Thierry Mora
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View article: Energy-based generative models for monoclonal antibodies
Energy-based generative models for monoclonal antibodies Open
Since the approval of the first antibody drug in 1986, a total of 162 antibodies have been approved for a wide range of therapeutic areas, including cancer, autoimmune, infectious, or cardiovascular diseases. Despite advances in biotechnol…
View article: Tailoring epitope specificity through TCR chain substitution 3324
Tailoring epitope specificity through TCR chain substitution 3324 Open
Description The T cell’s ability to recognize antigens relies on the diversity of the T cell receptor (TCR) arising from V(D)J recombination of the two TCR chains, complemented by their random pairing. While it is generally recognized that…
View article: Single Cells Can Resolve Graded Stimuli
Single Cells Can Resolve Graded Stimuli Open
Cells use signaling pathways as windows into the environment to gather information, transduce it into their interior, and use it to drive behaviors. MAPK (ERK) is a highly conserved signaling pathway in eukaryotes, directing multiple funda…
View article: Paraplume: A fast and accurate paratope prediction method provides insights into repertoire-scale binding dynamics
Paraplume: A fast and accurate paratope prediction method provides insights into repertoire-scale binding dynamics Open
The specific region of an antibody responsible for binding to an antigen, known as the paratope, is essential for immune recognition. Accurate identification of this small yet critical region can accelerate the development of therapeutic a…
View article: Paraplume: A fast and accurate paratope prediction method provides insights into repertoire-scale binding dynamics
Paraplume: A fast and accurate paratope prediction method provides insights into repertoire-scale binding dynamics Open
The specific region of an antibody responsible for binding to an antigen, known as the paratope, is essential for immune recognition. Accurate identification of this small yet critical region can accelerate the development of therapeutic a…
View article: Dynamics of memory B cells and plasmablasts in healthy individuals
Dynamics of memory B cells and plasmablasts in healthy individuals Open
Our adaptive immune system relies on the persistence over long times of a diverse set of antigen-experienced B cells to encode our memories of past infections and to protect us against future ones. While longitudinal repertoire sequencing …
View article: Dynamics of memory B cells and plasmablasts in healthy individuals
Dynamics of memory B cells and plasmablasts in healthy individuals Open
Our adaptive immune system relies on the persistence over long times of a diverse set of antigen-experienced B cells to encode our memories of past infections and to protect us against future ones. While longitudinal repertoire sequencing …
View article: Profiling a large HIV-1 elite neutralizer cohort reveals remarkable CD4bs bNAb for HIV-1 prevention and therapy
Profiling a large HIV-1 elite neutralizer cohort reveals remarkable CD4bs bNAb for HIV-1 prevention and therapy Open
Administration of HIV-1 neutralizing antibodies can suppress viremia and prevent infection in vivo . However, clinical use is challenged by broad envelope sequence diversity and rapid emergence of viral escape 1–9 . Here, we performed sing…
View article: Optimal sensing through phase separation.
Optimal sensing through phase separation. Open
Biomolecular condensates form on timescales of seconds in cells upon environmental or compositional changes. Condensate formation is thus argued to act as a mechanism for sensing such changes and quickly initiating downstream processes, su…
View article: Fast decisions with biophysically constrained gene promoter architectures
Fast decisions with biophysically constrained gene promoter architectures Open
Cells integrate signals and make decisions about their future state in short amounts of time. A lot of theoretical effort has gone into asking how to best design gene regulatory circuits that fulfill a given function, yet little is known a…
View article: How Host Mobility Patterns Shape Antigenic Escape During Viral-Immune Coevolution
How Host Mobility Patterns Shape Antigenic Escape During Viral-Immune Coevolution Open
Viruses like influenza have long coevolved with host immune systems, gradually shaping the evolutionary trajectory of these pathogens. Host immune systems develop immunity against circulating strains, which in turn avoid extinction by expl…
View article: Inferring Resource Competition in Microbial Communities from Time Series
Inferring Resource Competition in Microbial Communities from Time Series Open
The competition for resources is a defining feature of microbial communities. In many contexts, from soils to host-associated communities, highly diverse microbes are organized into metabolic groups or guilds with similar resource preferen…
View article: Integrating computational detection and experimental validation for rapid GFRAL-specific antibody discovery
Integrating computational detection and experimental validation for rapid GFRAL-specific antibody discovery Open
The identification and validation of therapeutic antibodies is critical for developing effective treatments for many diseases. We present a computational approach for identifying antibodies targeting GFRAL-specific receptors, receptors imp…
View article: Modeling collective behavior in groups of mice housed under semi-naturalistic conditions
Modeling collective behavior in groups of mice housed under semi-naturalistic conditions Open
In social behavior research, the focus often remains on animal dyads, limiting the understanding of complex interactions. Recent trends favor naturalistic setups, offering unique insights into intricate social behaviors. Social behavior st…
View article: Modelling collective behavior in groups of mice housed under semi-naturalistic conditions
Modelling collective behavior in groups of mice housed under semi-naturalistic conditions Open
In social behavior research, the focus often remains on animal dyads, limiting the understanding of complex interactions. Recent trends favor naturalistic setups, offering unique insights into intricate social behaviors. Social behavior st…
View article: Modelling collective behavior in groups of mice housed under semi-naturalistic conditions
Modelling collective behavior in groups of mice housed under semi-naturalistic conditions Open
In social behavior research, the focus often remains on animal dyads, limiting the understanding of complex interactions. Recent trends favor naturalistic setups, offering unique insights into intricate social behaviors. Social behavior st…
View article: Inferring resource competition in microbial communities from time series
Inferring resource competition in microbial communities from time series Open
The competition for resources is a defining feature of microbial communities. In many contexts, from soils to host-associated communities, highly diverse microbes are organized into metabolic groups or guilds with similar resource preferen…
View article: Inferring resource competition in microbial communities from time series
Inferring resource competition in microbial communities from time series Open
The competition for resources is a defining feature of microbial communities. In many contexts, from soils to host-associated communities, highly diverse microbes are organized into metabolic groups or guilds with similar resource preferen…
View article: Learning predictive signatures of HLA type from T-cell repertoires
Learning predictive signatures of HLA type from T-cell repertoires Open
T cells recognize a wide range of pathogens using surface receptors that interact directly with peptides presented on major histocompatibility complexes (MHC) encoded by the HLA loci in humans. Understanding the association between T cell …
View article: Energy-based generative models for monoclonal antibodies
Energy-based generative models for monoclonal antibodies Open
Since the approval of the first antibody drug in 1986, a total of 162 antibodies have been approved for a wide range of therapeutic areas, including cancer, autoimmune, infectious, or cardiovascular diseases. Despite advances in biotechnol…
View article: Single cells can resolve graded stimuli
Single cells can resolve graded stimuli Open
Cells use signalling pathways as windows into the environment to gather information, transduce it into their interior, and use it to drive behaviours. MAPK (ERK) is a highly conserved signalling pathway in eukaryotes, directing multiple fu…