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ProteomicsDevelopment of a Trypanosoma cruzi Strain Typing Assay using MS2 peptide spectral libraries (Tc-STAMS2)
Chagas disease is one of the most important neglected diseases with an estimated number of 12 million infected individuals, the majority living in Central and South America. The Trypanosoma cruzi (T.cruzi) protozoan parasite is the etiological agent of Chagas disease. T.cruzi is highly genetically d...
ORGANISM(S): Trypanosoma cruzi 
2018-03-19 | PXD008088 | Pride
Trypanosoma cruzi  discrete typing units (dtus)  mass spectrometry  spectral matching  strain typing methods 
ProteomicsQuantification of amyloid protein enrichment by mass spectrometry improves typing of amyloidosis
Amyloidosis typing is crucial to determine the best therapeutic strategy for patients. Since conventional histological techniques often fail, the identification of amyloid precursors by mass spectrometry became the new standard. However, without quantification, selecting the amyloid precursor from p...
ORGANISM(S): Homo sapiens (Human) 
2026-05-25 | PXD039814 | Pride
Proteomics Mass spectrometry Label-free quantification Amyloidosis typing 
ProteomicsCardiac amyloidosis typing by S-Trap-based protocol and intensity-based diagnostic algorithm
Proposal of an S-Trap-based proteomics workflow for amyloid typing of EMBs coupled with a scoring algorithm based on protein intensities.The protocol and the algorithm have been validated by the comparison of MS-based diagnosis with immunohistochemistry diagnosis and patient clinical data. The study...
ORGANISM(S): Homo sapiens (Human) 
2026-08-18 | PXD082501 | Pride
Diagnostic algorithm Laser-capture microdissection Cardiac amyloidosis Microproteomics Typing software 
ProteomicsMS-based amyloidosis typing in FFPE tissue samples
Amyloidoses are characterized by the pathological deposition of non-degradable misfolded protein fibrils. Precise identification of the fibril-forming protein is crucial for prognosis and correct therapeutic intervention. Here, we present a reproduceable method for amyloid typing using relative quan...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2025-03-06 | MSV000097248 | MassIVE
ProteomicsPrecise diagnosis and typing of early-stage renal immunoglobulin-derived amyloidosis by label-free quantification of parallel reaction monitoring-based targeted proteomics
Untargeted proteomics based precise diagnosis and typing of amyloid deposits are crucial for guiding patient management. However, it may not be suitable for early-stage renal amyloidosis with minor damages. Here, we aimed to develop parallel reaction monitoring (PRM)-based targeted proteomics to ach...
ORGANISM(S): Homo sapiens (Human) 
2023-03-10 | PXD038265 | Pride
Laser microdissection Amyloidosis Kidney Parallel reaction monitoring Targeted proteomics 
ProteomicsHigh-throughput Proteomics fiber typing (ProFiT) for comprehensive characterization of single skeletal muscle fibers
Skeletal muscles are composed of a heterogeneous collection of fiber types with different physiological adaption in response to a stimulus and disease-related conditions. Each fiber has a specific molecular expression of myosin heavy chain molecules (MyHC). So far MyHCs are currently the best marker...
ORGANISM(S): Mus musculus (Mouse) 
2021-02-02 | PXD017755 | Pride
Muscle fiber proteomics Protein turnover Phosphoproteomics Myhc profiling 
TranscriptomicsEvaluation of the amplicons for SNP typing (allele bias) and locus bias using Illumina 550-Duo BeadChip
Highly specific amplification of complex DNA pools without bias or template-independent products (TIPs) remains a challenge. We have developed a procedure using phi29 DNA polymerase and trehalose and optimized control of amplification to create micrograms of specific amplicons without TIPs from down...
ORGANISM(S): Homo sapiens 
2010-06-25 | E-GEOD-12732 | biostudies-arrayexpress
TranscriptomicsContribution of serotype and genetic background to virulence of serotype 3 and serogroup 11 pneumococcal isolates.
The capsular serotype has long been associated with the virulence of Streptococcus pneumoniae. Here we present an in-depth study of phenotypic and genetic differences between serotype 3 and serogroup 11 S. pneumoniae clinical isolates from both the general and indigenous populations of Australia. Bo...
ORGANISM(S): Streptococcus pneumoniae 
2011-12-01 | E-BUGS-126 | biostudies-arrayexpress
TranscriptomicsGenotyping by array of Pseudomonas aeruginosa strains causing chronic or acute infections in humans
Genotyping of 182 Pseudomonas aeruginosa strains causing chronic or acute infections to humans
ORGANISM(S): Pseudomonas aeruginosa 
2012-08-02 | E-MTAB-1108 | biostudies-arrayexpress
ProteomicsTCUP: Typing and characterization of bacteria using bottom-up tandem mass spectrometry proteomics
Methods for rapid and reliable microbial identification are essential in modern healthcare. The ability to detect and correctly identify pathogenic species and their resistance phenotype is necessary for accurate diagnosis and efficient treatment of infectious diseases. Bottom-up tandem mass spectro...
ORGANISM(S): Escherichia coli 
2017-04-20 | PXD004321 | Pride
Tandem mass spectrometry Bottom-up Proteotyping 
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