MixGF: spectral probabilities for mixture spectra from more than one peptide (Q34635051)

3 August 2017

title

MixGF: spectral probabilities for mixture spectra from more than one peptide (English)

1 reference

3 August 2017

2

Philip E Bourne

0 references

Nuno Bandeira

series ordinal

3

object named as

Nuno Bandeira

1 reference

3 August 2017

Jian Wang

1

1 reference

3 August 2017

publication date

15 September 2014

1 reference

Molecular & Cellular Proteomics

3 August 2017

published in

1 reference

3 August 2017

volume

13

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3 August 2017

issue

12

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3 August 2017

page(s)

3688-3697

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Accurate peptide fragment mass analysis: multiplexed peptide identification and quantification

3 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Peptide identification by database search of mixture tandem mass spectra

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Assigning spectrum-specific P-values to protein identifications by mass spectrometry

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

More than 100,000 detectable peptide species elute in single shotgun proteomics runs but the majority is inaccessible to data-dependent LC-MS/MS.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Understanding the improved sensitivity of spectral library searching over sequence database searching in proteomics data analysis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Andromeda: a peptide search engine integrated into the MaxQuant environment

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

The generating function of CID, ETD, and CID/ETD pairs of tandem mass spectra: applications to database search

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Proteomics on an Orbitrap benchtop mass spectrometer using all-ion fragmentation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Quantifying the impact of chimera MS/MS spectra on peptide identification in large-scale proteomics studies.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Improving protein and proteome coverage through data-independent multiplexed peptide fragmentation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Peptide identification from mixture tandem mass spectra

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Deconvolution of mixture spectra from ion-trap data-independent-acquisition tandem mass spectrometry

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Repeatability and reproducibility in proteomic identifications by liquid chromatography-tandem mass spectrometry

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Network-assisted protein identification and data interpretation in shotgun proteomics

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Database searching and accounting of multiplexed precursor and product ion spectra from the data independent analysis of simple and complex peptide mixtures

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Statistical calibration of the SEQUEST XCorr function

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Precursor-ion mass re-estimation improves peptide identification on hybrid instruments

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Spectral dictionaries: Integrating de novo peptide sequencing with database search of tandem mass spectra

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Detection of co-eluted peptides using database search methods

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

A high-quality catalog of the Drosophila melanogaster proteome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Development and validation of a spectral library searching method for peptide identification from MS/MS.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Use of an integrated MS--multiplexed MS/MS data acquisition strategy for high-coverage peptide mapping studies

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

UPLC/MS(E); a new approach for generating molecular fragment information for biomarker structure elucidation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

ProbIDtree: an automated software program capable of identifying multiple peptides from a single collision-induced dissociation spectrum collected by a tandem mass spectrometer

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Open mass spectrometry search algorithm

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

A hypergeometric probability model for protein identification and validation using tandem mass spectral data and protein sequence databases

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Mass spectrometry-based proteomics

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Large-scale analysis of the yeast proteome by multidimensional protein identification technology

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

De novo peptide sequencing via tandem mass spectrometry

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4256515

Identification of tryptic peptides from large databases using multiplexed tandem mass spectrometry: simulations and experimental results

7 July 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.O113.037218

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.O113.037218

Semisupervised model-based validation of peptide identifications in mass spectrometry-based proteomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.O113.037218

Deconvolution of mixture spectra and increased throughput of peptide identification by utilization of intensified complementary ions formed in tandem mass spectrometry.

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.O113.037218

Quality assessments of peptide-spectrum matches in shotgun proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FMCP.O113.037218

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/25225354

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1074/MCP.O113.037218

1 reference

3 August 2017

1 reference

3 August 2017

1 reference