Andrew D. Griffiths
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View article: Lifelong evolution of autoreactive plasma cell numbers, affinity and anatomical location in arthritic K/BxN mice
Lifelong evolution of autoreactive plasma cell numbers, affinity and anatomical location in arthritic K/BxN mice Open
Objective The spontaneous K/BxN mouse model of rheumatoid arthritis has been used extensively to study chronic inflammation, contribution of immune cells, and the primordial role of autoreactive antibodies in disease initiation and severit…
View article: Microfluidic networks using isotachophoresis
Microfluidic networks using isotachophoresis Open
The development of microfluidic technologies has enabled chemical and biological analysis systems with increased functionality, complexity, and parallelization. These functionalities often drive the creation and control of complex and dyna…
View article: DNA barcoding for parallelised single-molecule characterisation of kinetic phenotypes
DNA barcoding for parallelised single-molecule characterisation of kinetic phenotypes Open
Single-molecule techniques provide exceptional resolution of biomolecular dynamics but are limited by low-throughput. We present a barcoding strategy that enables simultaneous kinetic profiling of multiple protein variants at the single-mo…
View article: Reactive mixing enables enzymatic depolymerization of recalcitrant or unsortable polyester wastes
Reactive mixing enables enzymatic depolymerization of recalcitrant or unsortable polyester wastes Open
Enzyme-catalyzed depolymerization allows efficient recycling of poly(ethylene terephthalate) (PET) bottles, which are easy to sort and made of slowly crystallizing PET. However, because crystalline phases are recalcitrant to enzymatic hydr…
View article: Parallelization of single-molecule binding kinetic measurements via protein barcode sequencing
Parallelization of single-molecule binding kinetic measurements via protein barcode sequencing Open
Screening protein variants for desired functions has long relied on coupling of genotype (gene sequence) to phenotype (protein function), limiting the use of powerful single-molecule (SM) techniques. Here, we introduce a scalable SM screen…
View article: Global regulators enable bacterial adaptation to a phenotypic trade-off
Global regulators enable bacterial adaptation to a phenotypic trade-off Open
Cellular fitness depends on multiple phenotypes that must be balanced during evolutionary adaptation. For instance, coordinating growth and motility is critical for microbial colonization and cancer invasiveness. In bacteria, these phenoty…
View article: Proceedings of the National Academy of Sciences
Proceedings of the National Academy of Sciences Open
Ammonia-oxidizing archaea are ubiquitous in marine and terrestrial environments and now thought to be significant contributors to carbon and nitrogen cycling. The isolation of Candidatus “Nitrosopumilus maritimus” strain SCM1 provided the …
View article: Neonatal inflammation impairs developmentally-associated microglia and promotes a highly reactive microglial subset
Neonatal inflammation impairs developmentally-associated microglia and promotes a highly reactive microglial subset Open
Microglia and border-associated macrophages play critical roles in both immunity and neurodevelopment. The disruption of microglial development trajectories by neonatal inflammation is an important issue in research on neurodevelopmental d…
View article: Optimised Nanobody-based Quenchbodies for Enhanced Protein Detection
Optimised Nanobody-based Quenchbodies for Enhanced Protein Detection Open
Quenchbodies, antibodies labelled with fluorophores that increase in intensity upon antigen binding, offer great promise for biosensor development. Nanobody-based quenchbodies are particularly attractive due to their small size, ease of ex…
View article: High-throughput droplet-based analysis of influenza A virus genetic reassortment by single-virus RNA sequencing
High-throughput droplet-based analysis of influenza A virus genetic reassortment by single-virus RNA sequencing Open
The segmented RNA genome of influenza A viruses (IAVs) enables viral evolution through genetic reassortment after multiple IAVs coinfect the same cell, leading to viruses harboring combinations of eight genomic segments from distinct paren…
View article: Theory of Change: A Tool for Engaging the Health and Care Workforce in Developing Digital Skills
