ProteoRE ProteomeAnnotation Tutorial (release 2.0)
4.0

Workflow Type: Galaxy

Annotating a protein list identified by LC-MS/MS experiments

Associated Tutorial

This workflows is part of the tutorial ProteoRE ProteomeAnnotation Tutorial (release 2.0), available in the GTN

Thanks to...

Tutorial Author(s): Valentin Loux, Florence Combes, David Christiany, Yves Vandenbrouck

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
Bredberg.txt Bredberg.txt n/a
  • File
Lacombe_et_al_2017.txt Lacombe_et_al_2017.txt n/a
  • File
Mucilli.txt Mucilli.txt n/a
  • File

Steps

ID Name Description
10 View proteins on Reactome maps toolshed.g2.bx.psu.edu/repos/proteore/proteore_reactome/reactome_analysis/2018.12.12
11 GO terms classification and enrichment analysis toolshed.g2.bx.psu.edu/repos/proteore/proteore_clusterprofiler/cluter_profiler/2019.02.18
3 Build a lung proteome (as a background ) toolshed.g2.bx.psu.edu/repos/proteore/proteore_tissue_specific_expression_data/retrieve_from_hpa/2019.02.27
4 Filter technical contaminants toolshed.g2.bx.psu.edu/repos/proteore/proteore_filter_keywords_values/MQoutputfilter/2019.03.11
5 ID Converter toolshed.g2.bx.psu.edu/repos/proteore/proteore_id_converter/IDconverter/2019.03.07
6 ID mapping UniProt <-> ENSG ID toolshed.g2.bx.psu.edu/repos/proteore/proteore_id_converter/IDconverter/2019.03.07
7 MS/MS datasets comparison toolshed.g2.bx.psu.edu/repos/proteore/proteore_venn_diagram/Jvenn/2019.02.21
8 Add expression data toolshed.g2.bx.psu.edu/repos/proteore/proteore_expression_rnaseq_abbased/rna_abbased_data/2019.03.07
9 Filter biological contaminants toolshed.g2.bx.psu.edu/repos/proteore/proteore_filter_keywords_values/MQoutputfilter/2019.03.11

Version History

4.0 (earliest) Created 25th Jun 2024 at 11:10 by Helena Rasche

Added/updated 4 files


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Views: 273   Downloads: 74

Created: 25th Jun 2024 at 11:10

Last updated: 25th Jun 2024 at 11:10

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