186 related articles for article (PubMed ID: 35503992)
1. MaxQuant and MSstats in Galaxy Enable Reproducible Cloud-Based Analysis of Quantitative Proteomics Experiments for Everyone.
Pinter N; Glätzer D; Fahrner M; Fröhlich K; Johnson J; Grüning BA; Warscheid B; Drepper F; Schilling O; Föll MC
J Proteome Res; 2022 Jun; 21(6):1558-1565. PubMed ID: 35503992
[TBL] [Abstract][Full Text] [Related]
2. Democratizing data-independent acquisition proteomics analysis on public cloud infrastructures via the Galaxy framework.
Fahrner M; Föll MC; Grüning BA; Bernt M; Röst H; Schilling O
Gigascience; 2022 Feb; 11():. PubMed ID: 35166338
[TBL] [Abstract][Full Text] [Related]
3. MSstatsShiny: A GUI for Versatile, Scalable, and Reproducible Statistical Analyses of Quantitative Proteomic Experiments.
Kohler D; Kaza M; Pasi C; Huang T; Staniak M; Mohandas D; Sabido E; Choi M; Vitek O
J Proteome Res; 2023 Feb; 22(2):551-556. PubMed ID: 36622173
[TBL] [Abstract][Full Text] [Related]
4. Accessible and reproducible mass spectrometry imaging data analysis in Galaxy.
Föll MC; Moritz L; Wollmann T; Stillger MN; Vockert N; Werner M; Bronsert P; Rohr K; Grüning BA; Schilling O
Gigascience; 2019 Dec; 8(12):. PubMed ID: 31816088
[TBL] [Abstract][Full Text] [Related]
5. MSstats: an R package for statistical analysis of quantitative mass spectrometry-based proteomic experiments.
Choi M; Chang CY; Clough T; Broudy D; Killeen T; MacLean B; Vitek O
Bioinformatics; 2014 Sep; 30(17):2524-6. PubMed ID: 24794931
[TBL] [Abstract][Full Text] [Related]
6. The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update.
Jalili V; Afgan E; Gu Q; Clements D; Blankenberg D; Goecks J; Taylor J; Nekrutenko A
Nucleic Acids Res; 2020 Jul; 48(W1):W395-W402. PubMed ID: 32479607
[TBL] [Abstract][Full Text] [Related]
7. Corra: Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics.
Brusniak MY; Bodenmiller B; Campbell D; Cooke K; Eddes J; Garbutt A; Lau H; Letarte S; Mueller LN; Sharma V; Vitek O; Zhang N; Aebersold R; Watts JD
BMC Bioinformatics; 2008 Dec; 9():542. PubMed ID: 19087345
[TBL] [Abstract][Full Text] [Related]
8. The MaxQuant computational platform for mass spectrometry-based shotgun proteomics.
Tyanova S; Temu T; Cox J
Nat Protoc; 2016 Dec; 11(12):2301-2319. PubMed ID: 27809316
[TBL] [Abstract][Full Text] [Related]
9. A Galaxy of informatics resources for MS-based proteomics.
Mehta S; Bernt M; Chambers M; Fahrner M; Föll MC; Gruening B; Horro C; Johnson JE; Loux V; Rajczewski AT; Schilling O; Vandenbrouck Y; Gustafsson OJR; Thang WCM; Hyde C; Price G; Jagtap PD; Griffin TJ
Expert Rev Proteomics; 2023; 20(11):251-266. PubMed ID: 37787106
[TBL] [Abstract][Full Text] [Related]
10. The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update.
Afgan E; Baker D; Batut B; van den Beek M; Bouvier D; Cech M; Chilton J; Clements D; Coraor N; Grüning BA; Guerler A; Hillman-Jackson J; Hiltemann S; Jalili V; Rasche H; Soranzo N; Goecks J; Taylor J; Nekrutenko A; Blankenberg D
Nucleic Acids Res; 2018 Jul; 46(W1):W537-W544. PubMed ID: 29790989
[TBL] [Abstract][Full Text] [Related]
11. MSstats Version 4.0: Statistical Analyses of Quantitative Mass Spectrometry-Based Proteomic Experiments with Chromatography-Based Quantification at Scale.
Kohler D; Staniak M; Tsai TH; Huang T; Shulman N; Bernhardt OM; MacLean BX; Nesvizhskii AI; Reiter L; Sabido E; Choi M; Vitek O
J Proteome Res; 2023 May; 22(5):1466-1482. PubMed ID: 37018319
[TBL] [Abstract][Full Text] [Related]
12. Experimental design and data-analysis in label-free quantitative LC/MS proteomics: A tutorial with MSqRob.
Goeminne LJE; Gevaert K; Clement L
J Proteomics; 2018 Jan; 171():23-36. PubMed ID: 28391044
[TBL] [Abstract][Full Text] [Related]
13. Scalable Data Analysis in Proteomics and Metabolomics Using BioContainers and Workflows Engines.
Perez-Riverol Y; Moreno P
Proteomics; 2020 May; 20(9):e1900147. PubMed ID: 31657527
[TBL] [Abstract][Full Text] [Related]
14. nf-encyclopedia: A Cloud-Ready Pipeline for Chromatogram Library Data-Independent Acquisition Proteomics Workflows.
Allen C; Meinl R; Paez JS; Searle BC; Just S; Pino LK; Fondrie WE
J Proteome Res; 2023 Aug; 22(8):2743-2749. PubMed ID: 37417926
[TBL] [Abstract][Full Text] [Related]
15. Wrangling Galaxy's reference data.
Blankenberg D; Johnson JE; ; Taylor J; Nekrutenko A
Bioinformatics; 2014 Jul; 30(13):1917-9. PubMed ID: 24585771
[TBL] [Abstract][Full Text] [Related]
16. Proteomics Quality Control: Quality Control Software for MaxQuant Results.
Bielow C; Mastrobuoni G; Kempa S
J Proteome Res; 2016 Mar; 15(3):777-87. PubMed ID: 26653327
[TBL] [Abstract][Full Text] [Related]
17. Laniakea: an open solution to provide Galaxy "on-demand" instances over heterogeneous cloud infrastructures.
Tangaro MA; Donvito G; Antonacci M; Chiara M; Mandreoli P; Pesole G; Zambelli F
Gigascience; 2020 Apr; 9(4):. PubMed ID: 32252069
[TBL] [Abstract][Full Text] [Related]
18. Galaxy-M: a Galaxy workflow for processing and analyzing direct infusion and liquid chromatography mass spectrometry-based metabolomics data.
Davidson RL; Weber RJ; Liu H; Sharma-Oates A; Viant MR
Gigascience; 2016; 5():10. PubMed ID: 26913198
[TBL] [Abstract][Full Text] [Related]
19. MSstatsTMT: Statistical Detection of Differentially Abundant Proteins in Experiments with Isobaric Labeling and Multiple Mixtures.
Huang T; Choi M; Tzouros M; Golling S; Pandya NJ; Banfai B; Dunkley T; Vitek O
Mol Cell Proteomics; 2020 Oct; 19(10):1706-1723. PubMed ID: 32680918
[TBL] [Abstract][Full Text] [Related]
20. The Galaxy Platform for Reproducible Affinity Proteomic Mass Spectrometry Data Analysis.
Stewart PA; Kuenzi BM; Mehta S; Kumar P; Johnson JE; Jagtap P; Griffin TJ; Haura EB
Methods Mol Biol; 2019; 1977():249-261. PubMed ID: 30980333
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
