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

By Stefka Tyanova, Tikira Temu, Pavel Sinitcyn, Arthur Carlson, Marco Y. Hein, T. Geiger, Matthias Mann, Jüergen Cox. Nature Methods, 2016

7,439 citations recorded by the source corpus.

Subfields: Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/6714ee3b9ee10016511ee6f458c85c2f07f4e4d7

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Molecular Biology

In Spectroscopy

Citations in the corpus

A structural inventory of native ribosomal ABCE1‐43S pre‐initiation complexes (2020, positive): “Bioinformatic analysis of the MaxQuant/Andromeda work-flow output and the analysis of the abundances of the identified proteins were performed with the Perseus module (Tyanova et al , 2016) version 1.6.10.43.”
The MaxQuant computational platform for mass spectrometry-based shotgun proteomics (2016, methodology): “MaxQuant is complemented by the freely available Perseus software 29 (http://www.perseus-framework.org).”
Online Parallel Accumulation–Serial Fragmentation (PASEF) with a Novel Trapped Ion Mobility Mass Spectrometer (2018, neutral): “Bioinformatic analysis and visualization was performed in either Python (Jupyter Notebook), Perseus (40) (v1.”
OpenMS: a flexible open-source software platform for mass spectrometry data analysis (2016, methodology): “The OpenMS project is one of several software solutions addressing the computational challenges of MS-based proteomics, each contributing in different areas such as protein inference, peptide database search and file conversion 6,7,22,23 .”
Bifidobacteria or fiber protect against diet-induced microbiota-mediated colonic mucus deterioration (2017, methodology): “For principal component analysis default parameters were used (Tyanova et al., 2016).”
Zc3h13/Flacc is required for adenosine methylation by bridging the mRNA-binding factor Rbm15/Spenito to the m6A machinery component Wtap/Fl(2)d (2018, methodology): “Statistical analysis was done in Perseus (version 1.5.2.6) (Cox et al. 2011, 2014; Tyanova et al. 2016).”