Aliaksandr Halavatyi
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View article: Origins of chromosome instability unveiled by coupled imaging and genomics
Origins of chromosome instability unveiled by coupled imaging and genomics Open
Somatic chromosome instability results in widespread structural and numerical chromosomal abnormalities (CAs) during cancer evolution 1–3 . Although CAs have been linked to mitotic errors resulting in the emergence of nuclear atypia 4–7 , …
View article: Smart Microscopy: Current Implementations and a Roadmap for Interoperability
Smart Microscopy: Current Implementations and a Roadmap for Interoperability Open
Smart microscopy is transforming life sciences by automating experimental imaging workflows and enabling real-time adaptation based on feedback from images and other data streams. This shift increases throughput, improves reproducibility, …
View article: Quantitative high-resolution imaging of mouse nephron formation to study Wnt signaling dynamics
Quantitative high-resolution imaging of mouse nephron formation to study Wnt signaling dynamics Open
Introduction Nephron formation is initiated when Wnt9b from the ureteric bud acts on nephron progenitor cells in the metanephric mesenchyme. For mouse embryonic kidneys, this process can be studied in real time using ex vivo organ cultures…
View article: Cell state-specific cytoplasmic density controls spindle architecture and scaling
Cell state-specific cytoplasmic density controls spindle architecture and scaling Open
Mitotic spindles are dynamically intertwined with the cytoplasm they assemble in. How the physicochemical properties of the cytoplasm affect spindle architecture and size remains largely unknown. Using quantitative biochemistry in combinat…
View article: Dextromethorphan inhibits collagen and collagen-like cargo secretion to ameliorate lung fibrosis
Dextromethorphan inhibits collagen and collagen-like cargo secretion to ameliorate lung fibrosis Open
Excessive deposition of fibrillar collagen in the interstitial extracellular matrix (ECM) of human lung tissue causes fibrosis, which can ultimately lead to organ failure. Despite our understanding of the molecular mechanisms underlying th…
View article: Quantitative imaging of loop extruders rebuilding interphase genome architecture after mitosis
Quantitative imaging of loop extruders rebuilding interphase genome architecture after mitosis Open
How cells establish the interphase genome organization after mitosis is incompletely understood. Using quantitative and super-resolution microscopy, we show that the transition from a Condensin to a Cohesin-based genome organization occurs…
View article: Origins of<i>de novo</i>chromosome rearrangements unveiled by coupled imaging and genomics
Origins of<i>de novo</i>chromosome rearrangements unveiled by coupled imaging and genomics Open
Chromosomal instability results in widespread structural and numerical chromosomal abnormalities (CAs) during cancer evolution 1–3 . While CAs have been linked to mitotic errors resulting in the emergence of nuclear atypias 4–7 , the under…
View article: Quantitative imaging of loop extruders rebuilding interphase genome architecture after mitosis
Quantitative imaging of loop extruders rebuilding interphase genome architecture after mitosis Open
Summary How cells establish the interphase genome organization after mitosis is incompletely understood. Using quantitative and super-resolution microscopy, we show that the transition from a Condensin to a Cohesin-based genome organizatio…
View article: Targeted volume correlative light and electron microscopy of an environmental marine microorganism
Targeted volume correlative light and electron microscopy of an environmental marine microorganism Open
Photosynthetic microalgae are responsible for an important fraction of CO2 fixation and O2 production on Earth. Three-dimensional (3D) ultrastructural characterization of these organisms in their natural environment can contribute to a dee…
View article: HURP localization in metaphase is the result of a multi-step process requiring its phosphorylation at Ser627 residue
HURP localization in metaphase is the result of a multi-step process requiring its phosphorylation at Ser627 residue Open
Faithful chromosome segregation during cell division requires accurate mitotic spindle formation. As mitosis occurs rapidly within the cell cycle, the proteins involved in mitotic spindle assembly undergo rapid changes, including their int…
View article: RNA polymerase II depletion from the inactive X chromosome territory is not mediated by physical compartmentalization
RNA polymerase II depletion from the inactive X chromosome territory is not mediated by physical compartmentalization Open
View article: Dextromethorphan inhibits collagen transport in the endoplasmic reticulum eliciting an anti-fibrotic response in<i>ex-vivo</i>and<i>in vitro</i>models of pulmonary fibrosis
Dextromethorphan inhibits collagen transport in the endoplasmic reticulum eliciting an anti-fibrotic response in<i>ex-vivo</i>and<i>in vitro</i>models of pulmonary fibrosis Open
Excessive deposition of fibrillar collagen in the interstitial extracellular matrix (ECM) of human lung tissue causes fibrosis, which can ultimately lead to organ failure. Despite our understanding of the molecular mechanisms underlying th…
View article: Targeted volume Correlative Light and Electron Microscopy of an environmental marine microorganism
Targeted volume Correlative Light and Electron Microscopy of an environmental marine microorganism Open
Photosynthetic microalgae are responsible for an important fraction of CO 2 fixation and O 2 production on Earth. Three-dimensional ultrastructural characterization of these organisms in their natural environment can contribute to a deeper…
View article: Targeted volume Correlative Light and Electron Microscopy of environmental marine microorganisms
Targeted volume Correlative Light and Electron Microscopy of environmental marine microorganisms Open
View article: Regulation of the COPII secretory machinery via focal adhesions and extracellular matrix signaling
