Volume 41 Issue 3, March 2023

Super-resolution imaging

Artistic rendering of a system for noise reduction in super-resolution images. Qiao et al. incorporate prior knowledge of illumination patterns into a deep learning algorithm and apply this method to sustained live cell imaging.

See Qiao et al.

Image: Dong Li, Institute of Biophysics, CAS; Chang Qiao, Tsinghua University. Cover Design: Erin Dewalt.

Editorial

Women build strength in numbers

Women’s networks are strong, and making a difference.

Editorial 08 Mar 2023

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News

AI-enhanced protein design makes proteins that have never existed

Protein engineers are drawing on rapidly evolving machine learning tools, deep reservoirs of data, and the structure-predicting firepower of AlphaFold2 to pursue more sophisticated de novo protein designs.

Michael Eisenstein
News 23 Feb 2023
Biotech commission accused of conflicts of interest

News in Brief 15 Mar 2023
Big pharma craves slice of AI-based RNA drug discovery

News in Brief 15 Mar 2023
GM forests for carbon removal planted in US

News in Brief 15 Mar 2023
Shoot the messenger: RNA editing is here

RNA editing is rapidly gaining prominence as its transient and reversible changes promise a safer and more flexible option to reverse disease-causing mutations than DNA editing.

Cormac Sheridan
News 06 Mar 2023
Biotech news from around the world

News in Brief 15 Mar 2023
News Feature
- Cancer debugged
  
  Tumors are rife with bacteria and fungi. Their ubiquity is proving useful in detecting cancers, categorizing them, and even determining whether certain interventions will work.
  
  Monique Brouillette
  News Feature 09 Feb 2023

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Correspondence

Rapid-response manufacturing of adenovirus-vectored vaccines

Carina C. D. Joe
Nitin Chopra
Alexander D. Douglas
Correspondence 08 Mar 2023

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Features

Patents
- Distinguishing and predicting drug patents
  
  Drug patents are different. To improve their quality ex ante, regulators can use predictive models.
  
  Colleen V. Chien
  Nicholas Halkowski
  Jeffrey Kuhn
  Patents 15 Mar 2023
- Synthetic biology
  
  Recent patents relating to methods, systems and toolkits related to synthetic biology.
  
  Patents 15 Mar 2023

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Research Highlights

Plant-inspired design of self-burying seed carrier

Jared B. Fudge
Research Highlight 15 Mar 2023
Cardiac defect corrected in vivo with CRISPR

Jared B. Fudge
Research Highlight 15 Mar 2023
Metatranscriptomes reveal increased diversity of viroid-like circular RNAs

Jared B. Fudge
Research Highlight 15 Mar 2023

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News & Views

Mapping mRNA modifications for functional studies

New methods for mapping the mRNA modifications N⁶-methyladenosine and pseudouridine enable large-scale functional analyses.

Joshua D. Jones
Daniel E. Eyler
Kristin S. Koutmou
News & Views 27 Oct 2022
Podcast
- Forum: Fischbach and Mazmanian
  
  Podcast 15 Mar 2023

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Research Briefings

Combining a deep neural network with physical properties for super-resolution live imaging

We integrated the pre-characterized physical model of super-resolution (SR) microscopy into a deep neural network to guide the denoising of raw images for high-quality SR image reconstruction. This approach enabled us to investigate a wide variety of fragile and rapidly evolving bioprocesses at ultrahigh spatiotemporal resolution over extended imaging times.

Research Briefing 10 Oct 2022
Mathematical modeling of epigenetic gene regulation during cell differentiation

Cells differentiate to their final fates through sequential epigenetic and transcriptional changes. A mathematical model fit on multi-omic single-cell data yields insights into the temporal relationships between chromatin accessibility and gene expression during cell differentiation.

Research Briefing 17 Oct 2022

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Research

Brief Communications
- Modeling intercellular communication in tissues using spatial graphs of cells
  
  How cells in a tissue communicate is modeled with a graph neural network.
  
  David S. Fischer
  Anna C. Schaar
  Fabian J. Theis
  Brief Communication Open Access 27 Oct 2022
- Engineered CRISPR prime editors with compact, untethered reverse transcriptases
  
  A split prime editor architecture facilitates screening and engineering of improved variants.
  
  Julian Grünewald
  Bret R. Miller
  J. Keith Joung
  
  Collection:
  
  Genome Editing
  Brief Communication 26 Sept 2022
Articles
- Quantitative sequencing using BID-seq uncovers abundant pseudouridines in mammalian mRNA at base resolution
  
  Pseudouridine sites in mRNA are detected at base resolution and functionally investigated.
  
  Qing Dai
  Li-Sheng Zhang
  Chuan He
  Article Open Access 27 Oct 2022
- Absolute quantification of single-base m⁶A methylation in the mammalian transcriptome using GLORI
  
  The m⁶A modification is mapped transcriptome-wide at single-base resolution in mammalian cells.
  
  Cong Liu
  Hanxiao Sun
  Jing Wang
  Article 27 Oct 2022
- Rationalized deep learning super-resolution microscopy for sustained live imaging of rapid subcellular processes
  
  Rationalized deep learning improves image reconstruction by incorporating prior knowledge of illumination patterns.
  
  Chang Qiao
  Di Li
  Dong Li
  Article 06 Oct 2022
- Precision mitochondrial DNA editing with high-fidelity DddA-derived base editors
  
  Off-target activity of DddA-derived base editors is minimized through protein engineering.
  
  Seonghyun Lee
  Hyunji Lee
  Jin-Soo Kim
  Article Open Access 13 Oct 2022
- Multi-omic single-cell velocity models epigenome–transcriptome interactions and improves cell fate prediction
  
  MultiVelo extends the concept of RNA velocity to multimodal single-cell measurements.
  
  Chen Li
  Maria C. Virgilio
  Joshua D. Welch
  Article 13 Oct 2022
- Discovery of drug–omics associations in type 2 diabetes with generative deep-learning models
  
  Clinical multi-omics data are integrated and analyzed using a generative deep-learning model.
  
  Rosa Lundbye Allesøe
  Agnete Troen Lundgaard
  Moustafa Abdalla
  Article Open Access 02 Jan 2023
- Precise DNA cleavage using CRISPR-SpRYgests
  
  A PAMless CRISPR nuclease is applied for precision DNA cleavage and cloning.
  
  Kathleen A. Christie
  Jimmy A. Guo
  Benjamin P. Kleinstiver
  
  Collection:
  
  Genome Editing
  Article 06 Oct 2022
- Haplotype-aware analysis of somatic copy number variations from single-cell transcriptomes
  
  Numbat integrates expression, allele and haplotype information to detect copy number variations in scRNA-seq.
  
  Teng Gao
  Ruslan Soldatov
  Peter V. Kharchenko
  Article 26 Sept 2022

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Careers & Recruitment

Career Feature
- Longitudinal data support university-based biomedical entrepreneurship education programs
  
  Early-stage researchers can greatly benefit from education and skills development in venture creation and commercialization of discoveries.
  
  Gabriel Vizgan
  Zachary Hill-Whilton
  Gabrielle Gold-von Simson
  
  Nature Outlook:
  
  Spinoff Prize 2023
  Career Feature 15 Mar 2023
People
- People
  
  Recent moves of note in and around the biotech and pharma industries.
  
  People 15 Mar 2023

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Volume 41 Issue 3, March 2023

Super-resolution imaging

Editorial

News

News Feature

Correspondence

Features

Patents

Research Highlights

News & Views

Podcast

Research Briefings

Research

Brief Communications

Articles

Careers & Recruitment

Career Feature

People

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