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ProteomicsEnzyme and Chemical Assisted N-Terminal Blocked Peptides Analysis, ENCHANT, as a Selective Proteomics Approach Complementary to Conventional Shotgun Approach
Shotgun (bottom-up) approach has been widely applied in large-scale proteomics studies. The inherent shortages of shotgun approach lie in that the generated peptides often overwhelm the analytical capacity of current LC-MS/MS systems and that abundant proteins often hamper the identification of prot...
ORGANISM(S): Homo sapiens (Human) 
2017-11-30 | PXD007863 | Pride
Dia Single-charge ion inclusion N-terminal blocked peptides Cnbr-activated sepharose 4b 
ProteomicsInclusion bodies formed by polyglutamine and poly(glycine-alanine) are enriched with distinct proteomes but converge in proteins that are risk factors for disease and involved in protein degradation
Poly(glycine-alanine) (polyGA) is one of the dipolypeptides expressed in Motor Neuron Disease caused by C9ORF72 mutations and accumulates as inclusion bodies in the brain of patients. Superficially these inclusions are similar to those formed by polyglutamine (polyQ) in Huntington’s disease and both...
ORGANISM(S): Mus musculus (Mouse) 
2020-08-18 | PXD018824 | Pride
Huntington Aggregates C9prf72 Polyga 
TranscriptomicsGene expression profiles in zebrafish brain after acute exposure to domoic acid at symptomatic and asymptomatic doses
Domoic acid (DA) is a neuroexcitatory amino acid that is naturally produced by some marine diatom species of the genus Pseudo-nitzschia. Ingestion of DA-contaminated seafood by humans results in a severe neurotoxic disease known as amnesic shellfish poisoning (ASP). Clinical signs of ASP include s...
ORGANISM(S): Danio rerio 
2009-07-06 | E-GEOD-12140 | biostudies-arrayexpress
ProteomicsSystematic optimization of C-TAILS approach for deep screening of C-terminomics
It is well known that protein C-termini play important roles in various biological processes, and thus the precise characterization of C-termini is essential for fully elucidating protein structure and understanding protein functions. Although many efforts have been made in the fields during the lat...
ORGANISM(S): Escherichia coli 
2015-09-15 | PXD002409 | Pride
Protein c-termini Acetylation Scii 
ProteomicsSlx5/8 alleviates replication stress by promoting mitotic progression
MCM-10 vs. wild type yeast differential analysis using label-free relative quantification and directed mass spectometry using RIPPER. Loss of Mcm10 causes replication stress. We uncovered that S. cerevisiae mcm10-1 mutants rely on the SUMO-targeted E3 ubiquitin ligase complex Slx5/8 and SUMO network...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2016-04-05 | PXD002607 | Pride
Yeast Directed mass spectrometry Lc-ms/ms 
ProteomicsChlamydia trachomatis effector Dre1 interacts with dynactin to reposition host organelles during infection.
Chlamydia trachomatis is an obligate intracellular pathogen that replicates within a specialized membrane-bound compartment, the inclusion. Chlamydia species express a unique class of effectors, Incs, which are translocated from the bacteria by a Type III secretion system and are inserted into the i...
ORGANISM(S): Chlamydia trachomatis Chlamydia trachomatis Homo sapiens (Human) 
2025-03-31 | PXD028543 | Pride
Chlamydia Human Protein-protein interaction 
ProteomicsInstaNovo enables diffusion-powered de novo peptide identification in large scale proteomics experiments
Bottom-up mass spectrometry-based proteomics is challenged by the task of identifying the peptide that generates a tandem mass spectrum. Traditional methods that rely on known peptide sequence databases are limited and may not be applicable in certain contexts. De novo peptide sequencing, which assi...
ORGANISM(S): Homo sapiens (Human) 
2025-01-07 | PXD044934 | Pride
Peptidomics Machine learning Protein sequencing Proteomics De novo sequencing 
ProteomicsChlamydia trachomatis effector Tri1 interacts with TRAF7 to displace native TRAF7 interactors
Chlamydia trachomatis is the leading cause of bacterial sexually transmitted infections in the US and preventable blindness worldwide. This obligate intracellular pathogen replicates within a membrane-bound inclusion, but how it acquires nutrients from the host while avoiding detection by the innate...
ORGANISM(S): Homo sapiens (Human) Chlamydia trachomatis 
2024-05-05 | PXD049432 | Pride
Chlamydia trachomatis Apms 
ProteomicsMitochondrial fuels ATP in the nucleus to prevent cell cycle arrest during mechanical confinement
Abstract The physical microenvironment regulates cell behaviour during tissue development and disease. Whether mechanical stress and physical space constraints reshape the subcellular localization of organelles and proteins resulting in functional adaptations is, however, unknown. Here, we performed...
ORGANISM(S): Homo sapiens (Human) 
2025-06-12 | PXD043524 | Pride
Confinement Nuclear atp Mitochondria Cell cycle Nucleus Dna damage 
ProteomicsPhaseolus vulgaris infiltrated with cWP and water
Primary leaves of 10-day-old Phaseolus vulgaris (common bean) variety Black Valentine plants were infiltrated with 30 uM cWP or water (control) using a flat-nosed 1 mL syringe. The two primary leaves on each plant were each infiltrated 8 times (4 times on each half leaf) with a single compound. In...
ORGANISM(S): Phaseolus Vulgaris (ncbitaxon:3885) 
2024-10-22 | MSV000096165 | MassIVE
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