Daniele Muraro
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View article: Author Correction: Spatially resolved multiomics of human cardiac niches
Author Correction: Spatially resolved multiomics of human cardiac niches Open
View article: A genome-scale single cell CRISPRi map of<i>trans</i>gene regulation across human pluripotent stem cell lines
A genome-scale single cell CRISPRi map of<i>trans</i>gene regulation across human pluripotent stem cell lines Open
Population-scale resources of genetic, molecular, and cellular information form the basis for understanding human genomes, charting the heritable basis of disease, and tracing the effects of mutations. Pooled perturbation assays applied to…
View article: Gene-level alignment of single-cell trajectories
Gene-level alignment of single-cell trajectories Open
View article: Spatially resolved multiomics of human cardiac niches
Spatially resolved multiomics of human cardiac niches Open
View article: Gene-level alignment of single cell trajectories
Gene-level alignment of single cell trajectories Open
Single-cell data analysis can infer dynamic changes in cell populations, for example across time, space or in response to perturbation. To compare these dynamics between two conditions, trajectory alignment via dynamic programming (DP) opt…
View article: Spatially resolved multiomics of human cardiac niches
Spatially resolved multiomics of human cardiac niches Open
A cell’s function is defined by its intrinsic characteristics and its niche: the tissue microenvironment in which it dwells. Here, we combine single-cell and spatial transcriptomic data to discover cellular niches within eight regions of t…
View article: FXR inhibition may protect from SARS-CoV-2 infection by reducing ACE2
FXR inhibition may protect from SARS-CoV-2 infection by reducing ACE2 Open
Preventing SARS-CoV-2 infection by modulating viral host receptors, such as angiotensin-converting enzyme 2 (ACE2)1, could represent a new chemoprophylactic approach for COVID-19 that complements vaccination2,3. However, the mechanisms tha…
View article: FXR inhibition may protect from SARS-CoV-2 infection by reducing ACE2
FXR inhibition may protect from SARS-CoV-2 infection by reducing ACE2 Open
View article: Single-cell atlas of human liver development reveals pathways directing hepatic cell fates
Single-cell atlas of human liver development reveals pathways directing hepatic cell fates Open
View article: Single-cell atlas of human liver development reveals pathways directing hepatic cell fates
Single-cell atlas of human liver development reveals pathways directing hepatic cell fates Open
The liver has been studied extensively due to the broad number of diseases affecting its vital functions. However, therapeutic advances, especially in regenerative medicine, are currently hampered by the lack of knowledge concerning human …
View article: O07 FXR antagonists as new agents for COVID19
O07 FXR antagonists as new agents for COVID19 Open
Introduction The management of COVID19 is complicated by vaccine availability, the modest efficacy of existing treatments, and the potential for viral resistance. Therefore, there is a pressing need for new prophylactic and therapeutic age…
View article: TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells
TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells Open
The signalling pathways that maintain primed human pluripotent stem cells (hPSCs) have been well characterised, revealing a critical role for TGFβ/Activin/Nodal signalling. In contrast, the signalling requirements of naïve human pluripoten…
View article: Modeling HNF1B-associated monogenic diabetes using human iPSCs reveals an early stage impairment of the pancreatic developmental program
Modeling HNF1B-associated monogenic diabetes using human iPSCs reveals an early stage impairment of the pancreatic developmental program Open
View article: Author response: TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells
Author response: TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells Open
Article Figures and data Abstract Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract The signalling pathways that maintain prim…
View article: TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells
TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells Open
The signalling pathways that maintain primed human pluripotent stem cells (hPSCs) have been well characterised, revealing a critical role for TGFβ/Activin/Nodal signalling. In contrast, the signalling requirements of naïve human pluripoten…
View article: Cholangiocyte organoids can repair bile ducts after transplantation in the human liver
Cholangiocyte organoids can repair bile ducts after transplantation in the human liver Open
Organoids regenerate human bile ducts Bile ducts carry bile from the liver and gall bladder to the small intestine, where it aids digestion. Cholangiocytes are epithelial cells that line bile ducts and modify bile as its transported throug…
View article: Naive Pluripotent Stem Cells Exhibit Phenotypic Variability that Is Driven by Genetic Variation
