie Piraud' 'Chase L. Beisel' 'Lars Barquist'] CRISPR interference (CRISPRi) is the leading technique to silence gene expression in bacteria; however, design rules remain poorly defined. We develop a best-in-class prediction algorithm for guide silencing efficiency by systematically investigating…
Belen Gutierrez, Jérôme Wong Ng, Lun Cui, Christophe Becavin + 1 more
The main outcome of efficient CRISPR-Cas9 cleavage in the chromosome of bacteria is cell death. This can be conveniently used to eliminate specific genotypes from a mixed population of bacteria, which can be achieved both in vitro, e.g. to select mutants, or in vivo as an antimicrobial strategy. The efficiency with…
Y K Yathu Krishna
The efficiency and specificity of guide RNAs continue to be crucial obstacles for successful experimental design, despite the fact that CRISPR/Cas9 has transformed genome editing. In this work, we introduce a computational method for optimizing CRISPR/Cas9 guide RNA that combines PAM diversity, local efficiency…
Md Thoufic Anam Azad, Umme Qulsum, Toshifumi Tsukahara, Ilka Heinemann
'Ilka Heinemann'] Adenosine deaminases acting on RNA (ADARs) have double-stranded RNA binding domains and a deaminase domain (DD). We used the MS2 system and specific guide RNAs to direct ADAR1-DD to target adenosines in the mRNA encoding-enhanced green fluorescence protein. Using this system in transfected HEK-293…
Thomas Burgold, Emre Karakoc, Emanuel Gonçalves, Lisa Dwane + 9 more
Pairwise perturbation of gene function using the CRISPR/Cas9 system has huge potential in screening for genetic interactions and synthetic lethal gene pairs to identify novel combination therapies for cancer. However, existing dual guide expression systems are cumbersome to clone, often result in a large proportion of…
Qian Xiao, Jiayang Li
Current emergency management research mainly specifies the positions of evacuation guides from a knowledge base of experience, disregarding the subjective perceived decision-making of pedestrians caught in an emergency situation. Therefore, in this paper, a fuzzy inference system for pedestrians to select guides is…
Aisha Ali, Ido Brintouch, Georgios Romanos, Rafael Delgado-Ruiz + 1 more
'Edgaras Stankevičius'] Background and Objectives: Surgical guides might impede the flow of coolant to the implant drills during the preparation of the implant bed, potentially contributing to increased temperatures during bone drilling. The objective of this experimental study was to assess the cooling efficiency of…
Shomik Verma, Daniel Farrell, Rachel Evans
Luminescent solar concentrators (LSCs) are a promising technology to help integrate solar cells into the built environment, as they are colorful, semi-transparent, and can collect diffuse light. While LSCs have traditionally been cuboidal, in recent years a variety of unconventional geometries have arisen, for example…
Adam Nulty
This is an extensive review of the literature on prosthetically designed implant planning with particular regard to the factors influencing dental implant success. Electronic searches on PubMed and the Cochrane Central Register of Controlled Trials and manual searches were performed. The author selected the studies…
Igor Lutsenko
Currently, there is quite a strange situation in the knowledge "market". A great number of publications consider efficiency as the "old good friend". At the same time, without the validation of the developed criterion, a reader is invited to use one or the other indicator as efficiency indicator. It resembles the…
Dean F Sittig, Trisha Flanagan, Patricia Sengstack, Rosann T Cholankeril + 6 more
Each of the 2014 SAFER Guides was envisioned as a stand-alone Guide that could be used by different groups within a healthcare organization to address known or potential EHR-related safety issues within the particular domain addressed by the Guide. Following CMS’s requirements that all hospitals must review all Guides…
Margaréta Halická, Mária Trnovská, Aleš Černý
The paper analyses properties of a large class of "path-based" Data Envelopment Analysis models through a unifying general scheme. The scheme includes the well-known oriented radial models, the hyperbolic distance function model, the directional distance function models, and even permits their generalisations. The…
Ami Marowka
Portability Authors: ['Ami Marowka'] Abstract. The emergence of heterogeneity in high-performance computing, which harnesses under one integrated system several platforms of different architectures, also led to the development of innovative crossplatform programming models. Along with the expectation that these models…
Mercedes Landete, Juan F. Monge, José L. Ruiz
In this paper we propose robust efficiency scores for the scenario in which the specification of the inputs/outputs to be included in the DEA model is modelled with a probability distribution. This probabilistic approach allows us to obtain three different robust efficiency scores: the Conditional Expected Score, the…
Zhimian Hao, Chonghuan Zhang, Alexei Lapkin
We propose a workflow for reduction in the time required for data generation during generation of statistical digital twins. This methodology is particularly relevant for real-world engineering problems when data generation is expensive. A prerequisite for building surrogates is sufficient input/output data, whereas…
Dariush Khezrimotlagh
Sufficient numbers of Decision Making Units (DMUs) in comparison with the number of input and output variables has been a concern of using Data Envelopment Analysis (DEA) in the last three decades. There are several studies in the literature of DEA which have tried to handle this issue by providing additional…
Mahmood Mehdiloozad, Mohammad Bagher Ahmadi, Biresh K. Sahoo
In data envelopment analysis (DEA), the concept of efficiency is examined in either Farrell (DEA) or Pareto senses. In either of these senses, the efficiency status of a decision making unit (DMU) is classified as either weak or strong. It is well established that the strong DEA efficiency is both necessary and…
Curtis Berlinguette, Nathaniel Gabor, Yogesh Surendranath
We offer here a “Refereeing Template” to guide a more constructive and systematic peer review process. This template provides the following algorithm for constructing a peer review: (i) list the key claims of the manuscript; (ii) determine if the data (and interpretations of the data) support said claims; and, only as…
Authors not listed
Bonkowski and De Souza [Sol. Stat. Ionics 429, 116967 (2025)] provide a guide for performing molecular dynamics simulations of ion transport, including methods for estimating diffusion coefficients and their uncertainties from mean-squared displacement (MSD) data. The discussion of uncertainty in estimated diffusion…
Authors not listed
Bayesian optimization (BO) has become increasingly important for experimental optimization across scientific domains, yet implementing BO pipelines requires significant programming expertise and familiarity with specialized frameworks. This creates a barrier for domain experts who could benefit from BO but lack the…