Theory of Change: A Tool for Engaging the Health and Care Workforce in Developing Digital Skills Open
The health and social care sector has experienced an optimistic turn in the last decade. There has been substantial growth in recent years due to the COVID-19 pandemic that forced the entire sector to identify digital methods of delivering…
View article: Real-time dynamic single-molecule protein sequencing on an integrated semiconductor device
Real-time dynamic single-molecule protein sequencing on an integrated semiconductor device Open
Summary Proteins are the main structural and functional components of cells, and their dynamic regulation and post-translational modifications (PTMs) underlie cellular phenotypes. Next-generation DNA sequencing technologies have revolution…
View article: Monocyte Trajectories Endotypes Are Associated With Worsening in Septic Patients
Monocyte Trajectories Endotypes Are Associated With Worsening in Septic Patients Open
Sepsis is a life-threatening organ dysfunction caused by a dysregulated host response to infection. The immune system plays a key role in sepsis onset and remains dysregulated over time in a heterogeneous manner. Here, we decipher the hete…
View article: Herpes DNAemia and TTV Viraemia in Intensive Care Unit Critically Ill Patients: A Single-Centre Prospective Longitudinal Study
Herpes DNAemia and TTV Viraemia in Intensive Care Unit Critically Ill Patients: A Single-Centre Prospective Longitudinal Study Open
Introduction We analysed blood DNAemia of TTV and four herpesviruses (CMV, EBV, HHV6, and HSV-1) in the REAnimation Low Immune Status Marker (REALISM) cohort of critically ill patients who had presented with either sepsis, burns, severe tr…
View article: The establishment of variant surface glycoprotein monoallelic expression revealed by single-cell RNA-seq of Trypanosoma brucei in the tsetse fly salivary glands
The establishment of variant surface glycoprotein monoallelic expression revealed by single-cell RNA-seq of Trypanosoma brucei in the tsetse fly salivary glands Open
The long and complex Trypanosoma brucei development in the tsetse fly vector culminates when parasites gain mammalian infectivity in the salivary glands. A key step in this process is the establishment of monoallelic variant surface glycop…
View article: Immune profiling demonstrates a common immune signature of delayed acquired immunodeficiency in patients with various etiologies of severe injury
Immune profiling demonstrates a common immune signature of delayed acquired immunodeficiency in patients with various etiologies of severe injury Open
Background and Research Question The host response plays a central role in the pathophysiology of sepsis and severe injuries. So far, no study has comprehensively described the overtime changes of the injury-induced immune profile in a lar…
View article: The Quantitative Assessment of the Secreted IgG Repertoire after Recall to Evaluate the Quality of Immunizations
The Quantitative Assessment of the Secreted IgG Repertoire after Recall to Evaluate the Quality of Immunizations Open
One of the major goals of vaccination is to prepare the body to rapidly secrete specific Abs during an infection. Assessment of the vaccine quality is often difficult to perform, as simple measurements like Ab titer only partly correlate w…
View article: Metabolic cost of rapid adaptation of single yeast cells
Metabolic cost of rapid adaptation of single yeast cells Open
Cells can rapidly adapt to changing environments through nongenetic processes; however, the metabolic cost of such adaptation has never been considered. Here we demonstrate metabolic coupling in a remarkable, rapid adaptation process (1 in…
View article: Azoarcus networks in droplets - Main dataset
Azoarcus networks in droplets - Main dataset Open
This dataset contains the results from two droplet microfluidics experiments where a diversity of Azoarcus RNA networks have been encapsulated into individual separate droplets. RNA-Seq coupled with a system of unique barcoded hydrogel bea…
View article: Azoarcus networks in droplets - Random trajectories
Azoarcus networks in droplets - Random trajectories Open
Results of simulations used for Fig 4e-g.
View article: Azoarcus networks in droplets - Cross-talk control experiments.
Azoarcus networks in droplets - Cross-talk control experiments. Open
Processing sequencing data for control cross-talk experiment.