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TranscriptomicsKnockdown of KSHV viral interferon-regulatory factor 3 (vIRF-3) in primary effusion lymphoma (PEL) cells by RNA-Interference
KaposiM-bM-^@M-^Ys sarcoma-associated hepesvirus (KSHV) encodes four genes with homology to human interferon regulatory factors (IRFs). One of these IRFs, the viral interferon regulatory factor 3 (vIRF-3) is expressed in latently infected PEL cells and required for their continuous proliferation. Mo...
ORGANISM(S): Homo sapiens 
2011-01-19 | E-GEOD-26661 | biostudies-arrayexpress
MetabolomicsComparative analysis of the adaptation of Staphylococcus aureus to internalization by different types of human non-professional phagocytic host cells (NMR assay)
Staphylococcus aureus is a human pathogen that can cause a wide range of diseases. Although formerly regarded as extracellular pathogen, it has been shown that S. aureus can also be internalized by host cells and persist within these cells. In the present study, we comparatively analyzed survival an...
2015-07-01 | MTBLS102 | MetaboLights
ProteomicsA global Staphylococcus aureus proteome resource applied to the in vivo characterization of host- pathogen interactions
1. DDA dataset used for Staphylococcus aureus HG001 PeptideAtlas build (https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/buildDetails?atlas_build_id=435) 2. DIA and DDA dataset for the quantitative analyses of the publication (in the update section)
ORGANISM(S): Staphylococcus Aureus Subsp. Aureus Nctc 8325 (ncbitaxon:93061) Homo Sapiens (ncbitaxon:9606) 
2018-06-21 | MSV000082483 | MassIVE
ProteomicsAnalysis of secreted S. aureus proteins after isolation of phagosomes from infected human epithelial cells
Bacteria such as Staphylococcus aureus are generally engulfed by the host with a membrane when internalized by non-professional phagocytic host cells. These vacuoles then mature to phagosomes which can fuse with lysosomes enabling killing and digestion of the pathogen. Former proteome approaches enr...
ORGANISM(S): Homo sapiens (Human) Staphylococcus aureus 
2018-06-29 | PXD007885 | Pride
Host-pathogen-interaction Phagosomes Staphylococcus aureus Quantitative proteomics Single reaction monitoring (srm) Virulence factors 
ProteomicsShotgun proteomic analysis of Bordetella pertussis response to iron availability
B. pertussis Tohama I was cultivated in iron-depleted or iron-repleted medium in order to monitor proteins which are influence by iron supply. More than 200 proteins displayed increased or decreased levels. Proteins involved in iron acquisition, biofilm production and oxidative stress response were ...
ORGANISM(S): Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251) 
2015-03-16 | PXD001280 | Pride
Shotgun proteomics Iron limitation B. pertussis 
TranscriptomicsExpression data from Pseudomonas putida KT2440 (RNA-Seq data)
We used cDNA generated from total mRNA for RNA-Seq analysis (Genome Analyzer II at GATC Biotech AG) to monitore the gene expression of P. putida after a cold shock from 30M-BM-0C to 10M-BM-0C Culture was grown in minimal medium supplemented with succinate at 30M-BM-0C. In mid-exp. phase cells were ...
ORGANISM(S): Pseudomonas putida KT2440 
2011-02-01 | E-GEOD-24175 | biostudies-arrayexpress
ProteomicsStaphylococcus aureus HG001 - A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies
Staphylococcus aureus HG001, detection of staphyococcal proteins; bacteria cultivated in TSB; samples mix of exponential, stationary (t0) and post-stationary (t4) growth
ORGANISM(S): Staphylococcus aureus 
2015-07-31 | PXD000702 | Pride
Q exactive Staphylococcus aureus hg001 
GenomicsIdentification of in vivo binding sites of human C2H2-ZF proteins
The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs), each of which typically binds a DNA nucleotide triplet within a larger binding site. Frequent recombination and diversification of their DNA-contacting residues suggests that these zinc ...
ORGANISM(S): synthetic construct 
2015-02-17 | E-GEOD-58341 | biostudies-arrayexpress
GenomicsIdentification of in vivo binding sites of human GFP-tagged C2H2-ZF proteins
The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs), each of which typically binds a DNA nucleotide triplet within a larger binding site. Frequent recombination and diversification of their DNA-contacting residues suggests that these zinc ...
ORGANISM(S): Homo sapiens 
2016-10-25 | E-GEOD-76494 | biostudies-arrayexpress
ProteomicsComparative analysis of the adaptation of Staphylococcus aureus to internalization by different types of human non-professional phagocytic host cells
We comparatively analyzed survival and physiological adaptation of S. aureus HG001 to two human lung epithelial cell lines (S9 and A549), and human embryonic kidney cells (HEK 293). Combining enrichment of bacteria from host-pathogen assays by cell sorting and quantitation of the pathogen´s proteome...
ORGANISM(S): Staphylococcus aureus 
2014-09-01 | PXD001003 | Pride
Cell culture infection model Bacterial adaptation to internalization in host cells Q exactive Staphylococcus aureus hg001 
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