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plexDIA: sensitive proteomics with simultaneous deep coverage, high throughput, low missing data.

plexDIA: sensitive proteomics with simultaneous deep coverage, high throughput, low missing data.

Although current mass-spectrometry (MS) methods can separately achieve deep proteome coverage, low missing data, high throughput, or high sensitivity, simultaneous combination of these has remained challenging. Here Derks et al. …

plexDIA: sensitive proteomics with simultaneous deep coverage, high throughput, low missing data. Read More »

CDK4/6 inhibitors: critical regulation of T-cell memory fate commitment in tumour microenvironment.

CDK4/6 inhibitors: critical regulation of T-cell memory fate commitment in tumour microenvironment.

Pharmacologic inhibitors of cyclin-dependent kinases 4 and 6 (CDK4/6) have well-defined tumour-intrinsic cytostatic mechanisms. They are an approved treatment for hormone receptor–positive breast cancer and currently under evaluation in numerous …

CDK4/6 inhibitors: critical regulation of T-cell memory fate commitment in tumour microenvironment. Read More »

MS3 for TMT, not me! TMTProC- improved MS2 accuracy and sensitivity using complementary ions.

MS3 for TMT, not me! TMTProC- improved MS2 accuracy and sensitivity using complementary ions.

Quantitative multiplexed proteomic techniques, such as TMT, are a powerful tool for analysing and quantifying proteins in a cell. These techniques rely on the quantification of reporter ions that are …

MS3 for TMT, not me! TMTProC- improved MS2 accuracy and sensitivity using complementary ions. Read More »

On chip: multiplexed low input TMT-labelled quantitative proteomics with digital microfluidics.

On chip: multiplexed low input TMT-labelled quantitative proteomics with digital microfluidics.

Digital microfluidics (DMF) technology facilitates miniaturised, automated, multiplexed liquid handling in multiple bioanalytical applications. However, in LC-MS-based proteomics its use has been limited to qualitative analysis, where the compatibility with …

On chip: multiplexed low input TMT-labelled quantitative proteomics with digital microfluidics. Read More »

Interactions between SARS-CoV-2 viral proteins and host proteins reveal mechanisms of infection

Interactions between SARS-CoV-2 viral proteins and host proteins reveal mechanisms of infection

The Covid-19 pandemic is an ongoing global pandemic that has created an immense burden on health and economic systems globally, with 100s of millions of infections and millions of deaths …

Interactions between SARS-CoV-2 viral proteins and host proteins reveal mechanisms of infection Read More »

‘Til death do us part: conformational change for MLKL, disengagement from RIPK3 in necroptosis.

‘Til death do us part: conformational change for MLKL, disengagement from RIPK3 in necroptosis.

Necroptosis is a lytic form of programmed cell death that is dysregulated in multiple human pathologies. Originating as a host defence mechanism against invading pathogens, necroptosis is triggered by various …

‘Til death do us part: conformational change for MLKL, disengagement from RIPK3 in necroptosis. Read More »

PP2A, CDK9 transcription checkpoint interplay? Check! Targetable tumorigenesis inhibitor? Check!

PP2A, CDK9 transcription checkpoint interplay? Check! Targetable tumorigenesis inhibitor? Check!

RNA polymerase II (RNAPII)-driven transcription is a highly conserved process with distinct checkpoints, each controlled by dedicated transcriptional cyclin-dependent kinases (CDKs). CDK9 controls the pause-release checkpoint following transcription initiation. CDK …

PP2A, CDK9 transcription checkpoint interplay? Check! Targetable tumorigenesis inhibitor? Check! Read More »

Cell surface proteomics reveals major new targets for regulation by MARCH proteins.

Cell surface proteomics reveals major new targets for regulation by MARCH proteins.

MARCH proteins are membrane-associated Ring-CH E3 ubiquitin ligases that ubiquitinate and regulate cell surface expression of major histocompatibility complexes I and II as well as T- and B-cell co-activation receptors, …

Cell surface proteomics reveals major new targets for regulation by MARCH proteins. Read More »

The truth about aging; proteomic characterisation of young and old mouse hematopoietic stem and progenitor cells.

The truth about aging; proteomic characterisation of young and old mouse hematopoietic stem and progenitor cells.

Haematopoietic stem cells (HSCs) are responsible for continuous renewal of blood and immune cells, capable of both self-renewal and differentiation into effector cells. The balance of these processes is critical …

The truth about aging; proteomic characterisation of young and old mouse hematopoietic stem and progenitor cells. Read More »

Caution! Distinct glycosylation of SARS-CoV-2 RBD shed new light in its binding characteristics.

