https://github.com/bmascat/lfq-proteomics-pipeline
All code, bash scrypts and pipelines used to analyse and visualise proteomic data from my experiments with my first Crispr KO model.
Science Score: 26.0%
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All code, bash scrypts and pipelines used to analyse and visualise proteomic data from my experiments with my first Crispr KO model.
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README.md
Proteomic analysis of CRISPR Hela KO Alms1 after TGF-B stimulation
All code and pipelines used to analyze and visualize proteomic data from my experiments with my first Crispr KO model
Differenticial expression analysis was performed with DEP package:
Zhang X, Smits A, van Tilburg G, Ovaa H, Huber W, Vermeulen M (2018). “Proteome-wide identification of ubiquitin interactions using UbIA-MS.” Nature Protocols, 13, 530–550.
Go-Terms analysis and data results visualizations was performed with Clusterprofiler and GOplot packages to R:
Yu G, Wang L, Han Y, He Q (2012). “clusterProfiler: an R package for comparing biological themes among gene clusters.” OMICS: A Journal of Integrative Biology, 16(5), 284-287. doi: 10.1089/omi.2011.0118.
Walter, Wencke, Fátima Sánchez-Cabo, and Mercedes Ricote. "GOplot: an R package for visually combining expression data with functional analysis." Bioinformatics (2015): btv300.
Owner
- Name: Brais
- Login: bmascat
- Kind: user
- Repositories: 2
- Profile: https://github.com/bmascat
Data science, bioinformatics and software development
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