scholarly journals Rapid formation of size-controllable multicellular spheroids via 3D acoustic tweezers

Lab on a Chip ◽  
2016 ◽  
Vol 16 (14) ◽  
pp. 2636-2643 ◽  
Author(s):  
Kejie Chen ◽  
Mengxi Wu ◽  
Feng Guo ◽  
Peng Li ◽  
Chung Yu Chan ◽  
...  
Keyword(s):  
High Throughput ◽  
Potential Field ◽  
Multicellular Spheroids ◽  
Rapid Formation ◽  
Acoustic Tweezers ◽  
High Throughput Manner

A 3D acoustic tweezers platform is developed to fabricate size-controllable multicellular spheroids in a rapid and high-throughput manner, utilizing the acoustic Gor'kov potential field and microstreaming.

Kinetic Solvent Effects in Organic Reactions

2017 ◽  
Author(s):  
Belinda Slakman ◽  
Richard West
Keyword(s):  
Solvent Effect ◽  
Reaction Kinetics ◽  
Computational Methods ◽  
High Throughput ◽  
Kinetic Modeling ◽  
Solvent Effects ◽  
Reaction Rates ◽  
Prior Work ◽  
Solvent Phase ◽  
High Throughput Manner

<div> <div> <div> <p>This article reviews prior work studying reaction kinetics in solution, with the goal of using this information to improve detailed kinetic modeling in the solvent phase. Both experimental and computational methods for calculating reaction rates in liquids are reviewed. Previous studies, which used such methods to determine solvent effects, are then analyzed based on reaction family. Many of these studies correlate kinetic solvent effect with one or more solvent parameters or properties of reacting species, but it is not always possible, and investigations are usually done on too few reactions and solvents to truly generalize. From these studies, we present suggestions on how best to use data to generalize solvent effects for many different reaction types in a high throughput manner. </p> </div> </div> </div>

A 3D Bioprinter Specifically Designed for the High-Throughput Production of Matrix-Embedded Multicellular Spheroids

2020 ◽  
Author(s):  
Robert H. Utama ◽  
Lakmali Atapattu ◽  
Aidan P. O&apos;Mahony ◽  
Christopher M. Fife ◽  
Jongho Baek ◽  
...  
Keyword(s):  
High Throughput ◽  
Multicellular Spheroids

A centrifuge-based stepwise chemical loading disc for the production of multiplex anisotropic metallic nanoparticles

RSC Advances ◽  
2015 ◽  
Vol 5 (3) ◽  
pp. 1846-1851 ◽  
Author(s):  
Byung Hyun Park ◽  
Ji Hyun Lee ◽  
Jae Hwan Jung ◽  
Seung Jun Oh ◽  
Doh C. Lee ◽  
...  
Keyword(s):  
High Throughput ◽  
Metallic Nanoparticles ◽  
Au Nps ◽  
High Throughput Manner ◽  
Chemical Loading

We have proposed a novel rotary microdevice in which multiplex anisotropic Au NPs could be synthesized under diverse conditions in a high-throughput manner.

scholarly journals Rapid formation of multicellular spheroids in double-emulsion droplets with controllable microenvironment

2013 ◽  
Vol 3 (1) ◽  
Author(s):  
Hon Fai Chan ◽  
Ying Zhang ◽  
Yi-Ping Ho ◽  
Ya-Ling Chiu ◽  
Youngmee Jung ◽  
...  
Keyword(s):  
Double Emulsion ◽  
Multicellular Spheroids ◽  
Emulsion Droplets ◽  
Rapid Formation ◽  
Double Emulsion Droplets

A hollow fiber system for simple generation of human brain organoids

2017 ◽  
Vol 9 (9) ◽  
pp. 774-781 ◽  
Author(s):  
Yujuan Zhu ◽  
Li Wang ◽  
Fangchao Yin ◽  
Yue Yu ◽  
Yaqing Wang ◽  
...  
Keyword(s):  
Stem Cell ◽  
Human Brain ◽  
High Throughput ◽  
Hollow Fiber ◽  
Cell Biology ◽  
Hollow Fibers ◽  
Stem Cell Biology ◽  
Fiber System ◽  
Novel Approach ◽  
High Throughput Manner

