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Hours: 1338.40

Project Date User Activity Issue Comment Hours
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 06/24/2019 Jon Ambler Development Support #92: Differential expression analysis Sample gene counts need to be merged 6.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 06/19/2019 Jon Ambler Analysis Support #81: Full run on ilifu of RNA seq pipeline 1.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 06/18/2019 Jon Ambler Analysis Support #90: QC of aligned reads Initial overview 2.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 06/18/2019 Jon Ambler Analysis Support #81: Full run on ilifu of RNA seq pipeline Multiple parameters had to be changed with the genebody_coverage process taking a long time to run. 8.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 06/05/2019 Thys Potgieter Development Support #86: Analyze keloid proteomics data with mqmetaproteomics pipeline on ilifu Failing unit tests for mqmetaproteomics fixed 2.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 06/04/2019 Thys Potgieter Development Support #86: Analyze keloid proteomics data with mqmetaproteomics pipeline on ilifu Modifications to docker container so that it will run with singularity, git README added: https://github.com/uct-cbio/proteomics-pipelines/blob/master/singularity/mqmetaproteomics/README.md 3.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 06/01/2019 Thys Potgieter Development Support #86: Analyze keloid proteomics data with mqmetaproteomics pipeline on ilifu docker container pushed to https://cloud.docker.com/repository/docker/thyscbio/mqmetaproteomics, interpro data downloading to ilifu, singularity configuration in progress 1.00 Actions
Pathogen outbreak study - Pseudomonas single isolate WGS 05/31/2019 Katie Lennard Analysis Up until 31/5/2019 104.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/31/2019 Thys Potgieter Analysis Support #85: MaxQuant run of raw proteomics data MaxQuant run configured and started 1.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/21/2019 Thys Potgieter Analysis Support #82: Preliminary analysis of Proteome identification data Slides created of analysis results 4.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/20/2019 Thys Potgieter Analysis Support #82: Preliminary analysis of Proteome identification data Differential abuadance analysis and gene set enrichment scripts modified for CPGR protein identification data, output obrtained 6.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/17/2019 Thys Potgieter Analysis Support #82: Preliminary analysis of Proteome identification data GO / KEGG Term mapping from UniProt downloaded, gene sets exported in R. 4.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/15/2019 Jon Ambler Sysadmin Support #80: Renaming all files according to the experiments 0.50 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/14/2019 Jon Ambler Sysadmin Support #80: Renaming all files according to the experiments 2.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/14/2019 Thys Potgieter Analysis Support #78: Proteomics raw data uploaded to Blackburn Lab researchdata Data uploaded to blacburn lab research drive: /mnt/researchdata/2019/Collaborations/Thys/keloid/ 2.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/13/2019 Jon Ambler Analysis Support #79: Uploading new data from BGI 1.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/13/2019 Jon Ambler Investigation Support #77: Testing pipeline on subset of data 2.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/09/2019 Jon Ambler Sysadmin Support #79: Uploading new data from BGI 1.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/09/2019 Jon Ambler Analysis Support #77: Testing pipeline on subset of data 6.00 Actions
Infant stool metaproteome analysis 05/09/2019 Thys Potgieter Analysis Support #75: Taxonomic profiling using BLAST of identified proteins and peptides BLAST Runs completed on CHCP, data transferred to "/mnt/researchdata/BLACKBURNLAB/2019/Collaborations/Thys/Suereta - birth + proteins for birth and day 4/7, uploaded separetly + taxonomic ranking 6.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 05/03/2019 Jon Ambler Sysadmin Support #74: Uploading of data 1.00 Actions
A proteogenomic analysis of 2 differentially virulent strains of Mycobacterium tuberculosis 04/29/2019 Thys Potgieter Analysis #76 Condition level comparisons added to paper 2.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 04/29/2019 Jon Ambler Analysis Support #74: Uploading of data 0.10 Actions
Infant stool metaproteome analysis 04/26/2019 Thys Potgieter Analysis Support #75: Taxonomic profiling using BLAST of identified proteins and peptides Proteins, and Peptide fasta exported for 2 MQ runs. BLAST runs set up on CHPC and in progress. 6.00 Actions
Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 04/25/2019 Jon Ambler Meeting Support #73: Initial meeting 1.00 Actions
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