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ProteomicsMapping the tRNA Modification Landscape of Bartonella henselae Houston I and Bartonella quintana Toulouse
Transfer RNA (tRNA) modifications play a crucial role in maintaining translational fidelity and efficiency, and they may function as regulatory elements in stress response and virulence. Despite their pivotal roles, a comprehensive mapping of tRNA modifications and their associated synthesis genes i...
ORGANISM(S): Bartonella henselae (strain ATCC 49882 / Houston 1) (Rochalimaea henselae) Bartonella quintana str. Toulouse 
2024-01-23 | PXD048805 | Pride
Trna modification Intracellular pathogens Mass spectrometry Next-generation sequencing. 
TranscriptomicsSystems Analysis of a RIG-I Agonist Inducing Broad Spectrum Inhibition of Virus Infectivity [comparison]
The RIG-I like receptor pathway is stimulated during RNA virus infection by interaction between cytosolic RIG-I and viral RNA structures that contain short hairpin dsRNA and 5M-bM-^@M-^Y triphosphate (5M-bM-^@M-^Yppp) terminal structure. In the present study, an RNA agonist of RIG-I was synthesized ...
ORGANISM(S): Homo sapiens 
2014-08-21 | E-GEOD-60572 | biostudies-arrayexpress
TranscriptomicsSystems Analysis of a RIG-I Agonist Inducing Broad Spectrum Inhibition of Virus Infectivity [Kinetic]
The RIG-I like receptor pathway is stimulated during RNA virus infection by interaction between cytosolic RIG-I and viral RNA structures that contain short hairpin dsRNA and 5M-bM-^@M-^Y triphosphate (5M-bM-^@M-^Yppp) terminal structure. In the present study, an RNA agonist of RIG-I was synthesized ...
ORGANISM(S): Homo sapiens 
2014-08-21 | E-GEOD-60573 | biostudies-arrayexpress
TranscriptomicsYeast D10 Small ~ WT San I
Transcriptional profiling of parental S. cerevisiae San I cells in comparison with its translocant derivative D10 Small strain. The latter strain was obtained using Bridge Induced translocation technique between DUR3 gene (Chromosome VIII) and ADH1 gene (Chromosome XV), and exhibited an abnormal phe...
ORGANISM(S): Saccharomyces cerevisiae 
2010-09-03 | E-GEOD-23966 | biostudies-arrayexpress
TranscriptomicsGenome-wide analysis of novel splice variants induced by topoisomerase I poisoning shows preferential occurrence in genes encoding splicing factors
Topoisomerase I (Top1) relaxes both positive and negative supercoilings by producing transient Top1 cleavage complexes (Top1cc). Several studies have suggested the implication of Top1 in splicing. Here, we tested the implication of Top1cc in splicing at the global genome level in human carcinoma cel...
ORGANISM(S): Homo sapiens 
2011-07-21 | E-GEOD-23677 | biostudies-arrayexpress
ProteomicsMycobacterium smegmatis respiratory Complex I
Data-dependent and -independent acquisition of tryptic peptides from Mycobacterium smegmatis respiratory Complex I preparation.
ORGANISM(S): Mycobacterium Smegmatis Str. Mc2 155 (ncbitaxon:246196) 
2022-08-30 | MSV000090235 | MassIVE
TranscriptomicsTreatment of myeloma cell lines with the bromodomain inhibitor I-BET151
KMS12BM and H929 myeloma cells were treated in vitro with either I-BET151 1uM or vehicle (DMSO) for 6 hours (n=3 independent experiments for each cell line). Total RNA was extracted from H929 and KMS12BM cells using the RNeasy Mini kit (Qiagen). Genomic DNA contamination was eliminated using colum...
ORGANISM(S): Homo sapiens 
2013-12-22 | E-MTAB-2122 | biostudies-arrayexpress
MetabolomicsMono-Locus and Pyramided Resistant Grapevine Cultivars Reveal Early Putative Biomarkers Upon Artificial Inoculation With Plasmopara viticola
One of the most economically important grapevine diseases is Downy mildew (DM) caused by the oomycete Plasmopara viticola. A strategy to reduce the use of fungicides to compensate for the high susceptibility of V. vinifera is the selection of grapevine varieties showing pathogen-specif...
2021-07-07 | MTBLS2876 | MetaboLights
ProteomicsHPLC-TIMS-TOF-MS of purified mitochondrial I+III2 supercomplex from Arabidopsis thaliana
Mitochondrial I+III2 supercomplex was purified from Arabidopsis thaliana cells using differential centrifugation including Percoll step gradients and continuous sucrose gradients. Supercomplex fractions were digested with trypsin using the SP3 approach. Peptides were further purified with SepPak car...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-12-30 | PXD036482 | Pride
Arabidopsis Supercomplex Mitochondria 
ProteomicsProteomic analyses of the wild-type Bordetella pertussis Tohama I strain and B. pertussis Tohama I-derived mutant strain JN1
In this study we analyzed and compared total proteome and secretome of the wild-type and JN1 mutant strains of Bordetella pertussis. The single-nucleotide transversion in the 5’-UTR of the rplN gene of JN1 mutant led to the increased transcription of the whole operon encoding ribosomal proteins and ...
ORGANISM(S): Homo sapiens (Human) Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251) 
2020-11-09 | PXD020023 | Pride
Macrophage Rpoa Bordetella pertussis 
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