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ProteomicsExtracellular vesicles impose quiescence and confer DNA-damage on residual HSC in the AML niche
To understand the mechanism by which AML-EVs may enforce quiescence, we performed tandem mass tag (TMT) proteomic profiling of in vitro cultured c-Kit+ hematopoietic stem and progenitor cells (HSPC) (to obtain the minimum required amount of protein lysates) treated with extracellular vesicles (EVs) ...
ORGANISM(S): Mus musculus (Mouse) 
2019-06-24 | PXD013688 | Pride
Aml-derived extracellular vesicles Isobaric labeling Proteomics Bone marrow Acute myeloid leukemia (aml) Mouse Tandem mass tags 
ProteomicsMHC class I loaded ligands from breast cancer cell lines: A potential HLA-I-typed antigen collection
We sought to build a catalog of epitopes presented by breast cancers using a renewable resource of well-characterized breast cancer cell lines. Starting from 70 breast cancer cell lines, we measured MHC class I abundance and used pre-existing RNAseq data to identify either HLA-A*02 or MHC class I-po...
ORGANISM(S): Homo sapiens (Human) 
2018-01-16 | PXD006406 | Pride
Immune system Mass spectrometry Human Mhc class 1 ligands Hla typing Peptide sequencing Breast cancer Cell lines Immunoprecipitation Rna-seq 
ProteomicsComparing Endocervical Mucus Proteome of Humans and Rhesus Macaques
Endocervical mucus changes play a key role in regulating fertility throughout the menstrual cycle and in response to hormonal contraceptives. Non-human primates (NHP) provide the most translational animal model for reproductive tract studies, as they have hormonally-regulated menstrual cycles and mu...
ORGANISM(S): Homo sapiens (Human) Macaca mulatta (Rhesus macaque) 
2021-05-21 | PXD021710 | Pride
Human Tmt labeling Endocervical mucus Quantitative proteomics Primate 
ProteomicsThe Nodding Syndrome Cerebrospinal Fluid Proteome: A Lens into Neurodevelopmental Failure
Nodding Syndrome (NS), a pediatric epileptic encephalopathy of East Africa, has long defied etiological classification. Here, we report high-resolution untargeted proteomics of cerebrospinal fluid from Ugandan NS patients and controls that reveals widespread disruption across immune, proteostatic, s...
ORGANISM(S): Homo sapiens (Human) 
2026-01-20 | PXD068754 | Pride
Epilepsy Mars-14 depletion Sps-ms3 Cerebrospinal fluid (csf) Mass spectrometry Mia Biotoxins Tauopathy Neurodevelopment Tmtpro Nodding syndrome Mecp2 Isobaric labeling quantitative proteomics 
ProteomicsIdentification of PKC-alpha dependent phosphoproteins in mouse retina
Adjusting to a wide range of light intensities is an essential feature of retinal rod bipolar cell (RBC) function, and persuasive evidence suggests this modulation involves phosphorylation by protein kinase C-alpha (PKC-alpha). PKC-alpha is a serine/threonine kinase that is strongly expressed in RBC...
ORGANISM(S): Mus musculus (Mouse) 
2019-07-15 | PXD012906 | Pride
Mouse Isobaric labeling Protein kinase c-alpha Quantitative proteomics Signaling Retina 
ProteomicsPlatelet proteome dynamics in hibernating 13-lined ground squirrels
Hibernating mammals undergo a dramatic drop in temperature and blood flow during torpor and must suppress hemostasis to avoid stasis blood clotting. In addition, cold storage of most mammalian platelets induces cold storage lesions, resulting in rapid clearance following transfusion. 13-lined ground...
ORGANISM(S): Ictidomys tridecemlineatus arenicola 
2021-12-08 | PXD026903 | Pride
Platelets Platelet cold storage Psr-ohsu Platelet transfusion Hibernation Torpor Tmt labeling Quantitative proteomics 
ProteomicsProteome-transcriptome analysis and proteome remodeling in mouse lens epithelium and fibers
Epithelial cells and differentiated fiber cells represent distinct compartments in the ocular lens. While previous studies have revealed proteins that are preferentially expressed in epithelial vs. fiber cells, a comprehensive proteomics library comparing the molecular composition of epithelial vs. ...
ORGANISM(S): Mus musculus (Mouse) 
2019-03-05 | PXD009639 | Pride
Transcriptome Mouse lens Mass spectrometry Differentiation Transcription factors Proteome Rna-seq 
ProteomicsMicroRNA137-loaded lipid nanoparticles regulate synaptic proteins in the prefrontal cortex
Genome-wide association studies indicate allele variants in MIR137, the host gene of microRNA-137 (miR137), confer an increased risk of schizophrenia (SCZ). Expression of miR137 and its targets, many of which regulate synaptic functioning, are also associated with an increased risk of SCZ. As a resu...
ORGANISM(S): Mus musculus (Mouse) 
2023-09-05 | PXD041648 | Pride
Schizophrenia Isobaric labeling Prefrontal cortex Mass spectrometry Lipid nanoparticle Personalized medicine Microrna Quantitative proteomics Synaptic proteins 
ProteomicsPresynaptic proteins in the orbitofrontal cortex predict Alcohol Use Disorder
Alcohol use disorder (AUD) is a life-threatening disease characterized by compulsive drinking, cognitive deficits, and social impairment that continue despite negative consequences, which are driven by dysfunction of cortical areas, such as the orbitofrontal cortex (OFC), that normally balances deci...
ORGANISM(S): Homo sapiens (Human) 
2023-10-09 | PXD041727 | Pride
Machine learning Alcohol drinking Isobaric labeling Alcohol use disorder Sexual dimorphism Mass spectrometry Ap2a1 Orbitofrontal cortex Mitochondria Quantitative proteomics Presynapses Extracellular matrix 
ProteomicsAnalysis of mouse lens morphological and proteomic abnormalities following depletion of the betaB3-crystallin
Crystallin proteins serve as both essential structural and protective components of the ocular lens required for its transparency and light refraction. The mouse lens crystallin proteome is represented by alphaA-, alphaB-, betaA1-, betaA2-, betaA3-, betaA4-, betaB1-, betaB2-, betaB3-, gammaA-, gamma...
ORGANISM(S): Mus musculus (Mouse) 
2025-09-01 | PXD059220 | Pride
Cytoplasm Isobaric labeling Cataract Proteomes Betab3-crystallin Lens Quantitative proteomics 
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