(Q33411375)

26 July 2017

title

MassMatrix: a database search program for rapid characterization of proteins and peptides from tandem mass spectrometry data (English)

1 reference

26 July 2017

0 references

Michael A Freitas

2

0 references

author name string

Hua Xu

series ordinal

1

1 reference

26 July 2017

publication date

1 March 2009

1 reference

26 July 2017

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26 July 2017

volume

9

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26 July 2017

issue

6

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26 July 2017

page(s)

1548-1555

1 reference

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

26 July 2017

0 references

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

A mass accuracy sensitive probability based scoring algorithm for database searching of tandem mass spectrometry data

21 June 2018

1 reference

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Verification of automated peptide identifications from proteomic 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=2759086

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=2759086

Dynamic range of mass accuracy in LTQ Orbitrap hybrid mass spectrometer

21 June 2018

1 reference

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Performance evaluation of a hybrid linear ion trap/orbitrap mass spectrometer

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Performance of a linear ion trap-Orbitrap hybrid for peptide analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Parts per million mass accuracy on an Orbitrap mass spectrometer via lock mass injection into a C-trap

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Peptide mass mapping of acetylated isoforms of histone H4 from mouse lymphosarcoma cells treated with histone deacetylase (HDACs) inhibitors

21 June 2018

1 reference

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An evaluation, comparison, and accurate benchmarking of several publicly available MS/MS search algorithms: sensitivity and specificity analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Large-scale database searching using tandem mass spectra: looking up the answer in the back of the book

21 June 2018

1 reference

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Open source system for analyzing, validating, and storing protein identification 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=2759086

Open mass spectrometry search algorithm

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

The ABC's (and XYZ's) of peptide sequencing

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

The International Protein Index: an integrated database for proteomics 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=2759086

ProSight PTM: an integrated environment for protein identification and characterization by top-down 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=2759086

Statistical models for protein validation using tandem mass spectral data and protein amino acid sequence 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=2759086

A hypergeometric probability model for protein identification and validation using tandem mass spectral data and protein sequence 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=2759086

OLAV: towards high-throughput tandem mass spectrometry data identification

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

The central role of receiver operating characteristic (ROC) curves in evaluating tests for the early detection of cancer

21 June 2018

1 reference

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Peptide end sequencing by orthogonal MALDI tandem 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=2759086

Probability-based validation of protein identifications using a modified SEQUEST algorithm

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

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=2759086

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=2759086

RADARS, a bioinformatics solution that automates proteome mass spectral analysis, optimises protein identification, and archives data in a relational database

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Informatics and multiplexing of intact protein identification in bacteria and the archaea

21 June 2018

1 reference

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SCOPE: a probabilistic model for scoring tandem mass spectra against a peptide database.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Probability-based protein identification by searching sequence databases using mass spectrometry 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=2759086

Role of accurate mass measurement (+/- 10 ppm) in protein identification strategies employing MS or MS/MS and database searching.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Delayed extraction improves specificity in database searches by matrix-assisted laser desorption/ionization peptide maps

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Error-tolerant identification of peptides in sequence databases by peptide sequence tags

21 June 2018

1 reference

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Enhanced analysis of metastatic prostate cancer using stable isotopes and high mass accuracy instrumentation.

21 June 2018

1 reference

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Optimization and use of peptide mass measurement accuracy in shotgun proteomics.

31 October 2018

1 reference

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Central limit theorem as an approximation for intensity-based scoring function

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Peptide sequencing using a patchwork approach and surface-induced dissociation in sector-TOF and dual quadrupole mass spectrometers.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

GutenTag: high-throughput sequence tagging via an empirically derived fragmentation model

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

Intensity-based statistical scorer for tandem mass spectrometry.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

SALSA: a pattern recognition algorithm to detect electrophile-adducted peptides by automated evaluation of CID spectra in LC-MS-MS analyses

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2759086

31 October 2018

Identifiers

DOI

10.1002/PMIC.200700322

1 reference

26 July 2017

1 reference

26 July 2017

1 reference