(Q34719011)

4 August 2017

title

Improving peptide identification sensitivity in shotgun proteomics by stratification of search space (English)

1 reference

4 August 2017

1 reference

Gelio Alves

1

1 reference

4 August 2017

Yi-Kuo Yu

series ordinal

2

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4 August 2017

publication date

29 May 2013

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Journal of Proteome Research

4 August 2017

published in

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4 August 2017

volume

12

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4 August 2017

issue

6

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4 August 2017

page(s)

2571-2581

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BuildSummary: using a group-based approach to improve the sensitivity of peptide/protein identification in shotgun proteomics

4 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=3753091

Large improvements in MS/MS-based peptide identification rates using a hybrid analysis

7 July 2018

1 reference

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Comment on "Unbiased statistical analysis for multi-stage proteomic search strategies".

7 July 2018

1 reference

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Assigning statistical significance to proteotypic peptides via database searches

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Computational analysis of unassigned high-quality MS/MS spectra in proteomic data sets

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Techniques for accurate protein identification in shotgun proteomic studies of human, mouse, bovine, and chicken lenses

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Data maximization by multipass analysis of protein mass spectra

7 July 2018

1 reference

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Altered proteolytic events in experimental autoimmune encephalomyelitis discovered by iTRAQ shotgun proteomics analysis of spinal cord

7 July 2018

1 reference

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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=3753091

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

7 July 2018

1 reference

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Membrane protein identification: N-terminal labeling of nontryptic membrane protein peptides facilitates database searching

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Does trypsin cut before proline?

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

RAId_DbS: peptide identification using database searches with realistic statistics

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Whole proteome analysis of post-translational modifications: applications of mass-spectrometry for proteogenomic annotation

7 July 2018

1 reference

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How do shotgun proteomics algorithms identify proteins?

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Current trends in computational inference from 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=3753091

Protein identification by spectral networks 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=3753091

Improving gene annotation using peptide 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=3753091

Identification of post-translational modifications via blind search of 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=3753091

Statistical significance for genomewide 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=3753091

Linking genome and proteome by mass spectrometry: large-scale identification of yeast proteins from two dimensional gels

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Fast and accurate identification of semi-tryptic peptides in shotgun proteomics

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Efficient and specific trypsin digestion of microgram to nanogram quantities of proteins in organic-aqueous solvent systems

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Trypsin cleaves exclusively C-terminal to arginine and lysine residues

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

Head-to-Head Comparison of Serum Fractionation Techniques

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3753091

9 December 2018

Identifiers

DOI

10.1021/PR301139Y

1 reference

4 August 2017

1 reference

4 August 2017

1 reference