Here we present a novel approach to engineer hiPSC-derived brain organoids within hollow fibers in a simple and high throughput manner by integrating biomaterials with stem cell biology.

scholarly journals Computational Modelling and Big Data Analysis of Flow and Drug Transport in Microfluidic Systems: A Spheroid-on-a-Chip Study

2021 ◽  
Vol 9 ◽  
Author(s):  
Sina Kheiri ◽  
Eugenia Kumacheva ◽  
Edmond W.K. Young
Keyword(s):  
Parameter Space ◽  
Microfluidic Device ◽  
High Throughput ◽  
In Silico ◽  
Design Parameter ◽  
Drug Transport ◽  
Computational Modelling ◽  
Operating Conditions ◽  
Computational Time ◽  
Multicellular Spheroids

Microfluidic tumour spheroid-on-a-chip platforms enable control of spheroid size and their microenvironment and offer the capability of high-throughput drug screening, but drug supply to spheroids is a complex process that depends on a combination of mechanical, biochemical, and biophysical factors. To account for these coupled effects, many microfluidic device designs and operating conditions must be considered and optimized in a time- and labour-intensive trial-and-error process. Computational modelling facilitates a systematic exploration of a large design parameter space via in silico simulations, but the majority of in silico models apply only a small set of conditions or parametric levels. Novel approaches to computational modelling are needed to explore large parameter spaces and accelerate the optimization of spheroid-on-a-chip and other organ-on-a-chip designs. Here, we report an efficient computational approach for simulating fluid flow and transport of drugs in a high-throughput arrayed cancer spheroid-on-a-chip platform. Our strategy combines four key factors: i) governing physical equations; ii) parametric sweeping; iii) parallel computing; and iv) extensive dataset analysis, thereby enabling a complete “full-factorial” exploration of the design parameter space in combinatorial fashion. The simulations were conducted in a time-efficient manner without requiring massive computational time. As a case study, we simulated &gt;15,000 microfluidic device designs and flow conditions for a representative multicellular spheroids-on-a-chip arrayed device, thus acquiring a single dataset consisting of ∼10 billion datapoints in ∼95 GBs. To validate our computational model, we performed physical experiments in a representative spheroid-on-a-chip device that showed excellent agreement between experimental and simulated data. This study offers a computational strategy to accelerate the optimization of microfluidic device designs and provide insight on the flow and drug transport in spheroid-on-a-chip and other biomicrofluidic platforms.

scholarly journals HypercubeME: two hundred million combinatorially complete datasets from a single experiment

2019 ◽  
Author(s):  
Laura Avino Esteban ◽  
Lyubov R. Lonishin ◽  
Daniil Bobrovskiy ◽  
Gregory Leleytner ◽  
Natalya S. Bogatyreva ◽  
...  
Keyword(s):  
Experimental Data ◽  
High Throughput ◽  
Recursive Algorithm ◽  
Random Mutagenesis ◽  
Higher Order ◽  
Single Experiment ◽  
Manual Curation ◽  
Complete Dataset ◽  
Genotype Space ◽  
High Throughput Manner

AbstractMotivationEpistasis, the context-dependence of the contribution of an amino acid substitution to fitness, is common in evolution. To detect epistasis, fitness must be measured for at least four genotypes: the reference genotype, two different single mutants and a double mutant with both of the single mutations. For higher-order epistasis of the order n, fitness has to be measured for all 2n genotypes of an n-dimensional hypercube in genotype space forming a “combinatorially complete dataset”. So far, only a handful of such datasets have been produced by manual curation. Concurrently, random mutagenesis experiments have produced measurements of fitness and other phenotypes in a high-throughput manner, potentially containing a number of combinatorially complete datasets.ResultsWe present an effective recursive algorithm for finding all hypercube structures in random mutagenesis experimental data. To test the algorithm, we applied it to the data from a recent HIS3 protein dataset and found all 199,847,053 unique combinatorially complete genotype combinations of dimensionality ranging from two to twelve. The algorithm may be useful for researchers looking for higher-order epistasis in their high-throughput experimental data.Availabilityhttps://github.com/ivankovlab/HypercubeME.git.

