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MetabolomicsIdentification of the modifications in artificial E. coli rRNAs
Ribosome biogenesis is pivotal in the self-replication of life. In Escherichia coli, three ribosomal RNAs and 54 ribosomal proteins are synthesized and subjected to cooperative hierarchical assembly facilitated by numerous accessory factors. Realizing ribosome biogenesis in vitro is a critical miles...
2024-12-09 | MTBLS7425 | MetaboLights
ProteomicsSystematic characterization of 21 post-translational modification using synthetic peptides
The data presented in this study in the - context of the ProteoemTools project - is based on the synthesis of about 5000 synthetic peptides carrying 21 different post-translational modifications to systematically characterize their chromatographic and mass spectrometric properties using multimodal L...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-04-05 | MSV000091649 | MassIVE
ProteomicsProteomic Analysis of Protein in Human Fingerprints and Artificial Fingerprints
Quantitative genomic and proteomic evaluation of human latent fingerprint depositions represents a challenge within the forensic field, due to the high variability in the amount of DNA and protein initially deposited. To better assess recovery techniques for touch depositions, we present a method to...
ORGANISM(S): Homo sapiens (Human) 
2019-09-26 | PXD015445 | Pride
Forensics Artificial fingerprint Latent fingerprint Protemics 
ProteomicsEvaluation of the Effect of Trypsin Digestion Buffers on Artificial Deamidation
This work comprehensively compared 50 mM of ammonium acetate (pH 6), Tris-HCl (pH 8), ABC and TEAB as in-solution trypsin digestion buffers. Both iTRAQ quantification and label-free results indicate that ammonium acetate (pH 6) is more suitable than other buffers for studying endogenous deamidation ...
ORGANISM(S): Rattus norvegicus (Rat) 
2022-02-28 | PXD001650 | Pride
Rat Kidney Artificial deamidation 
UnknownSelf-backpropagation of synaptic modifications elevates the efficiency of spiking and artificial neural networks.
Not available
S-EPMC8528419 | biostudies-literature
ProteomicsMitigating in-column artificial modification in HTLC for bottom-up proteomics and quality control of biopharmaceuticals
The study aimed to investigate the effect of an additional short trap column installed upstream of the separation column on the in-column artificial modification and separation performance in high-temperature LC-MS analyses of peptides.
ORGANISM(S): Francisella tularensis subsp. holarctica (strain LVS) Homo sapiens (Human) 
2024-09-11 | PXD052716 | Pride
Biopharmaceuticals High-temperature liquid chromatography Column temperature Trap column Bottom-up proteomics Artifacts 
ProteomicsRefinement of paramagnetic bead–based digestion protocol for automatic sample preparation using an artificial neural network
Despite technological advances in the proteomics field, sample preparation still represents the main bottleneck in mass spectrometry (MS) analysis. Bead-based protein aggregation techniques have recently emerged as an efficient, reproducible, and high-throughput alternative for protein extraction an...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) Mus musculus (Mouse) Homo sapiens (Human) Escherichia coli Rattus norvegicus (Rat) 
2024-05-31 | PXD048358 | Pride
Bile Magnetic beads Protein aggregation Sp3 protein digestion Artificial neural network 
ProteomicsPeptide artificial formylation in bottom–up proteomics analyses
The primary objective of this study was to explain excessive formylation rate of peptides that did not come in contact with concentrated formic acid.
ORGANISM(S): Francisella tularensis subsp. holarctica 
2020-06-10 | PXD016597 | Pride
Bottom–up proteomics Formic acid Peptide formylationartificial modifications  bottom–up proteomics  formic acid  peptide formylation Artificial modifications 
OtherBase-resolution analysis of deoxyuridine at genome scale based on artificial incorporation modified nucleobase
Deoxyuridine (dU) in DNA can result from deamination of cytosine and dUMP misincorporation. The easy single-nucleotide resolution assay for dU are crucial to understanding its role in genome. Herein, we present a new concept of “base substitution” for accurate single-nucleotide resolution profiling ...
ORGANISM(S): Homo sapiens 
2021-03-22 | GSE142071 | GEO
ProteomicsEvaluation and minimization of nonspecific tryptic cleavages in proteomic sample preparation
Dataset for evaluation of nonspecific cleavages and artificial modifications using E.coli and A549 cells
ORGANISM(S): Homo Sapiens Escherichia Coli 
2020-01-19 | PXD017186 |
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