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Mass spectrometry‐based high‐throughput proteomics and its role in biomedical studies and systems biology
There are multiple reasons why the next generation of biological and medical studies
require increasing numbers of samples. Biological systems are dynamic, and the effect of a …
require increasing numbers of samples. Biological systems are dynamic, and the effect of a …
The dynamic fungal genome: polyploidy, aneuploidy and copy number variation in response to stress
P Vande Zande, X Zhou… - Annual review of …, 2023 - annualreviews.org
Fungal species have dynamic genomes and often exhibit genomic plasticity in response to
stress. This genome plasticity often comes with phenotypic consequences that affect fitness …
stress. This genome plasticity often comes with phenotypic consequences that affect fitness …
Cancer aneuploidies are shaped primarily by effects on tumour fitness
J Shih, S Sarmashghi, N Zhakula-Kostadinova… - Nature, 2023 - nature.com
Aneuploidies—whole-chromosome or whole-arm imbalances—are the most prevalent
alteration in cancer genomes,. However, it is still debated whether their prevalence is due to …
alteration in cancer genomes,. However, it is still debated whether their prevalence is due to …
The proteomic landscape of genome-wide genetic perturbations
Functional genomic strategies have become fundamental for annotating gene function and
regulatory networks. Here, we combined functional genomics with proteomics by quantifying …
regulatory networks. Here, we combined functional genomics with proteomics by quantifying …
Human aneuploid cells depend on the RAF/MEK/ERK pathway for overcoming increased DNA damage
Aneuploidy is a hallmark of human cancer, yet the molecular mechanisms to cope with
aneuploidy-induced cellular stresses remain largely unknown. Here, we induce …
aneuploidy-induced cellular stresses remain largely unknown. Here, we induce …
[HTML][HTML] Cell-cell metabolite exchange creates a pro-survival metabolic environment that extends lifespan
Metabolism is deeply intertwined with aging. Effects of metabolic interventions on aging
have been explained with intracellular metabolism, growth control, and signaling. Studying …
have been explained with intracellular metabolism, growth control, and signaling. Studying …
Slice-PASEF: fragmenting all ions for maximum sensitivity in proteomics
We present Slice-PASEF, a novel mass spectrometry technology based on trapped ion
mobility separation of ions. Slice-PASEF allows to achieve the theoretical maximum of …
mobility separation of ions. Slice-PASEF allows to achieve the theoretical maximum of …
Oxonium ion scanning mass spectrometry for large-scale plasma glycoproteomics
Protein glycosylation, a complex and heterogeneous post-translational modification that is
frequently dysregulated in disease, has been difficult to analyse at scale. Here we report a …
frequently dysregulated in disease, has been difficult to analyse at scale. Here we report a …
Comparative modeling reveals the molecular determinants of aneuploidy fitness cost in a wild yeast model
J Rojas, J Hose, HA Dutcher, M Place, JF Wolters… - Cell Genomics, 2024 - cell.com
Although implicated as deleterious in many organisms, aneuploidy can underlie rapid
phenotypic evolution. However, aneuploidy will be maintained only if the benefit outweighs …
phenotypic evolution. However, aneuploidy will be maintained only if the benefit outweighs …
Cellular control of protein levels: A systems biology perspective
How cells regulate protein levels is a central question of biology. Over the past decades,
molecular biology research has provided profound insights into the mechanisms and the …
molecular biology research has provided profound insights into the mechanisms and the …