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TranscriptomicsHost cell responses to persistent mycoplasmas--different stages in infection of HeLa cells with Mycoplasma hominis
M. hominis adherence, colonisation and invasion of HeLa cells were characterised in a time-course study using microarray-based analysis of the HeLa cell transcriptome: 0 h to monitor the baseline of transcription, 4 h to examine host reactions to mycoplasma attachment, 48 h to capture in addition th...
ORGANISM(S): Homo sapiens 
2014-02-06 | E-GEOD-54698 | biostudies-arrayexpress
ProteomicsMorpheus Spectral Counter - Morpheus spectral counter: a computational tool for label-free quantitative mass spectrometry using the morpheus search engine
Label-free quantitative mass spectrometry (MS) based on the Normalized Spectral Abundance Factor (NSAF) has emerged as a simple and reasonably robust method to determine the relative abundance of individual proteins within complex mixtures. Here, we describe Morpheus Spectral Counter (MSpC) as the ...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2016-02-24 | PXD003002 | Pride
Proteomics Morpheus Software Bioinformatics Spectral count Label-free quantification Lc-ms/ms 
TranscriptomicsEffects of Tdg deficiency on overall transcription in mouse embryonic fibroblasts and during cell differentiation
Because it excises thymine from GM-bM-^@M-"T mismatches, TDG was proposed to counter mutagenesis by 5-methylcytosine deamination. Yet, TDG was also observed to attack 5-methycytosine itself, making it a candidate DNA demethylase, and interactions with transcription factors implicated additional func...
ORGANISM(S): Mus musculus 
2011-01-31 | E-GEOD-20693 | biostudies-arrayexpress
TranscriptomicsChIP-chip of Spo14 and Mvp1
Genome-wide localization of two new RNA pol II interacting proteins. We use C-LYTAG to map binding sites of Spo14 and Mvp1 along the S. cerevisiae genome. Two biological replicates of each experiment were done. Keywords: ChIp-chip Two independent biological replicates of each IP. We used three macr...
ORGANISM(S): Saccharomyces cerevisiae 
2011-10-31 | E-GEOD-16905 | biostudies-arrayexpress
UnknownIntegration of DNA into bacterial chromosomes from plasmids without a counter-selection marker.
Not available
S-EPMC3333862 | biostudies-literature
TranscriptomicsTranscription profiling of mouse macrophages infected with Leishmania amazogensis amastigotes
L. amazonensis (LV79 strain, ref.: MPRO/BR/1972/M1841) amastigotes were added or not to BALB/c mouse bone marrow-derived macrophage cultures at a multiplicity of 4 per macrophage. Parasite-harboring macrophages (samples I1 and I2) and parasite-free ones (samples (UI1 and UI2) were cultured at 34M-0C...
ORGANISM(S): Mus musculus 
2009-01-01 | E-MEXP-1595 | biostudies-arrayexpress
UnknownThe murine Microenvironment Cell Population counter method to estimate abundance of tissue-infiltrating immune and stromal cell populations in murine samples using gene expression.
Not available
S-EPMC7541325 | biostudies-literature
GenomicsDynamic epigenetic enhancer signatures are predictive for key transcriptional regulators associated with cellular differentiation states
Cellular differentiation is orchestrated by lineage-specific transcription factors and associates with cell type-specific epigenetic signatures. Here, we utilized stage-specific, epigenetic "fingerprints" to deduce key transcriptional regulators of a cellular differentiation process. In th...
ORGANISM(S): Homo sapiens 
2012-05-02 | E-GEOD-31621 | biostudies-arrayexpress
TranscriptomicsTranscriptome-wide analyses of early immune responses in lumpfish leukocytes upon stimulation with poly(I:C)
Both bacterial and viral diseases are a major threat to farmed fish, as well as wild fish. As the antiviral immune mechanisms in lumpfish (Cyclopterus lumpus L.) are poorly understood, lumpfish leukocytes were stimulated with poly(I:C), a synthetic analog of virus dsRNA, and RNA sequencing was perfo...
ORGANISM(S): Cyclopterus lumpus 
2023-06-01 | E-MTAB-12884 | biostudies-arrayexpress
UnknownHidden sodium in effervescent-tablet dietary supplements and over-the-counter drugs: a comparative cross-sectional study.
Not available
S-EPMC10685933 | biostudies-literature
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