Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

All-in-one microfluidic platform for rapid and efficient sample preparation of single-cell proteomics with online digestion

ABSTRACT: We introduced a single-cell proteome microfluidic platform, integrating cell capture, lysis, protein reduction, alkylation and online digestion. The online enzymolysis facilitated the fast, efficient and all-in-one proteomic sample preparation, providing wide dynamic range and enhanced coverage of proteins.

ORGANISM(S): Homo Sapiens

SUBMITTER: Yu Bai

PROVIDER: PXD056637 | iProX | Wed Oct 09 00:00:00 BST 2024

REPOSITORIES: iProX

ACCESS DATA

Json Xml

Similar Datasets

All-in-one microfluidic platform of single-cell proteomic

Project description:we introduced a single-cell proteome microfluidic platform, integrating cell capture, lysis, protein reduction, alkylation and online digestion. The online enzymolysis facilitated the fast, efficient and all-in-one proteomic sample preparation, providing wide dynamic range and enhanced coverage of proteins.

2024-10-04 | PXD056589 |

An Automated Online Platform for Phosphoproteome Profiling

Project description:An Automated Online Platform for Phosphoproteome Profiling

2021-12-27 | PXD030655 |

Establish a rapid and efficient chemical reprogramming platform

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-05-03 | GSE188834 | GEO

Establish a rapid and efficient chemical reprogramming platform (RRBS)

Project description:Chemically reprogramming somatic cells to iPSCs is time-consuming and low-efficiency. Here, we discribe a rapid chemical reprogramming condition enabling generating iPSCs from MEFs in 12 days. To further investigate the mechemisms and draw an epigenetic maps during the rapid chemical reprogramming, we performed time-course RNA-seq, ATAC-seq, RRBS and CUT&Tag (H3K4me3, H3K18la, H3K9me3, H3K27me3 and H3K27ac).

2023-05-03 | GSE188831 | GEO

Establish a rapid and efficient chemical reprogramming platform (RNA-Seq)

2023-05-03 | GSE188830 | GEO

Establish a rapid and efficient chemical reprogramming platform (CUT&Tag)

2023-05-03 | GSE188826 | GEO

Establish a rapid and efficient chemical reprogramming platform (ATAC-Seq)

2023-05-03 | GSE188824 | GEO

Establish a rapid and efficient chemical reprogramming platform [scRNA-Seq]

Project description:Chemically reprogramming somatic cells to iPSCs is time-consuming and low-efficiency. Here, we discribe a rapid chemical reprogramming condition enabling generating iPSCs from MEFs in 12 days. To further investigate the mechemisms and draw an epigenetic maps during the rapid chemical reprogramming, we performed time-course RNA-seq, ATAC-seq, RRBS, CUT&Tag (H3K4me3, H3K18la, H3K9me3, H3K27me3 and H3K27ac) and scRNA-seq.

2023-05-03 | GSE218855 | GEO

Rapid Highly-Efficient Digestion and Peptide Mapping of Adeno-Associated Viruses.

Project description:Adeno-associated viruses (AAVs) comprise an area of rapidly growing interest due to their ability to act as a gene delivery vehicle in novel gene therapy strategies and vaccine development. Peptide mapping is a common technique in the biopharmaceutical industry to confirm the correct sequence, product purity, post-translational modifications (PTMs), and stability. However, conventional peptide mapping is time-consuming and has proven difficult to reproduce with viral capsids because of their high structural stability and the suboptimal localization of trypsin cleavage sites in the AAV protein sequences. In this study, we present an optimized peptide mapping-based workflow that provides thorough characterization within 1 day. This workflow is also highly reproducible due to its simplicity having very few steps and is easy to perform proteolytic digestion utilizing thermally stable pepsin, which is active at 70 °C in acidic conditions. The acidic conditions of the peptic digestions drive viral capsid denaturation and improve cleavage site accessibility. We characterized the efficiency and ease of digestion through peptide mapping of the AAV2 viral capsid protein. Using nanoflow liquid chromatography coupled with tandem mass spectrometry, we achieved 100% sequence coverage of the low-abundance VP1 capsid protein with a digestion process taking only 10 min to prepare and 45 min to complete the digestion.

| S-EPMC8743033 | biostudies-literature

Facile trypsin immobilization in polymeric membranes for rapid, efficient protein digestion.

Project description:Sequential adsorption of poly(styrene sulfonate) and trypsin in nylon membranes provides a simple, inexpensive method to create stable, microporous reactors for fast protein digestion. The high local trypsin concentration and short radial diffusion distances in membrane pores facilitate proteolysis in residence times of a few seconds, and the minimal pressure drop across the thin membranes allows their use in syringe filters. Membrane digestion and subsequent MS analysis of bovine serum albumin provide 84% sequence coverage, which is higher than the 71% coverage obtained with in-solution digestion for 16 h or the <50% sequence coverages of other methods that employ immobilized trypsin. Moreover, trypsin-modified membranes digest protein in the presence of 0.05 wt % sodium dodecyl sulfate (SDS), whereas in-solution digestion under similar conditions yields no peptide signals in mass spectra even after removal of SDS. These membrane reactors, which can be easily prepared in any laboratory, have a shelf life of several months and continuously digest protein for at least 33 h without significant loss of activity.

| S-EPMC3052767 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data