Naive Pluripotent Stem Cells Exhibit Phenotypic Variability that Is Driven by Genetic Variation Open
View article: Cholangiocyte organoids are plastic and their identity is controlled by their local microenvironment
Cholangiocyte organoids are plastic and their identity is controlled by their local microenvironment Open
View article: Regional Differences in Human Biliary Tissues and Corresponding In Vitro–Derived Organoids
Regional Differences in Human Biliary Tissues and Corresponding In Vitro–Derived Organoids Open
Background and Aims Organoids provide a powerful system to study epithelia in vitro . Recently, this approach was applied successfully to the biliary tree, a series of ductular tissues responsible for the drainage of bile and pancreatic se…
View article: NOD2 and TLR2 Signal via TBK1 and PI31 to Direct Cross-Presentation and CD8 T Cell Responses
NOD2 and TLR2 Signal via TBK1 and PI31 to Direct Cross-Presentation and CD8 T Cell Responses Open
NOD2 and TLR2 recognize components of bacterial cell wall peptidoglycan and direct defense against enteric pathogens. CD8+ T cells are important for immunity to such pathogens but how NOD2 and TLR2 induce antigen specific CD8
View article: NOD2 and TLR2 Signal via TBK1 and PI31 to Direct Cross-presentation and CD8 T Cell Responses
NOD2 and TLR2 Signal via TBK1 and PI31 to Direct Cross-presentation and CD8 T Cell Responses Open
NOD2 and TLR2 recognize components of bacterial cell wall peptidoglycan and direct defense against enteric pathogens. CD8 + T cells are important for immunity to such pathogens but how NOD2 and TLR2 induce antigen specific CD8 + T cell res…
View article: Elevated apoptosis impairs epithelial cell turnover and shortens villi in TNF-driven intestinal inflammation
Elevated apoptosis impairs epithelial cell turnover and shortens villi in TNF-driven intestinal inflammation Open
View article: Method to Synchronize Cell Cycle of Human Pluripotent Stem Cells without Affecting Their Fundamental Characteristics
Method to Synchronize Cell Cycle of Human Pluripotent Stem Cells without Affecting Their Fundamental Characteristics Open
View article: Chronic TNFα-driven injury delays cell migration to villi in the intestinal epithelium
Chronic TNFα-driven injury delays cell migration to villi in the intestinal epithelium Open
The intestinal epithelium is a single layer of cells which provides the first line of defence of the intestinal mucosa to bacterial infection. Cohesion of this physical barrier is supported by renewal of epithelial stem cells, residing in …
View article: Chronic inflammation delays cell migration to villi in the intestinal epithelium
Chronic inflammation delays cell migration to villi in the intestinal epithelium Open
The intestinal epithelium is a single layer of cells which provides the first line of defence of the intestinal mucosa to bacterial infection. Cohesion of this physical barrier is supported by renewal of epithelial stem cells, residing in …
View article: Snapin promotes <scp>HIV</scp> ‐1 transmission from dendritic cells by dampening <scp>TLR</scp> 8 signaling
Snapin promotes <span>HIV</span> ‐1 transmission from dendritic cells by dampening <span>TLR</span> 8 signaling Open
HIV-1 traffics through dendritic cells (DCs) en route to establishing a productive infection in T lymphocytes but fails to induce an innate immune response. Within DC endosomes, HIV-1 somehow evades detection by the pattern-recognition rec…
View article: Cell proliferation within small intestinal crypts is the principal driving force for cell migration on villi
Cell proliferation within small intestinal crypts is the principal driving force for cell migration on villi Open
The functional integrity of the intestinal epithelial barrier relies on tight coordination of cell proliferation and migration, with failure to regulate these processes resulting in disease. It is not known whether cell proliferation is su…
View article: A multi-scale model of the interplay between cell signalling and hormone transport in specifying the root meristem of Arabidopsis thaliana
A multi-scale model of the interplay between cell signalling and hormone transport in specifying the root meristem of Arabidopsis thaliana Open
View article: An integrative analysis of gene expression and molecular interaction data to identify dys-regulated sub-networks in inflammatory bowel disease
An integrative analysis of gene expression and molecular interaction data to identify dys-regulated sub-networks in inflammatory bowel disease Open
Background Inflammatory bowel disease (IBD) consists of two main disease-subtypes, Crohn’s disease (CD) and ulcerative colitis (UC); these subtypes share overlapping genetic and clinical features. Genome-wide microarray data enable unbiase…
View article: Additional file 1 of An integrative analysis of gene expression and molecular interaction data to identify dys-regulated sub-networks in inflammatory bowel disease
Additional file 1 of An integrative analysis of gene expression and molecular interaction data to identify dys-regulated sub-networks in inflammatory bowel disease Open
Code.zip â Folder including the C code used in our optimisation. (ZIP 727 kb)