https://github.com/benjaminjack/phage_attenuation

Gene expression analysis of wild-type and attenuated bacteriophage T7
https://github.com/benjaminjack/phage_attenuation

Last synced: 2 months ago
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Gene expression analysis of wild-type and attenuated bacteriophage T7

• Host: GitHub
• URL: https://github.com/benjaminjack/phage_attenuation
• Owner: benjaminjack
• Created: 2015-09-18T18:48:30.000Z (over 9 years ago)
• Default Branch: master
• Last Pushed: 2018-06-28T21:40:37.000Z (almost 7 years ago)
• Last Synced: 2025-01-25T13:44:38.035Z (4 months ago)
• Language: HTML
• Homepage: https://doi.org/10.1534/g3.117.041020
• Size: 102 MB
• Stars: 1
• Watchers: 1
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.txt

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README

        
The scripts and data in this repository correspond to the following publication:

BR Jack, DR Boutz, ML Paff, BL Smith, JJ Bull, CO Wilke (2017). Reduced protein expression in a virus attenuated by codon deoptimization. G3 (Bethesda). DOI: 10.1534/g3.117.041020 

Raw data is not available in this repository. Please see the GEO database (ID: GSE96573) and ProteomeXchange Consortium via the PRIDE partner repository (ID: PXD006502) to access the raw data.

data/ - all post-processed data

figures/ - figures that appear in publication in PDF format

rmarkdown/ - proteomics and rna-seq analyses and plots

scripts/ - R and python scripts for data processing and some plots