Democratizing biotechnology requires more than availability

Beumer, Koen

doi:10.1038/s41587-021-00890-y

Cited by 5 publications

(5 citation statements)

References 7 publications

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“…We also compared plate reader data with phone imagery data quantified using the CRISPectra algorithm. We saw strong correlation between the two methods (R 2 = 0.939 and 0.943 for eforRed and fwYellow, respectively, Fig. 4f ).…”

Section: Resultsmentioning

confidence: 84%

“…Black lines represent the linear fit and the dotted lines represent 99.9% confidence interval. R 2 values are shown in the diagrams for the linear regression.…”

Section: Resultsmentioning

confidence: 99%

“…A linear regression analysis was performed on the plotted data to generate the line of best fit. The strength and direction of the linear relationship between the two datasets were quantified using the R 2 (Pearson correlation coefficient) value. A value close to 1 indicates a strong positive correlation between the phone-based and plate reader data, suggesting the phone-based method’s robustness.…”

Section: Adjustment Of Projected Valuesmentioning

confidence: 99%

“…Tools and resources to facilitate accessible K-12 (from kindergarten to high school) education in life sciences and bioengineering are crucial for fostering a more informed and equitable society [1][2][3] . Via accessible education, we not only inspire the next generation of scientists but also create citizens who can understand the complex language behind cutting-edge biotechnologies, thus promoting transparency and responsibility in public decision making while mitigating confusion and apprehension.…”

Section: Introductionmentioning

confidence: 99%

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Biodesign of Frugal CRISPR Kits for Equitable and Accessible Education

Collins,

Lau,

et al. 2023

Preprint

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Equitable and accessible education on life sciences and bioengineering is crucial to training the next generation of scientists, fostering transparency in public decision-making, and ensuring biotechnology democratization that can benefit a wide-ranging population. As a ground-breaking technology for genome engineering, CRISPR has transformed research and therapeutics. However, hands-on exposure to this technology for educational purposes remains restricted, primarily due to extensive resources required to execute CRISPR experiments. In this study, we develop an accessible and frugal CRISPR kit, tailored for K-12 education settings. Our CRISPR kit eliminates the need for equipment, prioritizes biosafety, and utilizes cost-effective reagents. By combining CRISPRi gene regulation, chromoproteins, cell-free transcription-translation systems, and smartphone-based quantification, our kit offers a user-friendly approach and a reliable assessment of CRISPR activity, eliminating the need for a traditional laboratory setup. Experiments conducted by high school students in real-world settings highlight the kit's utility for conducting reliable CRISPR experiments. The frugal CRISPR kit provides a modular and expandable platform to offer students hands-on experience in genome engineering, and we envision that it will facilitate equitable and accessible education and technology democratization for communities of diverse socioeconomic and geographic backgrounds.

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Section: Resultsmentioning

confidence: 84%

“…Black lines represent the linear fit and the dotted lines represent 99.9% confidence interval. R 2 values are shown in the diagrams for the linear regression.…”

Section: Resultsmentioning

confidence: 99%

Section: Adjustment Of Projected Valuesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Biodesign of Frugal CRISPR Kits for Equitable and Accessible Education

Collins,

Lau,

et al. 2023

Preprint

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“…There, the main task of interest is link prediction, through which the missing knowledge link can be completed. Other notable works for constructing large-scale biomedical KG and setting up link-prediction benchmarks from them include BioCypher [56] and OpenBioLink [11]. While the tasks associated with KG [92] are orthogonal to the node classification settings, it is possible to reformulate gene classification problems as KG completion and vice versa [5,100].…”

Section: Related Workmentioning

confidence: 99%

Open Biomedical Network Benchmark A Python Toolkit for Benchmarking Datasets with Biomedical Networks

Liu

Krishnan

2023

Preprint

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Recent breakthroughs in graph representation learning (GRL) methods have vastly advanced many real-world applications where graph structures naturally arise, such as drug discoveries, molecular property predictions, and social recommendation systems. The rapid developments of GRL with applications in specific scientific domains are largely enabled by graph learning libraries such as PyTorch Geometric, which provide infrastructures that allow domain scientists to share domain-specific benchmarking datasets, and GRL researchers to adapt and design specialized GRL methods for these particular tasks. Meanwhile, over the past two decades, network biology has demonstrated superior value in harvesting biological insights from network data, such as identifying genes' associated functions, diseases, and traits. Nevertheless, the GRL community faces a significant barrier in working with biological networks because of the tedious and specialized (pre-)processing steps required to set up machine learning (ML)-ready benchmarking datasets. Here, we present nleval, a Python package containing reusable modules that enable researchers to effortlessly set up PyG-compatible ML-ready datasets using data downloaded from public databases. We expect nleval to help network biologists set up custom benchmarking datasets for answering specific biological questions of their interests and help GRL researchers adapt these datasets for designing new specialized GRL architectures.

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Conceptualizing the democratization of innovation through transitions theory: A case study of biohacking in community science labs

Santos

2023

Environmental Innovation and Societal Transitions

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Democratizing biotechnology requires more than availability

Cited by 5 publications

References 7 publications

Biodesign of Frugal CRISPR Kits for Equitable and Accessible Education

Biodesign of Frugal CRISPR Kits for Equitable and Accessible Education

Open Biomedical Network Benchmark A Python Toolkit for Benchmarking Datasets with Biomedical Networks

Conceptualizing the democratization of innovation through transitions theory: A case study of biohacking in community science labs

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