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ProteomicsProtamine characterization by top-down proteomics: Boosting proteoform identification with DBSCAN
Protamines replace histones as the main nuclear protein in sperm cells having a crucial role in compacting the paternal genome. Human spermatozoa contain the protamine 1 (P1) and the family of protamine 2 (P2) proteins. Alterations in protamine PTMs or on the P1/P2 ratio could be associated with mal...
ORGANISM(S): Homo sapiens (Human) 
2021-05-13 | PXD024405 | Pride
Male infertility  sperm  protamine  lc-ms/ms  top down proteomics  proteoform  post-translational modifications  bioinformatics  dbscan. 
ProteomicsCharacterization of human sperm protamine proteoforms through a combination of top-down and bottom-up mass spectrometry approaches
Protamine 1 (P1) and protamine 2 family (P2) are the most abundant nuclear basic spermspecific proteins, packing 85-95% of the paternal DNA. P1 is synthesized as a mature form, whereas P2 components (HP2, HP3 and HP4) arise from the proteolysis of the precursor (pre-P2). Due to the particular protam...
ORGANISM(S): Homo sapiens (Human) 
2019-11-11 | PXD014618 | Pride
Protamines  sperm  post-translational modifications  phosphorylation  nonannotated proteins  male infertility. Top-down proteomics  bottom-up proteomics  proteoforms  electron transfer dissociation 
ProteomicsProteomic tools for the quantitative analysis of artificial peptide libraries: detection and characterization of target-amplified PD-1 inhibitors
We report a quantitative proteomics data analysis pipeline which, coupled to protein-directed dynamic combinatorial chemistry (DDC) experiments, enables the rapid discovery and direct characterization of protein-protein interaction (PPI) modulators. A low-affinity PD-1 binder was incubated with a li...
ORGANISM(S): Homo sapiens (Human) 
2022-04-19 | PXD028412 | Pride
Medicinal chemistry Drug discovery Mass spectrometry 
ProteomicsDirect evidence of the presence of cross-linked Aβ dimers in the brains of Alzheimer’s disease patients
Brain-derived amyloid-β (Aβ) dimers are associated with Alzheimer´s disease (AD). However, their covalent nature remains controversial. This feature is relevant, as a covalent cross-link would make brain-derived dimers (native dimers) more synaptotoxic than Aβ monomers and would make them suitable c...
ORGANISM(S): Homo sapiens (Human) 
2021-05-13 | PXD005657 | Pride
Alzheimer’s disease Amyloid-β Oxidative stress Cross-linked dimers 
ProteomicsGlycopeptide identification by LC-MS/MS
Automatic and rapid identification of glycopeptides by nano-uplc-ltq-ft-ms and proteomic search engine
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) 
2016-12-23 | PXD003578 | Pride
Glycopeptide Lc-ms/ms Byonic 
ProteomicsComparative analyses of vertebrate CPEB-family of proteins define two sub-families with distinct, but coordinated, functions in post-transcriptional regulation of gene expression
Background: The vertebrate CPEB-family of RNA-binding proteins promote translational repression or activation of their target mRNAs, which harbor cytoplasmic polyadenylation elements (CPEs) in their 3’ UTRs, through cytoplasmic changes in their poly(A) tail lengths. However, their regulation(s) and ...
ORGANISM(S): Xenopus laevis (African clawed frog) 
2022-10-05 | PXD030419 | Pride
Mrna translation Deadenylation Cpeb Phosphorylation Ccr4-not complex Phase-separation Bioid 3’utr 
ProteomicsTLK2-associated intellectual disability: report of six novel cases and molecular characterization of p.(Asp551Gly) and p.(Ser617Leu) variants
Introduction The Tousled-Like Kinases 1 and 2 (TLK1 and TLK2) are involved in many fun-damental processes, including DNA replication, cell cycle checkpoint recovery and chromatin remodelling. Mutations in TLK2 were recently associated with “Mental Retardation Autoso-mal Dominant 57” (MRD57), a neuro...
ORGANISM(S): Homo sapiens (Human) 
2021-05-13 | PXD019450 | Pride
Tousled like kinases Tlk2 Autism spectrum disorder Proximal interac-tome Comet assay Bioid Intellectual disability Chromatin condensation Mrd57 
ProteomicsComparative analyses of vertebrate CPEB-family of proteins define two sub-families with distinct, but coordinated, functions in post-transcriptional regulation of gene expressionComparative analyses of vertebrate CPEB-family of proteins define two sub-families with distinct, but coordinated, functions in post-transcriptional regulation of gene expression
Background: The vertebrate CPEB-family of RNA-binding proteins promote translational repression or activation of their target mRNAs, which harbor cytoplasmic polyadenylation elements (CPEs) in their 3’ UTRs, through cytoplasmic changes in their poly(A) tail lengths. However, their regulation(s) and ...
ORGANISM(S): Xenopus laevis (African clawed frog) 
2022-10-05 | PXD030480 | Pride
Mrna translation Deadenylation Cpeb Phosphorylation Ccr4-not complex Phase-separation Bioid 3’utr 
ProteomicsComparative analyses of vertebrate CPEB-family of proteins define two sub-families with distinct, but coordinated, functions in post-transcriptional regulation of gene expression
Background: The vertebrate CPEB-family of RNA-binding proteins promote translational repression or activation of their target mRNAs, which harbor cytoplasmic polyadenylation elements (CPEs) in their 3’ UTRs, through cytoplasmic changes in their poly(A) tail lengths. However, their regulation(s) and ...
ORGANISM(S): Xenopus laevis (African clawed frog) 
2022-10-05 | PXD033349 | Pride
Mrna translation Deadenylation Cpeb Phosphorylation Ccr4-not complex Phase-separation Bioid 3’utr 
ProteomicsIdentification and drug-induced reversion of molecular signatures of Alzheimer´s disease onset and progression in AppNL-G-F, AppNL-F and 3xTg-AD mouse models
Alzheimer´s disease (AD) is the most common form of dementia. Over fifty years of intense research have revealed many key elements of the biology of this neurodegenerative disorder. However, our understanding of the molecular bases of the disease is still incomplete, and the available medical treatm...
ORGANISM(S): Mus musculus (Mouse) 
2021-10-12 | PXD024538 | Pride
Proteomics Data-driven drug discovery Alzheimer’s disease Transcriptomics In vivo models. 
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