Caution! Distinct glycosylation of SARS-CoV-2 RBD shed new light in its binding characteristics.

Globally, SARS-CoV-2 coronavirus has infected over 100 million individuals, caused millions of deaths, and dramatically impacted everyday life. The coronavirus is an enveloped RNA virus whose membrane spike glycoprotein – …

Caution! Distinct glycosylation of SARS-CoV-2 RBD shed new light in its binding characteristics. Read More »

Single-Cell Proteomics and the SCoPE2 method with Associate Professor Nikolai Slavov

Single-Cell Proteomics and the SCoPE2 method with Associate Professor Nikolai Slavov

I was fortunate to sit down with Associate Professor Nikolai Slavov to chat about the SCoPE2 method, an improvement on the previously developed SCoPE-MS method, using multiplexed LC-ESI-MS/MS for single-cell …

Single-Cell Proteomics and the SCoPE2 method with Associate Professor Nikolai Slavov Read More »

G4 nucleic acid structures act as extra-chromosomal inhibitors in ISG cancer gene regulation.

G4 nucleic acid structures act as extra-chromosomal inhibitors in ISG cancer gene regulation.

DNA typically forms a right-handed double helix under physiological conditions but can also form higher-order structures such as a G-quadruplex (G4), formed by guanine-rich nucleic acid sequences. About 10,000 of …

G4 nucleic acid structures act as extra-chromosomal inhibitors in ISG cancer gene regulation. Read More »

Targeted tyrosine phosphorylation profiling in precision oncology using SureQuant pTyr.

Targeted tyrosine phosphorylation profiling in precision oncology using SureQuant pTyr.

Tyrosine phosphorylation (pTyr) plays a pivotal role in signal transduction and is commonly dysregulated in cancer, so profiling tumour pTyr levels may reveal therapeutic insights critical to combating disease. However, …

Targeted tyrosine phosphorylation profiling in precision oncology using SureQuant pTyr. Read More »

Phosphoproteomics with EasyPhos V2: Shorter workflow. Better sensitivity on limited starting material.

Phosphoproteomics with EasyPhos V2: Shorter workflow. Better sensitivity on limited starting material.

Mass spectrometry-based proteomics has transformed the study of cell signalling, enabling global studies of dynamic protein phosphorylation. A widespread post-translational modification, phosphorylation regulates almost all cellular processes, with two-thirds of …

Phosphoproteomics with EasyPhos V2: Shorter workflow. Better sensitivity on limited starting material. Read More »

Club bouncer: the ubiquitin system dynamically regulates mitochondrial import at the TOM complex.

Club bouncer: the ubiquitin system dynamically regulates mitochondrial import at the TOM complex.

Mitochondria import almost their entire proteome from the cytoplasm by translocating precursor proteins through the translocase of the outer membrane (TOM) complex, embedded in the mitochondrial surface. The mitochondrial import …

Club bouncer: the ubiquitin system dynamically regulates mitochondrial import at the TOM complex. Read More »

Big data and structural proteomics allow epitope mapping of over 100,000 antigen-nanobody complexes.

Big data and structural proteomics allow epitope mapping of over 100,000 antigen-nanobody complexes.

The humoral antibody immune response is universal and critical for the survival of mammals, including humans. However, there is a lack of understanding of the antibody immune response mechanisms. Studying …

Big data and structural proteomics allow epitope mapping of over 100,000 antigen-nanobody complexes. Read More »

Hitching timsTOF to the proteogenomics wagon takes autoantibody clonal analysis to the next level of sensitivity.

Hitching timsTOF to the proteogenomics wagon takes autoantibody clonal analysis to the next level of sensitivity.

Pulmonary alveolar proteinosis (PAP) is a disorder causing accumulation of surfactant material in the lung. The autoimmune variant (aPAP) predominates, thought to be caused by elevated levels of granulocyte-macrophage colony-stimulating …

Hitching timsTOF to the proteogenomics wagon takes autoantibody clonal analysis to the next level of sensitivity. Read More »

diaPASEF: taking deep analysis of complex proteomes with DIA workflows into a new di(a)mension.

diaPASEF: taking deep analysis of complex proteomes with DIA workflows into a new di(a)mension.

In recent years mass spectrometry-based proteomics workflows have become ever more powerful in analysing complex proteomes to great depth. Data-independent acquisition (DIA) approaches are particularly attractive due to their reproducibility …

diaPASEF: taking deep analysis of complex proteomes with DIA workflows into a new di(a)mension. Read More »