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UnknownDe novo peptide sequencing by deep learning.
Not available
S-EPMC5547637 | biostudies-literature
UnknownAccurate de novo peptide sequencing using fully convolutional neural networks.
Not available
S-EPMC10693636 | biostudies-literature
ProteomicsDe novo peptide sequencing by deep learning
Including all training and testing datasets, pretrained models, and source code of DeepNovo.
ORGANISM(S): Escherichia Coli (ncbitaxon:562) Homo Sapiens (ncbitaxon:9606) Saccharomyces Cerevisiae (ncbitaxon:4932) Apis Mellifera (ncbitaxon:7460) Pseudomonas Aeruginosa (ncbitaxon:287) Drosophila Melanogaster (ncbitaxon:7227) Bacillus <bacterium> (ncbitaxon:1386) Vigna Mungo (ncbitaxon:3915) Solanum Lycopersicum (ncbitaxon:4081) Mus Musculus (ncbitaxon:10090) Methanosarcina Mazei (ncbitaxon:2209) Caenorhabditis Elegans (ncbitaxon:6239) Candidatus Endoloripes 
2017-07-25 | MSV000081382 | MassIVE
UnknownThe impact of noise and missing fragmentation cleavages on de novo peptide identification algorithms.
Not available
S-EPMC8956878 | biostudies-literature
UnknownpNovo 3: precise de novo peptide sequencing using a learning-to-rank framework.
Not available
S-EPMC6612832 | biostudies-literature
ProteomicsDe novo sequencing of DIA data
Testing datasets and pre-trained model for DeepNovo, a deep learning-based tool for de novo sequencing of DIA data.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2018-05-16 | MSV000082368 | MassIVE
ProteomicsDeep Coverage and Extended Sequence Reads Obtained with a Single Archaeal Protease Expedite de novo Protein Sequencing by Mass Spectrometry
Label-free protein sequencing is critically enabled by bottom-up, mass spectrometry-based proteomics workflows. Applications such as antibody sequencing or antigen discovery require de novo reconstruction of peptide and protein sequences. While trypsin has long served as the gold-standard protease i...
ORGANISM(S): Homo sapiens (Human) 
2026-03-17 | PXD063988 | Pride
Hta-proteases Hybrid fragmentation by eacid De novo antibody sequencing Bottom-up proteomics 
ProteomicsA complete peptidome workflow for neoantigen identification and validation by mass spectrometry-based immunopeptidomics
We proposed a complete workflow for neoantigen identification and validation based solely on MS immunopeptidomics.We first developed a new Neo DiscoveryTM immunopeptidome enrichment Kit, which can be used for HLA peptide purification from a small amount of biopsied tissue as low as 18mg. To achieve ...
ORGANISM(S): Homo sapiens (Human) 
2024-05-04 | PXD046370 | Pride
Neoantigen Immunopeptidomics Lc-ms/ms 
UnknownPowerNovo: de novo peptide sequencing via tandem mass spectrometry using an ensemble of transformer and BERT models.
Not available
S-EPMC11217302 | biostudies-literature
UnknownDeep Coverage and Extended Sequence Reads Obtained with a Single Archaeal Protease Expedite <i>de novo</i> Protein Sequencing by Mass Spectrometry.
Not available
S-EPMC12154832 | biostudies-literature
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