RAId_aPS: MS/MS analysis with multiple scoring functions and spectrum-specific statistics (Q33754694)

29 July 2017

title

RAId_aPS: MS/MS analysis with multiple scoring functions and spectrum-specific statistics (English)

1 reference

29 July 2017

0 references

Gelio Alves

1 reference

29 July 2017

Aleksey Y Ogurtsov

series ordinal

1 reference

29 July 2017

Yi-Kuo Yu

series ordinal

1 reference

29 July 2017

language of work or name

English

0 references

publication date

16 November 2010

1 reference

29 July 2017

1 reference

29 July 2017

1 reference

29 July 2017

1 reference

29 July 2017

page(s)

e15438

1 reference

Creative Commons CC0 License

29 July 2017

start time

16 November 2010

1 reference

April 2022 Public Data File from Crossref

copyrighted, dedicated to the public domain by copyright holder

0 references

cites work

An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Statistical calibration of the SEQUEST XCorr function

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Improving sensitivity in proteome studies by analysis of false discovery rates for multiple search engines

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Statistical design of quantitative mass spectrometry-based proteomic experiments

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

RAId_DbS: mass-spectrometry based peptide identification web server with knowledge integration

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Spectral probabilities and generating functions of tandem mass spectra: a strike against decoy databases

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Enhancing peptide identification confidence by combining search methods

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Calibrating E-values for MS2 database search methods

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

RAId_DbS: peptide identification using database searches with realistic statistics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

The minimum information about a proteomics experiment (MIAPE)

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Assessing bias in experiment design for large scale mass spectrometry-based quantitative proteomics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Retrieval accuracy, statistical significance and compositional similarity in protein sequence database searches

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

General framework for developing and evaluating database scoring algorithms using the TANDEM search engine

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

A uniform proteomics MS/MS analysis platform utilizing open XML file formats

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Robust accurate identification of peptides (RAId): deciphering MS2 data using a structured library search with de novo based statistics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

TANDEM: matching proteins with tandem mass spectra

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

A method for assessing the statistical significance of mass spectrometry-based protein identifications using general scoring schemes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

ProbID: a probabilistic algorithm to identify peptides through sequence database searching using tandem mass spectral data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Distribution of glutamine and asparagine residues and their near neighbors in peptides and proteins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2982831

Semi-supervised learning for peptide identification from shotgun proteomics datasets.

21 June 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0015438

A fast SEQUEST cross correlation algorithm

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0015438

Rapid and accurate peptide identification from tandem mass spectra

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0015438

Improving sensitivity by probabilistically combining results from multiple MS/MS search methodologies

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0015438

Statistical Characterization of a 1D Random Potential Problem - with applications in score statistics of MS-based peptide sequencing

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21103371

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Experimental Protein Mixture for Validating Tandem Mass Spectral Analysis

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21103371

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0015438

1 reference

29 July 2017

0 references

1 reference

1 reference

29 July 2017

1 reference