scholarly journals Optimized RNA-targeting CRISPR/Cas13d technology outperforms shRNA in identifying essential circRNAs

2020 ◽  
Author(s):  
Yang Zhang ◽  
Tuan M. Nguyen ◽  
Xiao-Ou Zhang ◽  
Tin Phan ◽  
John G. Clohessy ◽  
...  
Keyword(s):  
High Throughput ◽  
Biological Effect ◽  
High Rate ◽  
Circular Rnas ◽  
Hairpin Rna ◽  
Guide Rnas ◽  
Rna Targeting ◽  
Bona Fide ◽  
Short Hairpin ◽  
High Throughput Manner

AbstractCircular RNAs (circRNAs) are widely expressed, but their functions remain largely unknown. To study circRNAs in a high-throughput manner, short hairpin RNA (shRNA) screens1 have recently been used to deplete circRNAs by targeting their unique back-splicing junction (BSJ) sites. Here, we report frequent discrepancies between shRNA-mediated circRNA knockdown efficiency and the corresponding biological effect, raising pressing concerns about the robustness of shRNA screening for functional circRNAs. To address this issue, we leveraged the CRISPR/Cas13d system2 for circRNAs functional screenings. We optimized a strategy for designing single guide RNAs to deplete circRNAs. We then performed shRNA and CRISPR/Cas13d parallel screenings and demonstrated that shRNA-mediated circRNAs screening yielded a high rate of false positives phenotypes, while optimized CRISPR/Cas13d led to the identification of bona-fide functional circRNAs. Collectively, we developed a specific and reliable approach to functionalize circRNAs in a high-throughput manner.

scholarly journals Precise, high-throughput production of multicellular spheroids with a bespoke 3D bioprinter

2020 ◽  
Author(s):  
Robert H. Utama ◽  
Lakmali Atapattu ◽  
Aidan P. O’Mahony ◽  
Christopher M. Fife ◽  
Jongho Baek ◽  
...  
Keyword(s):  
Cell Cultures ◽  
High Throughput ◽  
Cell Number ◽  
Drug Dose ◽  
3D Bioprinting ◽  
Multicellular Spheroids ◽  
Drop On Demand ◽  
3D Cell Cultures ◽  
The Impact

Abstract3D in vitro cancer models are important therapeutic and biological discovery tools, yet formation of multicellular spheroids in a throughput and highly controlled manner to achieve robust and statistically relevant data, remains challenging. Here, we developed an enabling technology consisting of a bespoke drop-on-demand 3D bioprinter capable of high-throughput printing of 96-well plates of spheroids. 3D-multicellular spheroids are embedded inside a tissue-like matrix with precise control over size and cell number. Application of 3D bioprinting for high-throughput drug screening was demonstrated with doxorubicin. Measurements showed that IC50 values were sensitive to spheroid size, embedding and how spheroids conform to the embedding, revealing parameters shaping biological responses in these models. Our study demonstrates the potential of 3D bioprinting as a robust high-throughput platform to screen biological and therapeutic parameters.Significance StatementIn vitro 3D cell cultures serve as more realistic models, compared to 2D cell culture, for understanding diverse biology and for drug discovery. Preparing 3D cell cultures with defined parameters is challenging, with significant failure rates when embedding 3D multicellular spheroids into extracellular mimics. Here, we report a new 3D bioprinter we developed in conjunction with bioinks to allow 3D-multicellular spheroids to be produced in a high-throughput manner. High-throughput production of embedded multicellular spheroids allowed entire drug-dose responses to be performed in 96-well plate format with statistically relevant numbers of data points. We have deconvoluted important parameters in drug responses including the impact of spheroid size and embedding in an extracellular matrix mimic on IC50 values.

scholarly journals Enhancing pre‐clinical in vitro cardiotoxicity assays with bioengineering strategies in a high‐throughput manner

2019 ◽  
Vol 33 (S1) ◽  
Author(s):  
Elliot Fisher ◽  
Hamed Ghazizadeh ◽  
Kevin M Gray ◽  
Nicholas A Geisse
Keyword(s):  
High Throughput ◽  
High Throughput Manner
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