OpenMS: a flexible open-source software platform for mass spectrometry data analysis (Q28278187)

20

0 references

Knut Reinert

26

0 references

Stephan Aiche

Stephan Aiche

3

0 references

George Rosenberger

George Rosenberger

15

0 references

Hannes L. Röst

Hannes L Röst

1

0 references

Lars Malmström

Lars Malmström

24

0 references

Jyoti Choudhary

Jyoti S Choudhary

23

0 references

Ruedi Aebersold

25

Ruedi Aebersold

0 references

author name string

Timo Sachsenberg

2

0 references

Chris Bielow

4

0 references

Hendrik Weisser

5

0 references

Fabian Aicheler

6

0 references

Sandro Andreotti

7

0 references

Hans-Christian Ehrlich

8

0 references

Petra Gutenbrunner

9

0 references

Erhan Kenar

10

0 references

Xiao Liang

11

0 references

Sven Nahnsen

12

0 references

Lars Nilse

13

0 references

Julianus Pfeuffer

14

0 references

Marc Rurik

16

0 references

Uwe Schmitt

17

0 references

Johannes Veit

18

0 references

Mathias Walzer

19

0 references

Witold E Wolski

21

0 references

Oliver Schilling

22

0 references

language of work or name

English

0 references

publication date

30 August 2016

0 references

published in

Nature Methods

0 references

volume

13

0 references

issue

9

0 references

page(s)

741-8

0 references

uses

OpenMS

1 reference

http://www.openms.de/publications/

An automated pipeline for high-throughput label-free quantitative proteomics

13 October 2017

cites work

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

mzML--a community standard for mass spectrometry data

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

The mzQuantML data standard for mass spectrometry-based quantitative studies in proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

The mzTab data exchange format: communicating mass-spectrometry-based proteomics and metabolomics experimental results to a wider audience

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

The mzIdentML data standard for mass spectrometry-based proteomics results

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

A guided tour of the Trans-Proteomic Pipeline

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

A cross-platform toolkit for mass spectrometry and proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

OpenMS - an open-source software framework for mass spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

PeptideShaker enables reanalysis of MS-derived proteomics data sets.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

PRIDE Inspector: a tool to visualize and validate MS proteomics data

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

SeqAn an efficient, generic C++ library for sequence analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

qcML: an exchange format for quality control metrics from mass spectrometry experiments

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

File formats commonly used in mass spectrometry proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

pyOpenMS: a Python-based interface to the OpenMS mass-spectrometry algorithm library

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

eMZed: an open source framework in Python for rapid and interactive development of LC/MS data analysis workflows

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Efficient visualization of high-throughput targeted proteomics experiments: TAPIR.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

TANDEM: matching proteins with tandem mass spectra

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

TOPPAS: a graphical workflow editor for the analysis of high-throughput proteomics data

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Workflows for automated downstream data analysis and visualization in large-scale computational mass spectrometry.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

ProteoWizard: open source software for rapid proteomics tools development

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Open mass spectrometry search algorithm

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Efficient marginalization to compute protein posterior probabilities from shotgun mass spectrometry data

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Automated label-free quantification of metabolites from liquid chromatography-mass spectrometry data

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Photo-cross-linking and high-resolution mass spectrometry for assignment of RNA-binding sites in RNA-binding proteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Probabilistic Consensus Scoring Improves Tandem Mass Spectrometry Peptide Identification

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Toward improved peptide feature detection in quantitative proteomics using stable isotope labeling

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Fast and Efficient XML Data Access for Next-Generation Mass Spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

MSSimulator: Simulation of mass spectrometry data.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Quantitative variability of 342 plasma proteins in a human twin population

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Formalin-Fixed, Paraffin-Embedded Tissues (FFPE) as a Robust Source for the Profiling of Native and Protease-Generated Protein Amino Termini.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Contribution of cathepsin L to secretome composition and cleavage pattern of mouse embryonic fibroblasts

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Improving GENCODE reference gene annotation using a high-stringency proteogenomics workflow

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

GENCODE: producing a reference annotation for ENCODE

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Expression Atlas update--an integrated database of gene and protein expression in humans, animals and plants.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

MSstats: an R package for statistical analysis of quantitative mass spectrometry-based proteomic experiments

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

aLFQ: an R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959

inferred from DOI database lookup

7 January 2021

based on heuristic

The Perseus computational platform for comprehensive analysis of (prote)omics data

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3959