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Patel, D. R.,…
Category: 5. Biology
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Cyclic peptide structure prediction and design using AlphaFold2
Structure prediction of cyclic peptides
We set out to expand AlphaFold2 for the structure prediction of cyclic peptides by modifying the inputs for relative positional encoding. For a linear peptide, the relative positional encoding defines the…
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A gut fungus protects the liver
The human gut harbours a vast community of bacteria, fungi, archaea and viruses, collectively known as the human microbiota. It is well-established that the microbiota has a crucial role in host health and disease, for example via the production…
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Deciphering the biosynthesis of a bacterial detergent for cleanup of marine oil spills
Publisher’s note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
This is a summary of: Cui, J. et al. Biosurfactant biosynthesis by Alcanivorax borkumensis and its role in…
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Uncovering mRNA sequences that control translation initiation
Cells intricately tune gene expression to maintain homeostasis. Translation initiation is an important regulatory step in gene expression, whereby the concerted actions of proteins prime an mRNA to recruit a ribosome for protein synthesis. The…
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Deciphering the history of ERK activity from fixed-cell immunofluorescence measurements
A dataset linking live-cell ERK activity to ERK target immunofluorescence
We generated a dataset that enables correlation of ERK activation to downstream target expression and modification by first collecting live ERK activity measurements under…
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Multi-omics analysis of SFTS virus infection in Rhipicephalus microplus cells reveals antiviral tick factors
The transcriptome and proteome of R. microplus cells
Given the limited understanding of tick cell biology, it is of considerable difficulty to study how SFTSV hijacks and re-wires vector cells to establish infection. Therefore, we aimed to…
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Intestinal neuron-associated macrophages in health and disease
Guilliams, M., Thierry, G. R., Bonnardel, J. & Bajenoff, M. Establishment and maintenance of the macrophage niche. Immunity 52, 434–451 (2020).
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Sehgal,…
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A self-supervised learning approach for high throughput and high content cell segmentation
SSL approach for segmenting diverse microscopy modes across multiple cell types
We first aim to highlight the compatibility of our SSL code with high-throughput imaging in that robust cell segmentation takes place from single images in the absence…
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A multiscale brain emulation-based artificial intelligence framework for dynamic environments
To validate the algorithmic efficacy of Orangutan, I have developed a large neural network model that utilizes most of the mechanisms provided by Orangutan. It comprises 13 brain regions, approximately 3.7 million neurons, and about 56 million…
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