Regulation of the COPII secretory machinery via focal adhesions and extracellular matrix signaling Open
Proteins that enter the secretory pathway are transported from their place of synthesis in the endoplasmic reticulum to the Golgi complex by COPII-coated carriers. The networks of proteins that regulate these components in response to extr…
View article: Strength of interactions in the Notch gene regulatory network determines patterning and fate in the notochord
Strength of interactions in the Notch gene regulatory network determines patterning and fate in the notochord Open
Development of multicellular organisms requires the generation of gene expression patterns that determines cell fate and organ shape. Groups of genetic interactions known as Gene Regulatory Networks (GRNs) play a key role in the generation…
View article: Author response: Strength of interactions in the Notch gene regulatory network determines patterning and fate in the notochord
Author response: Strength of interactions in the Notch gene regulatory network determines patterning and fate in the notochord Open
View article: Quantitative imaging reveals PI3Kδ inhibition reduces rhinovirus-induced damage of small airway epithelia in ex vivo cultured human precision cut lung slices from COPD patients
Quantitative imaging reveals PI3Kδ inhibition reduces rhinovirus-induced damage of small airway epithelia in ex vivo cultured human precision cut lung slices from COPD patients Open
Chronic obstructive pulmonary disease (COPD) is one of the major causes of disability and death worldwide and a significant risk factor for respiratory infections. Rhinoviral infections are the most common trigger of COPD exacerbations whi…
View article: Strength of interactions in the Notch gene regulatory network determines patterning and fate in the notochord
Strength of interactions in the Notch gene regulatory network determines patterning and fate in the notochord Open
Development of multicellular organisms requires the generation of gene expression patterns that determines cell fate and organ shape. Groups of genetic interactions known as Gene Regulatory Networks (GRNs) play a key role in the generation…
View article: Pairwise effects between lipid GWAS genes modulate lipid plasma levels and cellular uptake
Pairwise effects between lipid GWAS genes modulate lipid plasma levels and cellular uptake Open
View article: Data for integrative modeling of the Nuclear Pore Complex from Schizosaccharomyces pombe
Data for integrative modeling of the Nuclear Pore Complex from Schizosaccharomyces pombe Open
Repository with input and output files utilized for integrative modeling of the Nuclear Pore Complex from Schizosaccharomyces pombe.
View article: Data for integrative modeling of the Nuclear Pore Complex from Schizosaccharomyces pombe
Data for integrative modeling of the Nuclear Pore Complex from Schizosaccharomyces pombe Open
Repository with input and output files utilized for integrative modeling of the Nuclear Pore Complex from Schizosaccharomyces pombe.
View article: An open-source semi-automated robotics pipeline for embryo immunohistochemistry
An open-source semi-automated robotics pipeline for embryo immunohistochemistry Open
View article: RNA polymerase II depletion from the inactive X chromosome territory is not mediated by physical compartmentalization
RNA polymerase II depletion from the inactive X chromosome territory is not mediated by physical compartmentalization Open
Sub-nuclear compartmentalization has been proposed to play an important role in gene regulation by segregating active and inactive parts of the genome in distinct physical and biochemical environments, where transcription and epigenetic fa…
View article: A high throughput SEC23 functional interaction screen reveals a role for focal adhesion and extracellular matrix signalling in the regulation of COPII subunit SEC23A
A high throughput SEC23 functional interaction screen reveals a role for focal adhesion and extracellular matrix signalling in the regulation of COPII subunit SEC23A Open
Proteins that enter the secretory pathway are transported from their place of synthesis in the Endoplasmic Reticulum to the Golgi complex by COPII coated carriers. The components of the COPII transport machinery have been well characterize…
View article: An integrated multiomic and quantitative label-free microscopy-based approach to study pro-fibrotic signalling in <i>ex vivo</i> human precision-cut lung slices
An integrated multiomic and quantitative label-free microscopy-based approach to study pro-fibrotic signalling in <i>ex vivo</i> human precision-cut lung slices Open
Fibrosis can affect any organ, resulting in the loss of tissue architecture and function with often life-threatening consequences. Pathologically, fibrosis is characterised by the expansion of connective tissue due to excessive deposition …
View article: Pairwise genetic interactions modulate lipid plasma levels and cellular uptake
Pairwise genetic interactions modulate lipid plasma levels and cellular uptake Open
SUMMARY Genetic interactions (GIs), the joint impact of different genes or variants on a phenotype, are foundational to the genetic architecture of complex traits. However, identifying GIs through human genetics is challenging since it nec…
View article: Dense and pleiotropic regulatory information in a developmental enhancer
Dense and pleiotropic regulatory information in a developmental enhancer Open
View article: Nuclear pores constrict upon energy depletion
Nuclear pores constrict upon energy depletion Open
Nuclear pore complexes (NPCs) fuse the inner and outer nuclear membranes and mediate nucleocytoplasmic exchange. They are made of 30 different nucleoporins that form an intricate cylindrical architecture around an aqueous central channel. …
View article: A solid‐phase transfection platform for arrayed <scp>CRISPR</scp> screens
A solid‐phase transfection platform for arrayed <span>CRISPR</span> screens Open
Since the publication of this study, it has come to our attention that a citation to the study by Bulkescher et al (2017) was omitted from the Introduction. The following sentence should have been included in the introduction: “A previousl…