SRMstats statistics

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Associated diseases

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SRMstats specifications

Information


Unique identifier OMICS_03321
Name SRMstats
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for SRMstats

SRMstats in publications

 (8)
PMCID: 5540199
PMID: 28775826
DOI: 10.1186/s13229-017-0151-y

[…] proteins previously implicated in the tsc1 +/− mouse pathology were measured using a targeted srm mass spectrometry approach as described previously [, ] following the guidelines of lange et al. []. srmstats was used at default settings []. the final transitions, collision energy and retention time windows used for each peptide can be requested., we investigated protein abundance changes […]

PMCID: 5322275
PMID: 27001617
DOI: 10.1038/mp.2016.27

[…] after each biological replicate. resulting srm data were analysed using skyline and statistical analysis, testing for differential abundance among df(a)16+/− and wild-type mice, was conducted using srmstats with the ‘expanded technical replication' setting. data quality was checked using quality plots in the msstats package and by employing pca on the raw data. p-values were corrected […]

PMCID: 4368887
PMID: 25609598
DOI: 10.1093/ijnp/pyu019

[…] dehydrogenase; supplementary table s3b) were run alternately after every biological replicate. resulting srm data were analyzed using skyline and protein significance analysis was performed using srmstats (). for the first stage, data pre-processing was performed by transforming all transition intensities into log2-values. then a constant normalization was conducted based on reference […]

PMCID: 4368865
PMID: 25539505
DOI: 10.1093/ijnp/pyu015

[…] after every biological replicate. resulting srm data were analyzed using skyline and explanatory data analysis (quality assessment), and model-based statistical analysis was conducted using srmstats (). the data preprocessing consisted of a log2 transformation of the data to stabilise the variance. a constant normalization was performed based on reference transitions for all proteins […]

PMCID: 4236472
PMID: 25406498
DOI: 10.1186/s12974-014-0181-8

[…] and transformed by the logarithm base 2 and protein-level quantification, and testing for differential abundance were performed using a linear mixed-effects model as implemented in software package srmstats []., comparisons of csf levels for candidate proteins in a partially independent cohort of cis patients who converted to cdms and cis patients who remained with cis revealed statistically […]


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