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MRMaid specifications

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Unique identifier OMICS_04532
Name MRMaid
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for MRMaid

MRMaid citations

 (7)
library_books

Nitric oxide mediated inhibition of antigen presentation from DCs to CD4+ T cells in cancer and measurement of STAT1 nitration

2017
PMCID: 5684213
PMID: 29133913
DOI: 10.1038/s41598-017-14970-0

[…] in addition, the detection of the transitions of one peptide ion fragment to a smaller peptide fragment in the mass spectrometer can be developed experimentally or with prediction programs such as mrmaid. large scale srm efforts have been undertaken. in one such effort 319 proteins important in breast cancer were studied and the mrm data corresponds to the molecular subtyping of luminal […]

library_books

Database of Optimized Proteomic Quantitative Methods for Human Drug Dispositionā€Related Proteins for Applications in Physiologically Based Pharmacokinetic Modeling

2017
PMCID: 5397556
PMID: 28074615
DOI: 10.1002/psp4.12170

[…] of peptides per protein was reduced to a maximum of three based on the outlined criteria, as well as an analysis of tandem mass spectrometry (ms/ms) fragmentation data reported by peptideatlas, mrmaid data, and srmatlas ranking., from the original list of proteins, 107 clinically relevant dmes were selected for further method validation and application to in vivo samples. dmes were defined […]

library_books

Exploring the potential of public proteomics data

2015
PMCID: 4738454
PMID: 26449181
DOI: 10.1002/pmic.201500295

[…] for specific proteins in a given instrumental setup can be found. note that it is also possible to develop tools to look for novel transitions in publicly available shotgun datasets. for example, mrmaid , peptidepicker , , and proteomicsdb do this by reusing identification data coming from pride and other sources., one particular type of data reuse, already popular in other disciplines, […]

library_books

Managing the green proteomes for the next decade of plant research

2013
PMCID: 3864100
PMID: 24379820
DOI: 10.3389/fpls.2013.00501

[…] analysis of this model legume plant (rose et al., )., the proteomics community has created an array of online tools that can be used to support various technical approaches in mass spectrometry. the mrmaid utility was designed to facilitate the selection of peptides for targeted proteomic analyses (fan et al., ). the tool leverages plant spectral information housed in the pride repository […]

library_books

Targeted Quantitation of Proteins by Mass Spectrometry

2013
PMCID: 3674507
PMID: 23517332
DOI: 10.1021/bi400110b

[…] just as criteria for selecting target peptides exist, characteristic peptide fragmentations empirically found to provide a high signal intensity have been described. several software tools, such as mrmaid, srmatlas, mrmer, and marimba, for facilitating transition selection have been described. because mrm assays are largely conducted with triple quadrupole instruments (see below), optimization […]

library_books

In silico design of targeted SRM based experiments

2012
PMCID: 3489541
PMID: 23176520
DOI: 10.1186/1471-2105-13-S16-S8

[…] the mrm atlas webpage (http://www.mrmatlas.org/) and several tools emerged that make use of known information to design srm assays. examples for srm design platforms include skyline [,], as well as mrmaid [,]. such tools have become indispensable in the design for targeted proteomics experiments. while these tools allow for an efficient construction of transition information from public data […]


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