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ProteomicsDe novo sequencing of antibody light chain proteoforms from patients with multiple myeloma
In multiple myeloma diseases, monoclonal immunoglobulin light chains (LCs) are abundantly produced, with as a consequence in some cases the formation of deposits affecting various organs, such as kidney, while in other cases to remain soluble up to concentrations of several g.L-1 in plasma. The exac...
ORGANISM(S): Homo sapiens (Human) 
2021-08-11 | PXD025884 | Pride
Proteoforms Top-down proteomics Antibody Bottom-up proteomics De novo sequencing Light chain disease 
ProteomicsDe Novo Pyrimidine Synthesis Is a Collateral Metabolic Vulnerability in NF2-deficient Mesothelioma
Pleural mesothelioma (PM) is one of the deadliest cancers, with limited therapeutic options due to its therapeutically intractable genome, which is characterized by the functional inactivation of tumor suppressor genes (TSGs) and high tumor heterogeneity, including diverse metabolic adaptations. How...
ORGANISM(S): Homo sapiens (Human) 
2025-07-08 | PXD063342 | Pride
Metabolic diversity De novo pyrimidine synthesis Neurofibromin 2 (nf2) Pleural mesothelioma (pm) Synthetic lethality 
ProteomicsFat1 is atarget antigen in de novo allograft membranous nephropoathy associated with antibody mediated rejection.
Membranous nephropathy (MN) occurs either as recurrent or de novo MN in the kidney allograft. Recurrent MN is most often associated with antibodies to the target antigen M-type phospholipase A2 receptor (PLA2R). 1-3 Most cases of de novo MN are PLA2R-negative and the target antigen in unknown.2 We h...
ORGANISM(S): Homo sapiens (Human) 
2024-10-22 | PXD055559 | Pride
Kidney transplant. Fat1 De novo membranous nephropathy 
ProteomicsQuick and clean: Cracking E.coli’s code by LC-MS/MS, de novo sequencing, and dictionary search
In this study, we faced the challenge of deciphering a protein that has been designed and expressed by E.coli in such a way that the amino acid sequence encodes two concatenated English sentences. The sequence carried unknown modifications and cannot be found online. The letters ‘O’ and ‘U’ are both...
ORGANISM(S): Escherichia coli 
2020-05-26 | PXD012015 | Pride
Proteomics E.coli De novo sequencing 
ProteomicsRescue of Escherichia coli auxotrophy by de novo small proteins
Increasing numbers of small proteins with diverse physiological roles are being identified and characterized in both prokaryotic and eukaryotic systems, but the origins and evolution of these proteins remain unclear. Recent genomic sequence analyses in several organisms suggest that new functions en...
ORGANISM(S): Escherichia coli 
2023-03-31 | PXD040161 | Pride
Escherichia coli Rna-binding De novo gene evolution Gene regulation His operon Auxotroph Small proteins 
ProteomicsDe novo heterozygous variants in POLR2A cause a neurodevelopmental syndrome with infantile-onset hypotonia
  ABSTRACT POLR2A encodes RPB1, the largest subunit of the RNA polymerase II (pol II) complex, which is responsible for transcription of all ~21,000 protein-encoding genes. Here we describe the first fifteen patients harboring de novo heterozygous variants in POLR2A. The majority presents with profo...
ORGANISM(S): Homo sapiens (Human) 
2019-09-02 | PXD011355 | Pride
Rpb1 De novo heterozygous variants Polr2a Rna polymerase ii 
ProteomicsDnmt1 has de novo activity targeted to transposable elements
DNA methylation plays a critical role in development, particularly in repressing retrotransposons. The mammalian methylation landscape is dependent on the combined activities of the canonical maintenance enzyme Dnmt1 and the de novo Dnmts, 3a and 3b. Here we demonstrate that Dnmt1 displays de nov...
ORGANISM(S): Mus musculus (Mouse) 
2021-06-29 | PXD025736 | Pride
Dnmt1 Uhrf1 Retrotransposon Dna methylation 
ProteomicsDAXX adds a de novo H3.3K9me3 deposition pathway to the histone chaperone network (part 2)
A multitude of histone chaperones are required to support histones from their biosynthesis until DNA deposition. They cooperate through the formation of histone co-chaperone complexes, but the crosstalk between nucleosome assembly pathways remains enigmatic. Using exploratory interactomics, we defin...
ORGANISM(S): Homo sapiens (Human) 
2023-03-02 | PXD038263 | Pride
Asf1 Nucleosome assembly Epigenetics Hjurp Nasp Histone chaperone Gene silencing Heterochromatin Daxx 
ProteomicsDAXX adds a de novo H3.3K9me3 deposition pathway to the histone chaperone network (part 1)
A multitude of histone chaperones are required to support histones from their biosynthesis until DNA deposition. They cooperate through the formation of histone co-chaperone complexes, but the crosstalk between nucleosome assembly pathways remains enigmatic. Using exploratory interactomics, we defin...
ORGANISM(S): Homo sapiens (Human) 
2023-03-02 | PXD034888 | Pride
Asf1 Nucleosome assembly Epigenetics Hjurp Nasp Histone chaperone Gene silencing Heterochromatin Daxx 
ProteomicsDe novo protein synthesis occurs through cytoplasmic translation machinery in mammalian spermatozoa
For decades, it was widely accepted that mammalian spermatozoa were devoid of translational activity due to the functional and morphological changes that occurred during spermatogenesis. However, it was proved that capacitated spermatozoa possess translation activity, which appears to be ensured by ...
ORGANISM(S): Bos taurus (Bovine) 
2025-06-13 | PXD050868 | Pride
Spermatozoa  capacitation  protein translation  proteomics 
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