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ProteomicsQuantitative proteomic analysis of HIV-1 Tat-induced dysregulation in SH-SY5Y neuroblastoma cells
Despite affecting up to 70% of HIV+ patients and being the leading cause of dementia in patients under 40 years, the molecular mechanisms involved in the onset of HAND are not well understood. To address this, we performed SILAC-based quantitative proteomic analysis on HIV-Tat treated SH-SY5Y neurob...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2019-03-18 | MSV000083590 | MassIVE
ProteomicsProteogenomic analysis of Mycobacterium smegmatis using high resolution mass spectrometry
Biochemical evidence is vital for accurate genome annotation. The integration of experimental data collected at the proteome level using high resolution mass spectrometry allows for improvements in genome annotation by providing evidence for novel gene models, while validating or modifying others. ...
ORGANISM(S): Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) 
2016-03-31 | PXD003500 | Pride
Mass spectrometry Genome annotation Mycobacterium smegmatis Proteogenomics Proteomics 
ProteomicsProteomic Time-Course Investigation into the Effects of Exposure of Mycobacterium smegmatis to Sub-Lethal Dose of Rifampicin
Drug susceptible Mycobacterium smegmatis (Mc2-155) was exposed to a sub-MIC concentration of antimycobacterial drug Rifampicin (treated) or DMSO (control). Cells were harvested at 30, 255 and 300 minutes post-exposure and the proteome at each time analysed using LC-MS/MS on a Thermo Q-Exactive.
ORGANISM(S): Mycobacterium Smegmatis Str. Mc2 155 (ncbitaxon:246196) 
2019-03-18 | MSV000083589 | MassIVE
ProteomicsMass spectrometry-based analysis of Mycobacterial single-colony proteome
Here as an attempt to explore bacterial single-colony proteomics, we describe a quantitative mass spectrometry-based protocol to isolate and analyse the proteome of a single mycobacterial colony from 7H10 media. Tryptic peptides are evaluated with high performance liquid chromatography coupled with ...
ORGANISM(S): Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) 
2021-03-11 | PXD018168 | Pride
Protein extraction Mycobacteria Bacterial proteome Mass spectrometry Single-colony Proteomics 
ProteomicsComparison between the proteome of Escherichia coli single colony and during liquid culture
Most of the proteomic studies done so far uses bacterial cells harvested from liquid culture media. However it is widely accepted that many important determinants associated with virulence and host cell adhesion are exclusively expressed during growth on solid media. As an attempt to complement prev...
ORGANISM(S): Escherichia coli 
2021-09-09 | PXD019140 | Pride
Protein extraction Bacterial proteome Ecoli Mass spectrometry Single-colony Proteomics 
ProteomicsQuantitative proteomic analysis of HIV-1 Tat-induced dysregulation in SH-SY5Y neuroblastoma cells
Despite affecting up to 70% of HIV+ patients and being the leading cause of dementia in patients under 40 years, the molecular mechanisms involved in the onset of HAND are not well understood. To address this, we performed SILAC-based quantitative proteomic analysis on HIV-Tat treated SH-SY5Y neurob...
ORGANISM(S): Homo sapiens (Human) 
2017-01-24 | PXD004241 | Pride
Proteomics Neuroblastoma Network analysis 
ProteomicsAssociating H2O2 and NO related changes in the proteome of Mycobacterium smegmatis with enhanced survival in macrophages
In this study, we used mass spectrometry-based discovery proteomic analysis to examine the cell-wide changes of Mycobacterium smegmatis, in response to sub-lethal concentrations of H2O2 and nitric oxide (NO) over time. Preliminary results have shown that sub-lethal concentrations of reactive oxyge...
ORGANISM(S): Mycobacterium smegmatis 
2019-11-12 | PXD010020 | Pride
No Sub-lethal concentrations Signalling Ros H2o2 Mycobacterium Proteomics 
ProteomicsPhosphoproteomics reveals alternative roles of PknG in mycobacterial pathogenesis
Pathogenic mycobacteria, such as Mycobacterium tuberculosis, modulate the host immune system to evade clearance and promote long-term persistence, resulting in disease progression or latent infection. Understanding the mechanisms pathogenic mycobacteria use to evade the host immune system is critica...
ORGANISM(S): Mus musculus (Mouse) Mycobacterium tuberculosis 
2025-11-17 | PXD031055 | Pride
Phosphoproteomics Mycobacterium tuberculosis Substrate identification Serine/threonine protein kinases Post-translational modifications Mass spectrometry Phosphorylation 
ProteomicsProteogenomic Identification and Validation of Key Differentially Expressed Molecular Targets for Keloid Disease
The study incorporated 5 keloid disease (KD) and 5 normal skin (NS) samples, and due to challenges in obtaining primary samples, we had a sample size of 3 biological replicates for FKN, 3 for DFSP made up of 2 primary cells and 1 cell line, and 2 Fibrosarcoma cell lines FS-CL-1 (HT-1080 [HT1080], C...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-01-29 | MSV000091168 | MassIVE
ProteomicsCell wall enrichment unveils proteomic changes in the cell wall during treatment of Mycobacterium smegmatis with sub-lethal concentrations of Rifampicin
In this study, we successfully developed two gel-free approaches to specifically look at cell wall proteins in Mycobacterium smegmatis. The cell wall was subjected to differential centrifugation, differential detergent solubilisation and phase separation to yield the genuine cell wall proteome. The ...
ORGANISM(S): Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) 
2019-04-09 | PXD008075 | Pride
Cell wall proteomics Mycobacteria Mass spectrometry Rifampicin Tb drugs Tb Sub lethal 
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