Digital resources - Ha Noi university of science and technology

Browsing by Subject proteomics

Jump to: 0-9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
or enter first few letters:

Showing results 1 to 8 of 8

Journal article

AlphaPeptStats: an open-source Python package for automated, scalable and industrial-strength statistical analysis of mass spectrometry-based proteomics

Authors : Krismer, Elena (2023)

The widespread application of mass spectrometry (MS)-based proteomics in biomedical research increasingly requires robust, transparent and streamlined solutions to extract statistically reliable insights. Existing, popular tools were generally developed for specific uses in academic environments and did not fully embrace current open-source principles and best practices of software engineering. We have designed and implemented AlphaPeptStats, an inclusive python package with broad&#...

Journal article

Cross-species proteomic and microRNA comparison of extracellular vesicles in human milk, cow’s milk, and infant formula products: moving towards next generation infant formula products

Authors : Turner, Natalie P. (2023)

Milk and milk products such as infant formula (IF) play a fundamental role in serving the nutritional 15 needs of the developing infant. Extracellular vesicles (EVs) in human (HM) and cow’s milk (CM) contain 16 molecular cargo such as proteins and micro(mi)RNA that serve as functional messengers between cells 17 and may be of importance to infant health. Here, we have developed a pipeline using advanced 18 proteomics and transcriptomics to...

Journal article

Deep and fast label-free Dynamic Organellar Mapping

Authors : Schessner, Julia P. (2023)

The Dynamic Organellar Maps (DOMs) approach combines cell fractionation and shotgun-proteomics for global profiling analysis of protein subcellular localization. Here, we have drastically enhanced the performance of DOMs through data-independent acquisition (DIA) mass spectrometry (MS). DIA-DOMs achieve twice the depth of our previous workflow in the same MS runtime, and substantially improve profiling precision and reproducibility. We leveraged this gain to e...

Journal article

Detectability of biotin tags by LC-MS/MS

Authors : Nierves, Lorenz (2021)

The high affinity of biotin to streptavidin has made it one of the most widely used affinity tags in proteomics. Early methods used biotin for enrichment alone and mostly ignored the biotin labeled peptide. Recent advances in labeling led to an increase in biotinylation efficiency and shifted the interest to detection of the site of biotinylation. This increased confidence in identification and provides additional structural information�...

Journal article

Increasing proteome depth while maintaining quantitative precision in short gradient data-independent acquisition proteomics

Authors : Doellinger, Joerg (2023)

The combination of short liquid chromatography (LC) gradients and data independent acquisition (DIA) by mass spectrometry (MS) has proven its huge potential for high-throughput proteomics. This methodology benefits from the speed of the latest generation of mass spectrometers, which enable short MS cycle times needed to provide sufficient sampling of sharp LC peaks. However, the optimization of isolation window schemes resulting in a certain num...

Journal Article

SARS-CoV-2 Nonstructural Proteins 3 and 4 tune the Unfolded Protein Response

Authors : Davies, Jonathan P. (2023)

Coronaviruses (CoV), including SARS-CoV-2, modulate host proteostasis through activation of stress-responsive signaling pathways such as the Unfolded Protein Response (UPR), which remedies misfolded protein accumulation by attenuating translation and increasing protein folding capacity. While CoV nonstructural proteins (nsps) are essential for infection, little is known about the role of nsps in modulating the UPR. We characterized the impact of SARS-CoV-2 ns...

Journal Article

The bigger picture: global analysis of solubilization performance of classical detergents versus new synthetic polymers utilizing shotgun proteomics

Authors : Mueller, Stefan (2023)

Integral membrane proteins are critical for many cellular functions. Roughly 25% of all human genes 12 code for membrane proteins, and about 70% of all approved drugs target them. Despite their 13 importance, laborious and harsh purification conditions often hinder their characterization. 14 Traditionally, they are removed from the membrane using detergents, thereby taking the proteins out 15 of their native environment, affecting their function. Recently, a&...

Journal Article

Urine-HILIC: Automated sample preparation for bottom-up urinary proteome profiling in clinical proteomics

Authors : Govender, Ireshyn (2023)

The study of the human urinary proteome is becoming increasingly popular in clinical proteomics studies. Large volumes of samples are readily available with minimal invasiveness, and, in addition, soluble proteins and peptides de- rived from various tissues and organs are also filtered in urine, which can reflect more general health problems [1]. Plasma was long considered the best biofluid choice for biomarker discovery studies. However, the main ...