| scholarly article | Q13442814 |
| P356 | DOI | 10.1002/PMIC.201400185 |
| P698 | PubMed publication ID | 25354770 |
| P2093 | author name string | Matthew Bellgard | |
| Brett Chapman | |||
| P2860 | cites work | A ranking-based scoring function for peptide-spectrum matches | Q37216169 |
| Proteogenomic analysis of Bradyrhizobium japonicum USDA110 using GenoSuite, an automated multi-algorithmic pipeline | Q37289453 | ||
| An automated proteogenomic method uses mass spectrometry to reveal novel genes in Zea mays | Q37428819 | ||
| The spectral networks paradigm in high throughput mass spectrometry | Q37483521 | ||
| Origin and length distribution of unidirectional prokaryotic overlapping genes | Q41864017 | ||
| Protein identification pipeline for the homology-driven proteomics. | Q41978351 | ||
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| Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol. | Q43214369 | ||
| InsPecT: identification of posttranslationally modified peptides from tandem mass spectra | Q46259455 | ||
| HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics. | Q48336450 | ||
| The RAST Server: rapid annotations using subsystems technology | Q21263157 | ||
| MUSCLE: a multiple sequence alignment method with reduced time and space complexity | Q21284290 | ||
| Complete Genomic Sequence of Nitrogen-fixing Symbiotic Bacterium Bradyrhizobium japonicum USDA110 | Q22066066 | ||
| MUSCLE: multiple sequence alignment with high accuracy and high throughput | Q24613456 | ||
| Identifying bacterial genes and endosymbiont DNA with Glimmer | Q24653724 | ||
| Statistical significance for genomewide studies | Q24681264 | ||
| Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources | Q25257211 | ||
| Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration | Q28264933 | ||
| Prodigal: prokaryotic gene recognition and translation initiation site identification | Q29547611 | ||
| Proteogenomic database construction driven from large scale RNA-seq data | Q30651736 | ||
| Large gene overlaps in prokaryotic genomes: result of functional constraints or mispredictions? | Q33351790 | ||
| An integrated proteomics and transcriptomics reference data set provides new insights into the Bradyrhizobium japonicum bacteroid metabolism in soybean root nodules | Q33526797 | ||
| Proteogenomics of Pristionchus pacificus reveals distinct proteome structure of nematode models | Q33541813 | ||
| Template proteogenomics: sequencing whole proteins using an imperfect database | Q33883042 | ||
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| Shotgun proteomics aids discovery of novel protein-coding genes, alternative splicing, and "resurrected" pseudogenes in the mouse genome | Q34175322 | ||
| UniNovo: a universal tool for de novo peptide sequencing | Q34350819 | ||
| PepNovo: de novo peptide sequencing via probabilistic network modeling | Q34414526 | ||
| PRIDE: the proteomics identifications database | Q34436630 | ||
| False discovery rates in spectral identification | Q34486788 | ||
| GenomeTools: a comprehensive software library for efficient processing of structured genome annotations | Q35007572 | ||
| A two-step database search method improves sensitivity in peptide sequence matches for metaproteomics and proteogenomics studies. | Q36787600 | ||
| Clustering millions of tandem mass spectra | Q36869682 | ||
| Posterior error probabilities and false discovery rates: two sides of the same coin | Q37021209 | ||
| Assigning significance to peptides identified by tandem mass spectrometry using decoy databases | Q37027478 | ||
| Proteomics studies confirm the presence of alternative protein isoforms on a large scale | Q37038574 | ||
| Spectral probabilities and generating functions of tandem mass spectra: a strike against decoy databases | Q37209690 | ||
| P433 | issue | 23-24 | |
| P304 | page(s) | 2780-2789 | |
| P577 | publication date | 2014-12-01 | |
| P1433 | published in | Proteomics | Q15614164 |
| P1476 | title | High-throughput parallel proteogenomics: a bacterial case study | |
| P478 | volume | 14 |
| Q35856523 | A year (2014-2015) of plants in Proteomics journal. Progress in wet and dry methodologies, moving from protein catalogs, and the view of classic plant biochemists |
| Q47398821 | An integrative strategy to identify the entire protein coding potential of prokaryotic genomes by proteogenomics. |
| Q39388425 | GAPP: A Proteogenomic Software for Genome Annotation and Global Profiling of Post-translational Modifications in Prokaryotes. |
| Q59327076 | In-depth analysis of Bacillus subtilis proteome identifies new ORFs and traces the evolutionary history of modified proteins |
| Q35658689 | Metaproteomic analysis using the Galaxy framework. |
| Q30911195 | Navigating through metaproteomics data: a logbook of database searching |
| Q47817010 | Plant Proteogenomics: Improvements to the Grapevine Genome Annotation |
| Q38698565 | Proteogenomics of rare taxonomic phyla: A prospective treasure trove of protein coding genes |
| Q38327519 | Proteogenomics: emergence and promise. |
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