15 Works

Snapshot space-time holographic three-dimensional particle tracking velocimetry: video

Ni Chen, Congli Wang & Wolfgang Heidrich
videos in the paper of "Snapshot space-time holographic three-dimensional particle tracking velocimetry"

Accelerating Geostatistical Modeling and Prediction With Mixed-Precision Computations: A High-Productivity Approach with PaRSEC

Sameh Abdulah, Qinglei Cao, Yu Pei, George Bosilca, Jack Dongarra, Marc G. Genton, David E. Keyes, Hatem Ltaief & Ying Sun
Geostatistical modeling, one of the prime motivating applications for exascale computing, is a technique for predicting desired quantities from geographically distributed data, based on statistical models and optimization of parameters. Spatial data is assumed to possess properties of stationarity or non-stationarity via a kernel fitted to a covariance matrix. A primary workhorse of stationary spatial statistics is Gaussian maximum log-likelihood estimation (MLE), whose central data structure is a dense, symmetric positive definite covariance matrix of...

Efficient manuscript writing in six steps

Stefan T. Arold
When it comes to manuscript writing, many students and junior scientists tend to face the same difficulties and make the same mistakes because they lack a structured approach and basic guidelines. This situation leads to a highly inefficient and frustrating process, where students spend much time producing an initial draft that has fundamental structural and stylistic flaws. The mentor then either needs to spend an equally excessive amount of time explaining all the mistakes to...

Breakdown of universality: Power-Law Transition of Drop-impact Crater Collapse

Zi Qiang Yang
WEP 2021 video competition: present your research in 90 seconds or less Z. Q. Yang, Y. S. Tian, and S. T. Thoroddsen, “Multitude of dimple shapes can produce singular jets during the collapse of immiscible drop-impact craters,” Journal of Fluid Mechanics, vol. 904, p. A19, 2020.

Using the IR as a Research Data Registry

Daryl M. Grenz, Eirini Mastoraki, Han Wang & Mohamed A. Baessa
As data and software become increasingly common research outputs, universities have an opportunity to expand their existing efforts to record affiliated publications so that they also capture information about research data releases. At KAUST we have taken several steps to put our repository on a path towards becoming a reliable registry for information about the existence and location of research data released by affiliated researchers. These included developing a process to retrospectively retrieve and register...

DMAP Intro. How to view metagenomic data in DMAP

Intikhab Alam
Dragon Metagenomic Analysis Platform (DMAP) available at http://www.cbrc.kaust.edu.sa/dmap allows annotation and comparison of metagenomic data sets. In this Introductory video screencasts we show how to use DMAP to explore metagenomic data sets provided in DMAP.

ORCID, DSpace and the KAUST Approach

Daryl M. Grenz
Introduction to the current state of ORCID integration in DSpace and the KAUST approach of developing an intermediary application called the Institutional ORCID Integration (IOI). Also shows how the code can be configured for use by institutions that are not ORCID members.

MosTI single-copy transgene insertion in C. elegans using constitutive Cas9 expression

Sonia El Mouridi & Christian Frøkjær-Jensen
Transgene expression in C. elegans is an important tool for understanding regulatory elements (e.g., promoters and enhancers), for controlling cells using optogenetic effector proteins, and for editing the (epi)genome. Insertion of single-copy transgenes into well-defined safe-harbor locations can be used when consistent expression is required (e.g., to compare expression from different transgenes) or when expression is required in germ cells. Here, we describe a detailed protocol for inserting single-copy transgenes using Modular Safe-harbor Transgene Insertion...

BEOL NEM Relay-Based Inductorless DC-DC Converters

Ren Li, Dias Azhigulov, Ahmed Allehyani & Hossein Fariborzi
BEOL NEM Relay-Based Inductorless DC-DC Converters Ren Li, Dias Azhigulov, Ahmed Allehyani, and Hossein Fariborzi Introduction •The voltage level requirement varies across the integrated circuit chip. Therefore, on-chip voltageconversions are crucial for anychip to be operational. •This work proposes a novel solution for voltage regulation using Back-End-Of-Line (BEOL)NEM relays. •The proposed Buck and Boost converters offer low voltage ripple, high conversion efficiency and low area overhead. Relay and its Operation •The relay is actuated electrostatically...

Machine Learning MATLAB Labs

Gerard Schuster

Efficient manuscript writing in six steps

Stefan T. Arold
When it comes to manuscript writing, many students and junior scientists tend to face the same difficulties and make the same mistakes because they lack a structured approach and basic guidelines. This situation leads to a highly inefficient and frustrating process, where students spend much time producing an initial draft that has fundamental structural and stylistic flaws. The mentor then either needs to spend an equally excessive amount of time explaining all the mistakes to...

Simulating the Unstructured Mesh Deformation of Moving SARS-CoV-2 Virus Bodies

Youssef Mesri, Wael Bader, Rabab Alomairy, Hatem Ltaief & David E. Keyes
Simulation of fluid-structure interactions involving moving 3D bodies requires computation of large mesh deformations. The Radial Basis Function (RBF) technique is an interpolation method that produces high-quality unstructured adaptive meshes. We model the 3D mesh deformation and simulate the effect of hydrodynamics on a population of the novel coronaviruses (i.e., SARS-CoV-2) with realistic geometries. These videos show the 3D unstructured mesh deformation around moving SARS-CoV-2 virus bodies over successive time steps. Computing the 3D mesh...

Workshop: Creating Your Institutional Research Repository

Daryl M. Grenz & Mohamed A. Baessa
In 2002, the Scholarly Publishing and Academic Resources Coalition (SPARC) proposed the concept of an institutional repository to simultaneously disrupt and enhance the state of scholarly communications in the academic world. Thirteen years later, thousands of universities and other institutions have answered this call, but many more have not due to gaps in budgets, awareness and, most of all, practical guidance on creating an institutional repository. This workshop provides you with an essential primer on...

Protocol: MosTI single-copy transgene insertion in C. elegans using heat-shock inducible Cas9 expression

Sonia El Mouridi & Christian Frøkjær-Jensen
Precise expression of transgenes in C. elegans can be used to understand gene regulation, control cells, or as a starting point for genetic screens. Insertion of single-copy transgenes into well-defined safe-harbor locations is useful when a consistent expression levels are required (e.g., to compare expression from different transgenes) or when expression is desired in germ cells. Here, we describe a detailed protocol for inserting single-copy transgenes using Modular Safe-harbor Transgene Insertion (MosTI) and a heat-shock...

Protocol for the continuous generation of single-copy MosTI insertions in C. elegans from a multiplex mix.

Sonia El Mouridi & Christian Frøkjær-Jensen
Precise expression of transgenes in C. elegans can be used to understand gene regulation, control cells, or as a starting point for genetic screens. Inserting singlecopy transgenes into well-defined safe-harbor locations is useful when consistent expression levels are required (e.g., to compare expression from different transgenes) or when expression is desired in germ cells. Here, we describe a detailed protocol for the simultaneous injection of several different plasmids ("multiplex mix"). Heat-shock inducible Cas9 expression allows...

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  • King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia
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